Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: NW_019168193.1 Durio zibethinus cultivar Musang King isolate D1 unplaced genomic scaffold, Duzib1.0 scaffold_43, whole genome shotgun sequence
Parameters: 2 7 7 80 10 50 1000
Pmatch=0.80,Pindel=0.10
tuple sizes 0,4,5,7
tuple distances 0, 29, 159, 1000
Length: 234249
ACGTcount: A:0.42, C:0.08, G:0.08, T:0.42
Warning! 1000 characters in sequence are not A, C, G, or T
File 1 of 6
Found at i:892 original size:158 final size:158
Alignment explanation
Indices: 581--876 Score: 354
Period size: 158 Copynumber: 1.9 Consensus size: 158
571 GTTGTTTAAG
*
581 TTCATATAAGCTTATTCAAAATAAAATAATACTAATTTATTAATAATCCAAAAATTAATAATAAA
1 TTCATATAAGCTTATTCAAAATAAAATAATACAAATTTATTAATAATCCAAAAATTAATAATAAA
* * * * *
646 GAGATTTAAAAAATGACTTTGTTTACTAAACAAAATTAAATAATTAGGACTGTTTGAATAATTAT
66 GAGATTTAAAAAATAAATCTGTTTACCAAACAAAATTAAATAATTAGGACTATTTGAATAATTAT
*
711 CTATTTGAAATAGCTATAATTTTTTCTA
131 CTATTTCAAATAGCTATAATTTTTTCTA
* *
739 TTCATCTAAGCTTATTTC-AAATAAAATAATACAAATTTATTAAT-AT-TAAAGCAATTAATAAG
1 TTCATATAAGCTTA-TTCAAAATAAAATAATACAAATTTATTAATAATCCAAA--AATTAATAA-
* * * * *
801 TAGA-AGATTT-AAAAATAAATCTGTTTACCAAAC-AAGTTCTAATCATTATGG-CTATTTGAGT
62 TAAAGAGATTTAAAAAATAAATCTGTTTACCAAACAAAATT-AAATAATTA-GGACTATTTGAAT
*
862 AATTATTTATTTCAA
125 AATTATCTATTTCAA
877 CATATTATGA
Statistics
Matches: 117, Mismatches: 15, Indels: 13
0.81 0.10 0.09
Matches are distributed among these distances:
156 7 0.06
157 49 0.42
158 55 0.47
159 6 0.05
ACGTcount: A:0.45, C:0.09, G:0.07, T:0.39
Consensus pattern (158 bp):
TTCATATAAGCTTATTCAAAATAAAATAATACAAATTTATTAATAATCCAAAAATTAATAATAAA
GAGATTTAAAAAATAAATCTGTTTACCAAACAAAATTAAATAATTAGGACTATTTGAATAATTAT
CTATTTCAAATAGCTATAATTTTTTCTA
Found at i:1149 original size:185 final size:181
Alignment explanation
Indices: 728--1424 Score: 662
Period size: 180 Copynumber: 3.8 Consensus size: 181
718 AAATAGCTAT
* * **
728 AATTTTTTCTATTCAT-CTAAGCTTATTTCAAATAAAATAATACAAATTTATTAATA-TT-AAAG
1 AATTGTTTCTATTCATAC-AAGCTTATTT-GAATAAAATAATATTAATTTATTAATATTTCAAA-
* * * * *
790 CAATTAATAAGTAGAAGATTT-AAAAATAAATCTGTTTACCAAACAAGTTCTAATCA-TTATGGC
63 -AATTAATAAGTAAAAGATTTAAAAAATAAATATGTTTACTAAACAAGTTCAAAT-AGTTATGAC
* * * *
853 TATTTGAGTAATTATTTATTTCAACAT-ATTATGA-TTTTTTGTTTTGTCATAAAAT
126 TATTTGAATAATTATCTATTTCAA-ATCATTATGACCTTTTTGTTTTGTCATAAAAC
* * ** * ** *
908 AATTTTTTCTATTCATACAAGTTTATTCAAATTAAAATAATATTAATTAATTAATATTTTGACAA
1 AATTGTTTCTATTCATACAAGCTTATTTGAA-TAAAATAATATTAATTTATTAATATTTCAAAAA
* * * * *
973 TTAATAAGTAAAAGATTTAAAAAATAAATATATTTACAAAACAAGTTCAAATAGTCATTAATATT
65 TTAATAAGTAAAAGATTTAAAAAATAAATATGTTTACTAAACAAGTTCAAATAGTTATGACTATT
* * * *
1038 TCAATAATTTATCTATTTCAAATCATTATGGACCATTTTTCTTTTCTAATAAAAC
130 TGAATAA-TTATCTATTTCAAATCATTAT-GACC-TTTTTGTTTTGTCATAAAAC
* * * * *
1093 ACTTGTTTCAATTCATATAAGCTTATTTGAAGTAAGATAATATTAATTTATTAATATTCCAAAAA
1 AATTGTTTCTATTCATACAAGCTTATTTGAA-TAAAATAATATTAATTTATTAATATTTCAAAAA
* * * * * * * *
1158 ATAATGAGTGAGAGAATTAAAAAA-AGAATATGTTTACTGAATAAATTCAAATAGTTATGACTAT
65 TTAATAAGTAAAAGATTTAAAAAATA-AATATGTTTACTAAACAAGTTCAAATAGTTATGACTAT
* * * *
1222 CTAAACAATTATCTATTTCAAAACATTATGACC-TTTTGTTTTGTCATAAAAC
129 TTGAATAATTATCTATTTCAAATCATTATGACCTTTTTGTTTTGTCATAAAAC
* * *
1274 AATTGGCTT-TGTTCATGCAAGCTTATTTTGAATAAAATAAT-TTAAATTTATTAATATTTCAAA
1 AATT-GTTTCTATTCATACAAGCTTA-TTTGAATAAAATAATATT-AATTTATTAATATTTCAAA
* * * * *
1337 AATTAATAAGTGAAA-TTTTAAAAAAGAAATATGTTTTCTAAACACGTTCAAATAGTTATGACTA
63 AATTAATAAGTAAAAGATTTAAAAAATAAATATGTTTACTAAACAAGTTCAAATAGTTATGACTA
* *
1401 TTTGAAGAATTAACTATTTCAAAT
128 TTTGAATAATTATCTATTTCAAAT
1425 TATTTTTGGT
Statistics
Matches: 420, Mismatches: 81, Indels: 32
0.79 0.15 0.06
Matches are distributed among these distances:
179 3 0.01
180 126 0.30
181 116 0.28
182 27 0.06
183 6 0.01
184 21 0.05
185 121 0.29
ACGTcount: A:0.42, C:0.09, G:0.08, T:0.40
Consensus pattern (181 bp):
AATTGTTTCTATTCATACAAGCTTATTTGAATAAAATAATATTAATTTATTAATATTTCAAAAAT
TAATAAGTAAAAGATTTAAAAAATAAATATGTTTACTAAACAAGTTCAAATAGTTATGACTATTT
GAATAATTATCTATTTCAAATCATTATGACCTTTTTGTTTTGTCATAAAAC
Found at i:1397 original size:180 final size:179
Alignment explanation
Indices: 737--1423 Score: 597
Period size: 181 Copynumber: 3.8 Consensus size: 179
727 TAATTTTTTC
**
737 TATTCAT-CTAAGCTTATTTCAAA-TAAAATAATACAAATTTATTAATA-TT-AAAGCAATTAAT
1 TATTCATAC-AAGCTTA-TTCAAAGTAAAATAATATTAATTTATTAATATTTCAAA--AATTAAT
* * * * *
798 AAGTAGAAG-ATTT-AAAAATAAATCTGTTTACCAAACAAGTTCTAATCA-TTATGGCTATTTGA
62 AAGT-GAAGAATTTAAAAAAGAAATATGTTTACTAAACAAGTTCAAAT-AGTTATGACTATTTGA
* * * * ** * *
860 GTAATTATTTATTTCAACATATTATGATTTTTTGTTTTGTCATAAAATAATTTTTT
125 ATAATTATCTATTTCAAAACATTATGACCTTTTGTTTTGTCATAAAACAA-TTGTT
* * * ** *
916 CTATTCATACAAGTTTATTCAAATTAAAATAATATTAATTAATTAATATTTTGACAATTAATAAG
1 -TATTCATACAAGCTTATTCAAAGTAAAATAATATTAATTTATTAATATTTCAAAAATTAATAAG
* * * * * * * *
981 T-AAAAGATTTAAAAAATAAATATATTTACAAAACAAGTTCAAATAGTCATTAATATTTCAATAA
65 TGAAGA-ATTTAAAAAAGAAATATGTTTACTAAACAAGTTCAAATAGTTATGACTATTTGAATAA
* * * * *
1045 TTTATCTATTTCAAATCATTATGGACCATTTTTCTTTTCTAATAAAACACTTGTT
129 -TTATCTATTTCAAAACATTAT-GACC--TTTTGTTTTGTCATAAAACAATTGTT
* ** * * * *
1100 TCAATTCATATAAGCTTATTTGAAGTAAGATAATATTAATTTATTAATATTCCAAAAAATAATGA
1 T--ATTCATACAAGCTTATTCAAAGTAAAATAATATTAATTTATTAATATTTCAAAAATTAATAA
* * * * * * *
1165 GTGAGAGAATTAAAAAAAG-AATATGTTTACTGAATAAATTCAAATAGTTATGACTATCTAAACA
64 GTGA-AGAATTTAAAAAAGAAATATGTTTACTAAACAAGTTCAAATAGTTATGACTATTTGAATA
1229 ATTATCTATTTCAAAACATTATGACCTTTTGTTTTGTCATAAAACAATTGGCTT
128 ATTATCTATTTCAAAACATTATGACCTTTTGTTTTGTCATAAAACAATT-G-TT
* * **
1283 TGTTCATGCAAGCTTATTTTGAA-TAAAATAAT-TTAAATTTATTAATATTTCAAAAATTAATAA
1 TATTCATACAAGCTTA-TTCAAAGTAAAATAATATT-AATTTATTAATATTTCAAAAATTAATAA
* * * *
1346 GTGAA-ATTTTAAAAAAGAAATATGTTTTCTAAACACGTTCAAATAGTTATGACTATTTGAAGAA
64 GTGAAGAATTTAAAAAAGAAATATGTTTACTAAACAAGTTCAAATAGTTATGACTATTTGAATAA
*
1410 TTAACTATTTCAAA
129 TTATCTATTTCAAA
1424 TTATTTTTGG
Statistics
Matches: 407, Mismatches: 79, Indels: 42
0.77 0.15 0.08
Matches are distributed among these distances:
178 2 0.00
179 16 0.04
180 104 0.26
181 112 0.28
182 25 0.06
183 10 0.02
184 24 0.06
185 102 0.25
186 10 0.02
187 2 0.00
ACGTcount: A:0.43, C:0.09, G:0.08, T:0.40
Consensus pattern (179 bp):
TATTCATACAAGCTTATTCAAAGTAAAATAATATTAATTTATTAATATTTCAAAAATTAATAAGT
GAAGAATTTAAAAAAGAAATATGTTTACTAAACAAGTTCAAATAGTTATGACTATTTGAATAATT
ATCTATTTCAAAACATTATGACCTTTTGTTTTGTCATAAAACAATTGTT
Found at i:1988 original size:23 final size:23
Alignment explanation
Indices: 1945--1989 Score: 63
Period size: 23 Copynumber: 2.0 Consensus size: 23
1935 TATTCTATTA
**
1945 TAATTATAATAAATATTAATAAT
1 TAATTATAATAAATACAAATAAT
*
1968 TAATTATAATTAATACAAATAA
1 TAATTATAATAAATACAAATAA
1990 ATCTCTTACT
Statistics
Matches: 19, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
23 19 1.00
ACGTcount: A:0.58, C:0.02, G:0.00, T:0.40
Consensus pattern (23 bp):
TAATTATAATAAATACAAATAAT
Found at i:2527 original size:16 final size:16
Alignment explanation
Indices: 2465--2533 Score: 57
Period size: 16 Copynumber: 4.1 Consensus size: 16
2455 ATTATTAAAA
* *
2465 TTAAATAAAATAATAT
1 TTAAATAAATTATTAT
* *
2481 TTAAAATAAATAATTTT
1 TT-AAATAAATTATTAT
*
2498 ATTAATCATGAATTATTAT
1 -TTAA--ATAAATTATTAT
2517 TTAAATAAATTATTAT
1 TTAAATAAATTATTAT
2533 T
1 T
2534 ATCTTTATTT
Statistics
Matches: 41, Mismatches: 8, Indels: 8
0.72 0.14 0.14
Matches are distributed among these distances:
16 14 0.34
17 12 0.29
18 6 0.15
19 9 0.22
ACGTcount: A:0.51, C:0.01, G:0.01, T:0.46
Consensus pattern (16 bp):
TTAAATAAATTATTAT
Found at i:2652 original size:42 final size:42
Alignment explanation
Indices: 2598--2698 Score: 95
Period size: 42 Copynumber: 2.4 Consensus size: 42
2588 ATATTTAATA
* *
2598 ATATT-ATAATAATATTGAATTATTATTAATTCAA-T-ATTATG
1 ATATTAATTATAATATTG-ATTA-TAATAATTCAATTGATTATG
*
2639 ATATTAATTATAATCA-TGATTATAATAATTTAATTTGATTATG
1 ATATTAATTATAAT-ATTGATTATAATAATTCAA-TTGATTATG
2682 -TATTAATTATACATATT
1 ATATTAATTATA-ATATT
2699 CAAAGGAAAT
Statistics
Matches: 50, Mismatches: 3, Indels: 12
0.77 0.05 0.18
Matches are distributed among these distances:
40 9 0.18
41 9 0.18
42 22 0.44
43 10 0.20
ACGTcount: A:0.43, C:0.03, G:0.05, T:0.50
Consensus pattern (42 bp):
ATATTAATTATAATATTGATTATAATAATTCAATTGATTATG
Found at i:2688 original size:21 final size:23
Alignment explanation
Indices: 2633--2692 Score: 65
Period size: 21 Copynumber: 2.7 Consensus size: 23
2623 TTAATTCAAT
2633 ATTATGATATTAATTATAATCATG
1 ATTATG-TATTAATTATAATCATG
* *
2657 ATTA--TAATAATT-TAAT-TTG
1 ATTATGTATTAATTATAATCATG
2676 ATTATGTATTAATTATA
1 ATTATGTATTAATTATA
2693 CATATTCAAA
Statistics
Matches: 30, Mismatches: 3, Indels: 8
0.73 0.07 0.20
Matches are distributed among these distances:
19 6 0.20
20 4 0.13
21 14 0.47
22 2 0.07
24 4 0.13
ACGTcount: A:0.42, C:0.02, G:0.07, T:0.50
Consensus pattern (23 bp):
ATTATGTATTAATTATAATCATG
Found at i:4535 original size:357 final size:350
Alignment explanation
Indices: 3721--4609 Score: 831
Period size: 353 Copynumber: 2.5 Consensus size: 350
3711 TTTTAAATCT
** * * * * * * * **
3721 CTTATTAATTTTCAAAATATTAATAAATTAATATTATTTTATTCTAAACAA-AATTATATTAACA
1 CTTATTAATTTTTGAATTATTAATAAAATAGTATTATTTTATTCTAAATAAGCA-TGT-TGATGA
* * ** * * *
3785 AAAACATTTGTTTTATGACAAAATAAAAGAAT-ATAATGATTTGAAATAGATAATTATTCATATA
64 AAAACAATTATTTTATGACAAAGCAAAAG-GTCAAAATGATTTGAAATAGATAATTATTCAAATA
* * * *
3849 GCCTTAACTATTTGCACCGATTCAATAAATAAATTTATTTTTCAAATCTCTTAAATTTTTAATTT
128 GCCTTAACTATTTGAACTGATTCAATAAATAAATTTATTTTTCAAATCTCTCAAATTCTTAATTT
* * * * * *
3914 TCATAATATTATTAGATTAGTATTATTTTCTTTCGAATAAGCTTGTATGAATATAAATAATTATT
193 TCATAATATTAATAAAGTAATATTATTTTATTTCGAATAAGCTTGTATGAATATAAACAATTATT
* *
3979 TTATAACAAAACAAAAGGTTATAATGACTTGAAATATATAATTGTTTAAATAGTCATAATTATTT
258 TTATAACAAAACAAAAGG-T-TAACGACTTGAAATATATAATTGTTTAAATAGTCATAACTATTT
*
4044 GAACTAGTTTAGTAAACAGATAATCTCCTA
321 AAACTAGTTTAGTAAACAGATAATCTCCTA
* * * * *
4074 CTTATTAATTTTTGAATTATTAATCAACTAGTATTATTTTATTCTAATTAGGCTTGTTTGATGAA
1 CTTATTAATTTTTGAATTATTAATAAAATAGTATTATTTTATTCTAAATAAGCATG-TTGATGAA
* * * *
4139 AAACAATTGTTTTATGACAAAGCAAAAGTTCAAAATGATTTGAAATAGATAATTGTTCAAATGGC
65 AAACAATTATTTTATGACAAAGCAAAAGGTCAAAATGATTTGAAATAGATAATTATTCAAATAGC
* * * *
4204 CATAACTATTTGAACTGATTCGATAAA-ATGATTTATGTTTT-AAATCTC-CAACTTCTTAACTT
130 CTTAACTATTTGAACTGATTCAATAAATA-AATTTAT-TTTTCAAATCTCTCAAATTCTTAA-TT
* * * * *
4266 TTGA-AATATTAATAAAGTAATATTATTTTATTTTGGATAAGCTTTTATGAA-ATGAAACAATTG
192 TTCATAATATTAATAAAGTAATATTATTTTATTTCGAATAAGCTTGTATGAATAT-AAACAATTA
* * * *
4329 TTTTATGATAAAACAAAAGG-TAACGATTTTAAA-ATGATAATTGTTTAAATAGTCATAACTATT
256 TTTTATAACAAAACAAAAGGTTAACGACTTGAAATAT-ATAATTGTTTAAATAGTCATAACTATT
* * *
4392 TAAACTTGTTTGGTAAACAGATTTATTTTTTAAT-TCCTTG
320 TAAACTAGTTTAGTAAACAG----A-----TAATCTCC-TA
*
4432 CTTATTAATTTTTTGAA-TGTTAATAAAATAGTATTATTTTATT-TCAAATAAGCATG-T-ATGA
1 CTTATTAA-TTTTTGAATTATTAATAAAATAGTATTATTTTATTCT-AAATAAGCATGTTGATGA
*
4493 ACTAAACAATTATTTTATGACTAAA-CAAAAGGTCAGAATGATTTGAAATAGATAATTATT-ATA
64 A--AAACAATTATTTTATGAC-AAAGCAAAAGGTCAAAATGATTTGAAATAGATAATTATTCA-A
* * * * * *
4556 ATAGTCTTAACTATTTGAACT-AGTTTAACAAATACATATATTTTTTAAATCTCT
125 ATAGCCTTAACTATTTGAACTGA-TTCAATAAATAAATTTATTTTTCAAATCTCT
4610 TATTAATTTT
Statistics
Matches: 438, Mismatches: 70, Indels: 51
0.78 0.13 0.09
Matches are distributed among these distances:
348 2 0.00
349 53 0.12
351 2 0.00
352 74 0.17
353 144 0.33
354 5 0.01
355 5 0.01
356 7 0.02
357 90 0.21
358 48 0.11
359 8 0.02
ACGTcount: A:0.40, C:0.09, G:0.09, T:0.42
Consensus pattern (350 bp):
CTTATTAATTTTTGAATTATTAATAAAATAGTATTATTTTATTCTAAATAAGCATGTTGATGAAA
AACAATTATTTTATGACAAAGCAAAAGGTCAAAATGATTTGAAATAGATAATTATTCAAATAGCC
TTAACTATTTGAACTGATTCAATAAATAAATTTATTTTTCAAATCTCTCAAATTCTTAATTTTCA
TAATATTAATAAAGTAATATTATTTTATTTCGAATAAGCTTGTATGAATATAAACAATTATTTTA
TAACAAAACAAAAGGTTAACGACTTGAAATATATAATTGTTTAAATAGTCATAACTATTTAAACT
AGTTTAGTAAACAGATAATCTCCTA
Found at i:4614 original size:176 final size:175
Alignment explanation
Indices: 3429--5069 Score: 1013
Period size: 176 Copynumber: 9.2 Consensus size: 175
3419 TGTAATTCAA
* * * * *
3429 AAACAAGTGTTTTGTGACAAAATAAAAAGGTCATAATGATTTAAAATAGATAATTGTTCA-AATA
1 AAACAATTGTTTTATGACAAAA-CAAAAGGTCATAATGATTTGAAATAGATAATTATT-ATAATA
* * * ***
3493 GTCATAATTATTT--ACAACGGTTAGGCCAACAGATTTATTTTTTAAATTCGTTACTTATTAATT
64 GTCATAACTATTTGAACTA-GTTTA-ATAAACAGATTTATTTTTTAAA-TC--T-CTTATTAATT
* * * * * * *
3556 GTTAGAATATTAATAAATTAGCA-TACTTTATTCCGAATAAGAC-TATATCAAT
123 TTTTGAATATTAATAAATTAGTATTATTTTATTTCGAATAAG-CTTGTATGAAT
* * * ** * * * *
3608 AGAAATAATTGTTTTATGACAAAACAAAGGGTTATAACAATATGAAATAAATAATAATTA-AATT
1 --AAACAATTGTTTTATGACAAAACAAAAGGTCATAATGATTTGAAATAGATAATTATTATAATA
* * * *** * ***
3672 GTTATATCTAATTGAACTAGTTTGGCAAACAAATTTATTTTTTAAATCTCTTATTAATTTTCAAA
64 GTCATAACTATTTGAACTAGTTTAATAAACAGATTTATTTTTTAAATCTCTTATTAATTTTTTGA
* * * ** * * *
3737 ATATTAATAAATTAATATTATTTTA-TTCTAAACAAAATTATATTAACAA
129 ATATTAATAAATTAGTATTATTTTATTTC-GAATAAGCTTGTA-TGA-AT
* * *
3786 AAACATTTGTTTTATGACAAAATAAAAGAAT-ATAATGATTTGAAATAGATAATTATTCAT-ATA
1 AAACAATTGTTTTATGACAAAACAAAAG-GTCATAATGATTTGAAATAGATAATTATT-ATAATA
* * * * * * * *
3849 GCCTTAACTATTTGCAC-CGATTCAATAAATAAATTTATTTTTCAAATCTCTTAAATTTTTAATT
64 GTCATAACTATTTGAACTAG-TTTAATAAACAGATTTATTTTTTAAATCTCTT--A---TTAATT
* * * *
3913 TTCAT-AATATTATTAGATTAGTATTATTTTCTTTCGAATAAGCTTGTATGAATAT
123 TT-TTGAATATTAATAAATTAGTATTATTTTATTTCGAATAAGCTTGTATG-A-AT
* * * * * * *
3968 AAATAATTATTTTATAACAAAACAAAAGGTTATAATGACTTGAAATATATAATTGTT-TAAATAG
1 AAACAATTGTTTTATGACAAAACAAAAGGTCATAATGATTTGAAATAGATAATTATTAT-AATAG
* * * * **
4032 TCATAATTATTTGAACTAGTTTAGTAAACAGA-TAATCTCCT--A---CTTATTAA-TTTTTGAA
65 TCATAACTATTTGAACTAGTTTAATAAACAGATTTATTTTTTAAATCTCTTATTAATTTTTTGAA
* * * *
4090 TTATTAATCAACTAGTATTATTTTA-TTCTAATTAGGCTTGTTTGATGAA-
130 -TATTAATAAATTAGTATTATTTTATTTCGAA-TAAGCTTG--T-ATGAAT
* * * * *
4139 AAACAATTGTTTTATGACAAAGCAAAAGTTCAAAATGATTTGAAATAGATAATTGTTCA-AATGG
1 AAACAATTGTTTTATGACAAAACAAAAGGTCATAATGATTTGAAATAGATAATTATT-ATAATAG
* ** * * *
4203 CCATAACTATTTGAACT-GATTCGATAAA-ATGATTTATGTTTTAAATCTCCAACTTCTTAA-CT
65 TCATAACTATTTGAACTAG-TTTAATAAACA-GATTTATTTTTTAAATCT----CTTATTAATTT
* * * * *
4265 TTTGAAATATTAATAAAGTAATATTATTTTATTTTGGATAAGCTTTTATGAAAT
124 TTTG-AATATTAATAAATTAGTATTATTTTATTTCGAATAAGCTTGTATG-AAT
* * * *
4319 GAAACAATTGTTTTATGATAAAACAAAAGG---TAACGATTTTAAA-ATGATAATTGTT-TAAAT
1 -AAACAATTGTTTTATGACAAAACAAAAGGTCATAATGATTTGAAATA-GATAATTATTAT-AAT
* * ** *
4379 AGTCATAACTATTTAAACTTGTTTGGTAAACAGATTTATTTTTTAATTCCTTGCTTATTAATTTT
63 AGTCATAACTATTTGAACTAGTTTAATAAACAGATTTATTTTTTAAAT-C-T-CTTATTAATTTT
* * * *
4444 TTGAATGTTAATAAAATAGTATTATTTTATTTCAAATAAGCATGTATGAACT
125 TTGAATATTAATAAATTAGTATTATTTTATTTCGAATAAGCTTGTATGAA-T
* * *
4496 AAACAATTATTTTATGACTAAACAAAAGGTCAGAATGATTTGAAATAGATAATTATTATAATAGT
1 AAACAATTGTTTTATGACAAAACAAAAGGTCATAATGATTTGAAATAGATAATTATTATAATAGT
* * * * * *
4561 CTTAACTATTTGAACTAGTTTAACAAATACATATATTTTTTAAATCTCTTATTAATTTTTAGAAT
66 CATAACTATTTGAACTAGTTTAATAAACAGATTTATTTTTTAAATCTCTTATTAATTTTTTGAAT
* ** ** * * * *
4626 ATTATTAGTTTAACAATATTTTA-CTCTGAATAAGTTTGTATGGATAG
131 ATTAATAAATTAGTATTATTTTATTTC-GAATAAGCTTGTAT-GA-AT
* * * *
4673 AAATAATTGTTTTATGACAAAACAATTA--TCAT-ATCGATTCGAGATAGATAATTATTCA-AAT
1 AAACAATTGTTTTATGACAAAACAA-AAGGTCATAAT-GATTTGAAATAGATAATTATT-ATAAT
* * * * * ***
4734 AGTCATAACTATTTGAATTGGTCTAATAAACAGATATAGTTTTTAAATCTCTTATTAATTTTCAA
63 AGTCATAACTATTTGAACTAGTTTAATAAACAGATTTATTTTTTAAATCTCTTATTAATTTTTTG
* **
4799 AATATTAATAAATTAGTA-TATTTTATTTTGAATAATTTTGTATGAAT
128 AATATTAATAAATTAGTATTATTTTATTTCGAATAAGCTTGTATGAAT
* ** *
4846 AGAAACAATTGTTTTATTACAAAAC-AAAGGATCATAACAATTTGAAATAAATAATTATT-TAAA
1 --AAACAATTGTTTTATGACAAAACAAAAGG-TCATAATGATTTGAAATAGATAATTATTAT-AA
* * * ** * *
4909 TAGTCATAATTATTTAAACTCA-CTTGGTAAACAAATTTATTTTTTAAATATTTTACTTATTAA-
62 TAGTCATAACTATTTGAACT-AGTTTAATAAACAGATTTATTTTTT-AA-A-TCT-CTTATTAAT
* * *
4972 TTTTTGAAATTTTAATAAATTGGTATTATTTTATTTCGAATAAGCTTTTATGAATAT
122 TTTTTG-AATATTAATAAATTAGTATTATTTTATTTCGAATAAGCTTGTATG-A-AT
* * *
5029 AAACAATTGGTTTATGACAAAGCAAAAGGTCATAATTATTT
1 AAACAATTGTTTTATGACAAAACAAAAGGTCATAATGATTT
5070 TGAACGTGTT
Statistics
Matches: 1124, Mismatches: 249, Indels: 174
0.73 0.16 0.11
Matches are distributed among these distances:
169 1 0.00
170 12 0.01
171 105 0.09
172 6 0.01
173 4 0.00
174 8 0.01
175 75 0.07
176 285 0.25
177 118 0.10
178 75 0.07
179 106 0.09
180 56 0.05
181 145 0.13
182 122 0.11
183 6 0.01
ACGTcount: A:0.41, C:0.08, G:0.10, T:0.41
Consensus pattern (175 bp):
AAACAATTGTTTTATGACAAAACAAAAGGTCATAATGATTTGAAATAGATAATTATTATAATAGT
CATAACTATTTGAACTAGTTTAATAAACAGATTTATTTTTTAAATCTCTTATTAATTTTTTGAAT
ATTAATAAATTAGTATTATTTTATTTCGAATAAGCTTGTATGAAT
Found at i:5109 original size:146 final size:147
Alignment explanation
Indices: 4941--5209 Score: 398
Period size: 146 Copynumber: 1.8 Consensus size: 147
4931 CTTGGTAAAC
* * * *
4941 AAATTTATTTTTTAAATATTTTACTTATTAATTTTTGAAATTTTAATAAATTGGTATTATTTTAT
1 AAATTTATTTTATAAATATTTTACTTATTAATCTTTGAAATATTAATAAATTGATATTATTTTAT
* * *
5006 TTCG-AATAAGCTTTTATGAATATAAACAATTGGTTTATGACAAAGCAAAAGGTCATAATTATTT
66 TT-GAAATAAGCTTGTATGAACAGAAACAATTGGTTTATGACAAAGCAAAAGGTCATAATTATTT
5070 TGAACGTGTTCAAAAAAT
130 TGAACGTGTTCAAAAAAT
* * * *
5088 AAATTTATTTTATATAT-TTTTACTTATTAATCTTTGGAATATTAGTAAATTTATATTATTTTAT
1 AAATTTATTTTATAAATATTTTACTTATTAATCTTTGAAATATTAATAAATTGATATTATTTTAT
* *
5152 TTGAAATAAGCTTGTATGAACAGAAACAATTGTTTTATGGCAAAGCAAAAGGTCATAA
66 TTGAAATAAGCTTGTATGAACAGAAACAATTGGTTTATGACAAAGCAAAAGGTCATAA
5210 CAATTTGAAA
Statistics
Matches: 108, Mismatches: 13, Indels: 3
0.87 0.10 0.02
Matches are distributed among these distances:
145 1 0.01
146 92 0.85
147 15 0.14
ACGTcount: A:0.39, C:0.06, G:0.11, T:0.44
Consensus pattern (147 bp):
AAATTTATTTTATAAATATTTTACTTATTAATCTTTGAAATATTAATAAATTGATATTATTTTAT
TTGAAATAAGCTTGTATGAACAGAAACAATTGGTTTATGACAAAGCAAAAGGTCATAATTATTTT
GAACGTGTTCAAAAAAT
Found at i:5372 original size:180 final size:179
Alignment explanation
Indices: 5107--5609 Score: 484
Period size: 180 Copynumber: 2.8 Consensus size: 179
5097 TTATATATTT
* * * * * * * **
5107 TTACTTATTAATCT-TTGGAATATTAGTAAATTTATATTATTTT-ATTTGAAATAAGCTTGTATG
1 TTACTCATTAAT-TGTTGAAATAGTAATAAATTAATATTATTTTAATCTG-AATAAACTAATATG
* * *
5170 AACAGAAACAATTGTTTTATGGCAAAGCAAAAGGTCATAACAATTTGAAATAGATAATTGTTCAA
64 AACAAAAATAATTGTTTTATGGCAAA-CAAAAGGTCATAACGATTTGAAATAGATAATTGTTCAA
*
5235 ATAGTCATAACTATTTGAACTTGTGT-GGTAAATAG-ATTCATTTTTTAAATCTC
128 ATAGTCATAACTATTTGAACTTGT-TCGATAAA-AGTATTCA-TTTTTAAATCTC
* * * * * *
5288 TTACTCATTAATTTTTGAAATAGTAATAAGTTAGTATTA-TTT-ATTTCGATTAAGCCT-ATATG
1 TTACTCATTAATTGTTGAAATAGTAATAAATTAATATTATTTTAATCT-GAATAA-ACTAATATG
** * * * * * *
5350 AATTGATAA-AATTGTTTTATGGCGAAATAAAAGGTCATAATGATTTGGAATAGATAATTATTTA
64 AA-CAAAAATAATTGTTTTATGGC-AAACAAAAGGTCATAACGATTTGAAATAGATAATTGTTCA
* * * * * * *
5414 GATAGTTATTACTATTTGAACTTGTTCGATAAACGTATTTATTTTTAAATTTT
127 AATAGTCATAACTATTTGAACTTGTTCGATAAAAGTATTCATTTTTAAATCTC
* *
5467 TTACTTATTAATTGTTGAAATATTAATAAATTAATATTATTTTAATCTGAATAAACTAATATGAA
1 TTACTCATTAATTGTTGAAATAGTAATAAATTAATATTATTTTAATCTGAATAAACTAATATGAA
* * *
5532 CAAAAATAATTGTTTTATGACAAAACAAAAGGTCATAACGATTTAAAATAAATAATTGTTTC-AA
66 CAAAAATAATTGTTTTATGGC-AAACAAAAGGTCATAACGATTTGAAATAGATAATTG-TTCAAA
5596 TAGTCATAACTATT
129 TAGTCATAACTATT
5610 CAAAATTATT
Statistics
Matches: 259, Mismatches: 51, Indels: 25
0.77 0.15 0.07
Matches are distributed among these distances:
179 51 0.20
180 165 0.64
181 43 0.17
ACGTcount: A:0.39, C:0.08, G:0.12, T:0.41
Consensus pattern (179 bp):
TTACTCATTAATTGTTGAAATAGTAATAAATTAATATTATTTTAATCTGAATAAACTAATATGAA
CAAAAATAATTGTTTTATGGCAAACAAAAGGTCATAACGATTTGAAATAGATAATTGTTCAAATA
GTCATAACTATTTGAACTTGTTCGATAAAAGTATTCATTTTTAAATCTC
Found at i:5410 original size:507 final size:501
Alignment explanation
Indices: 4654--5569 Score: 1112
Period size: 507 Copynumber: 1.8 Consensus size: 501
4644 TTTTACTCTG
* * * * * * * *
4654 AATAAGTTTGTATGGATAGAAATAATTGTTTTATGACAAAACAATTATCATATCGATTCGAGATA
1 AATAAGCTTGTATGAACAGAAACAATTGTTTTATGACAAAACAATAATCATAACAATTCGAAATA
4719 GATAATTATTCAAATAGTCATAACTATTTGAATTGGTCTAATAAACAGATATAGTTTTTAAATCT
66 GATAATTATTCAAATAGTCATAACTATTTGAATTGGTCTAATAAACAGATATAGTTTTTAAATCT
* * *** *
4784 CTTATTAATTTTCAAAATATTAATAAATTAGTATATTTTATTTTGAATAATTTTGTATGAATAGA
131 CTTATTAATTTTCAAAATAGTAATAAATTAGTATATTTTATTTCGAATAAGCCTATATGAATAGA
*
4849 AACAATTGTTTTATTACAAAACAAAGGATCATAACAATTTGAAATAAATAATTATTTAAATAGTC
196 AACAATTGTTTTATGACAAAACAAAGGATCATAACAATTTGAAATAAATAATTATTTAAATAGTC
* * *
4914 ATAATTATTTAAACTCACTT-GGTAAACAAATTTATTTTTTAAATATTTTACTTATTAATTTTTG
261 ATAACTATTTAAACT-ACTTCGATAAACAAATTTA-TTTTTAAATATTTTACTTATTAATTGTTG
* ** * * ** * *
4978 AAATTTTAATAAATTGGTATTATTTT-ATTTCGAATAAGCTTTTATGAATATAAACAATTGGTTT
324 AAATATTAATAAATTAATATTATTTTAATCT-GAATAAACTAATATGAACAAAAACAATTGGTTT
*
5042 ATGACAAAGCAAAAGGTCATAATTATTTTGAACGTGTTCAAAAAATAAATTTATTTTATATATTT
388 ATGACAAAACAAAAGGTCATAATTATTTTGAACGTGTTCAAAAAATAAATTTATTTTATATATTT
5107 TTACTTATTAATCTTTGGAATATTAGTAAATTTATATTATTTTATTTGA
453 TTACTTATTAATCTTTGGAATATTAGTAAATTTATATTATTTTATTTGA
* * *
5156 AATAAGCTTGTATGAACAGAAACAATTGTTTTATGGCAAAGCAA-AAGGTCATAACAATTTGAAA
1 AATAAGCTTGTATGAACAGAAACAATTGTTTTATGACAAAACAATAA--TCATAACAATTCGAAA
* * ** * *
5220 TAGATAATTGTTCAAATAGTCATAACTATTTGAACTT-GTGTGGTAAATAGAT-TCATTTTTTAA
64 TAGATAATTATTCAAATAGTCATAACTATTTGAA-TTGGTCTAATAAACAGATAT-AGTTTTTAA
** * *
5283 ATCTCTTACTCATTAATTTTTGAAATAGTAATAAGTTAGTAT-TATTTATTTCGATTAAGCCTAT
127 ATCTC-T--T-ATTAATTTTCAAAATAGTAATAAATTAGTATAT-TTTATTTCGAATAAGCCTAT
* * ** * *
5347 ATGAATTGATAA-AATTGTTTTATGGCGAAATA-AAAGG-TCATAATGATTTGGAATAGATAATT
187 ATGAATAGA-AACAATTGTTTTATGAC-AAA-ACAAAGGATCATAACAATTTGAAATAAATAATT
* * * * ** ** *
5409 ATTTAGATAGTTATTACTATTTGAACTTGTTCGATAAACGTATTTATTTTTAAATTTTTTACTTA
249 ATTTAAATAGTCATAACTATTTAAACTACTTCGATAAACAAATTTATTTTTAAATATTTTACTTA
*
5474 TTAATTGTTGAAATATTAATAAATTAATATTATTTTAATCTGAATAAACTAATATGAACAAAAAT
314 TTAATTGTTGAAATATTAATAAATTAATATTATTTTAATCTGAATAAACTAATATGAACAAAAAC
*
5539 AATTGTTTTATGACAAAACAAAAGGTCATAA
379 AATTGGTTTATGACAAAACAAAAGGTCATAA
5570 CGATTTAAAA
Statistics
Matches: 342, Mismatches: 58, Indels: 24
0.81 0.14 0.06
Matches are distributed among these distances:
501 1 0.00
502 39 0.11
503 69 0.20
504 3 0.01
506 101 0.30
507 118 0.35
508 10 0.03
509 1 0.00
ACGTcount: A:0.40, C:0.07, G:0.11, T:0.42
Consensus pattern (501 bp):
AATAAGCTTGTATGAACAGAAACAATTGTTTTATGACAAAACAATAATCATAACAATTCGAAATA
GATAATTATTCAAATAGTCATAACTATTTGAATTGGTCTAATAAACAGATATAGTTTTTAAATCT
CTTATTAATTTTCAAAATAGTAATAAATTAGTATATTTTATTTCGAATAAGCCTATATGAATAGA
AACAATTGTTTTATGACAAAACAAAGGATCATAACAATTTGAAATAAATAATTATTTAAATAGTC
ATAACTATTTAAACTACTTCGATAAACAAATTTATTTTTAAATATTTTACTTATTAATTGTTGAA
ATATTAATAAATTAATATTATTTTAATCTGAATAAACTAATATGAACAAAAACAATTGGTTTATG
ACAAAACAAAAGGTCATAATTATTTTGAACGTGTTCAAAAAATAAATTTATTTTATATATTTTTA
CTTATTAATCTTTGGAATATTAGTAAATTTATATTATTTTATTTGA
Found at i:5668 original size:120 final size:120
Alignment explanation
Indices: 5526--5752 Score: 285
Period size: 120 Copynumber: 1.9 Consensus size: 120
5516 AATAAACTAA
* * *
5526 TATGAACAAAAATAATTGTTTTATGACAAAACAAAAGGTCATAACGATTTAAAATAAATAATTGT
1 TATGAACAAAAATAATTATTTTATGACAAAACAAAAGGTCATAACAATTTAAAATAAATAATTAT
* *
5591 TTCAATAGTCATAACTATTCAAAATTATTCAGTAAACAGATTTGAAATAAGCTTG
66 TTAAATAGCCATAACTATTCAAAATTATTCAGTAAACAGATTTGAAATAAGCTTG
* * * * * * *
5646 TATGAATAGAAAA-AATTATTTTATGACAATACAAAAGGTTATAGCAATTTGAAGTAGATAATTA
1 TATGAACA-AAAATAATTATTTTATGACAAAACAAAAGGTCATAACAATTTAAAATAAATAATTA
* * * * *
5710 TTTAAATAGCCATAATTATTTAAACTTGTTCGGTAAACAGATT
65 TTTAAATAGCCATAACTATTCAAAATTATTCAGTAAACAGATT
5753 CATTTTTTAA
Statistics
Matches: 89, Mismatches: 17, Indels: 2
0.82 0.16 0.02
Matches are distributed among these distances:
120 85 0.96
121 4 0.04
ACGTcount: A:0.45, C:0.09, G:0.12, T:0.34
Consensus pattern (120 bp):
TATGAACAAAAATAATTATTTTATGACAAAACAAAAGGTCATAACAATTTAAAATAAATAATTAT
TTAAATAGCCATAACTATTCAAAATTATTCAGTAAACAGATTTGAAATAAGCTTG
Found at i:5899 original size:16 final size:17
Alignment explanation
Indices: 5878--5910 Score: 50
Period size: 18 Copynumber: 1.9 Consensus size: 17
5868 TAACAATTTG
5878 AAATAG-ATAATTGTTC
1 AAATAGCATAATTGTTC
5894 AAATAGTCATAATTGTT
1 AAATAG-CATAATTGTT
5911 TGCATTGTTC
Statistics
Matches: 15, Mismatches: 0, Indels: 2
0.88 0.00 0.12
Matches are distributed among these distances:
16 6 0.40
18 9 0.60
ACGTcount: A:0.42, C:0.06, G:0.12, T:0.39
Consensus pattern (17 bp):
AAATAGCATAATTGTTC
Found at i:5957 original size:181 final size:181
Alignment explanation
Indices: 5636--6051 Score: 457
Period size: 181 Copynumber: 2.3 Consensus size: 181
5626 ACAGATTTGA
* * *
5636 AATAAGCTTGTATGAATAGAAAA-AATTATTTTATGACAATACAAAAGGTT-ATAGCAATTTGAA
1 AATAAGCTTGTATGAATA-AAAACAATTGTTTTATGACAAAACAAAA-GTTCATAACAATTTGAA
* * ** * *
5699 GTAGATAATTATTTAAATAGCCATAATTATTTAAACTTGTTCGGTAAACAGATTCATTTTTTAAA
64 ATAGATAATTATTCAAATAGCCATAATTATTTAAACTTGTTCGCCAAACAGATACATTTTCTAAA
* *** * *
5764 TCTATCACTTATTAATTTTTGGAATATTAATAAATTAGTATT-ATGTTATTCTG
129 TCCATCACTTATTAATTTTCAAAATATTAATAAATTAGCATTGAT-TTATTCCG
* *
5817 AATAAGCTTGTATGAATAAAAACAATTGTTTTGTGAGAAAACAAAAGTTCATAACAATTTGAAAT
1 AATAAGCTTGTATGAATAAAAACAATTGTTTTATGACAAAACAAAAGTTCATAACAATTTGAAAT
* * * **
5882 AGATAATTGTTCAAATAGTCATAATTGTTTGCA-TTGTTCAAGCCATAA-A-ATACATTTTCTAA
66 AGATAATTATTCAAATAGCCATAATTATTTAAACTTGTTC--GCCA-AACAGATACATTTTCTAA
* *
5944 ATCCATTACTTATTAATTTTCAAAATATTAATAAATTAGCATTGCTTTATTCCG
128 ATCCATCACTTATTAATTTTCAAAATATTAATAAATTAGCATTGATTTATTCCG
* * * * * * *
5998 AATAAGATTATATGAACAGAAACAATTGTTTTATGATAAAACAAATGGTCATAA
1 AATAAGCTTGTATGAATAAAAACAATTGTTTTATGACAAAACAAAAGTTCATAA
6052 ATATTTGGTC
Statistics
Matches: 197, Mismatches: 32, Indels: 12
0.82 0.13 0.05
Matches are distributed among these distances:
180 13 0.07
181 178 0.90
182 4 0.02
183 2 0.01
ACGTcount: A:0.41, C:0.09, G:0.11, T:0.38
Consensus pattern (181 bp):
AATAAGCTTGTATGAATAAAAACAATTGTTTTATGACAAAACAAAAGTTCATAACAATTTGAAAT
AGATAATTATTCAAATAGCCATAATTATTTAAACTTGTTCGCCAAACAGATACATTTTCTAAATC
CATCACTTATTAATTTTCAAAATATTAATAAATTAGCATTGATTTATTCCG
Found at i:6247 original size:16 final size:17
Alignment explanation
Indices: 6226--6258 Score: 50
Period size: 18 Copynumber: 1.9 Consensus size: 17
6216 TAGCAATTTG
6226 AAATAG-ATAATTATTC
1 AAATAGCATAATTATTC
6242 AAATAGTCATAATTATT
1 AAATAG-CATAATTATT
6259 TGAAATAGTT
Statistics
Matches: 15, Mismatches: 0, Indels: 2
0.88 0.00 0.12
Matches are distributed among these distances:
16 6 0.40
18 9 0.60
ACGTcount: A:0.48, C:0.06, G:0.06, T:0.39
Consensus pattern (17 bp):
AAATAGCATAATTATTC
Found at i:6266 original size:19 final size:18
Alignment explanation
Indices: 6221--6267 Score: 62
Period size: 19 Copynumber: 2.7 Consensus size: 18
6211 GGTAATAGCA
6221 ATTTGAAATAG-ATAATT
1 ATTTGAAATAGTATAATT
*
6238 A-TTCAAATAGTCATAATT
1 ATTTGAAATAGT-ATAATT
6256 ATTTGAAATAGT
1 ATTTGAAATAGT
6268 TTTGTAAATA
Statistics
Matches: 25, Mismatches: 2, Indels: 4
0.81 0.06 0.13
Matches are distributed among these distances:
16 8 0.32
17 1 0.04
18 7 0.28
19 9 0.36
ACGTcount: A:0.45, C:0.04, G:0.11, T:0.40
Consensus pattern (18 bp):
ATTTGAAATAGTATAATT
Found at i:6698 original size:171 final size:170
Alignment explanation
Indices: 6393--6700 Score: 378
Period size: 171 Copynumber: 1.8 Consensus size: 170
6383 TGAAAGATTT
* *
6393 AAAAAATAAATATGGTTACCAAACAAGTTCAAATAGTCAAGACTATTTGAATAATTATCTATTTC
1 AAAAAATAAATATGGTTACCAAACAAGTTCAAATAGTCAAGACTATCTAAATAATTATCTATTTC
* * *
6458 AAATAATTGTGACCTTCTATTTTGTAATAAAATAATTGTTTTAGTTAACATAAGCGTATTTGAAA
66 AAATAATTATGACCTTCTATTTTATAATAAAATAATTGTTCTAGTT-ACATAAGCGTATTTGAAA
6523 TAAAATAGCTCTAATTTATGGCCATTTGTTTACTGAATTAA
130 TAAAATAGCTCTAATTTATGGCCATTTGTTTACTGAATTAA
* * * * *
6564 AAAAAATGAATCTGTTTACTAAACAAGTTCAAATAGGT-ATGACTATCTAAATAATTATCTATTT
1 AAAAAATAAATATGGTTACCAAACAAGTTCAAATA-GTCAAGACTATCTAAATAATTATCTATTT
* *
6628 CAAA-ATATTATGACCATT-TGTTTTATCAA-AAAATAATTAGTTCT-GTT-CATGCAAGCTTAT
65 CAAATA-ATTATGACC-TTCTATTTTAT-AATAAAATAATT-GTTCTAGTTACAT--AAGCGTAT
6688 TTCG-AATAAAATA
124 TT-GAAATAAAATA
6701 ATATAAATTT
Statistics
Matches: 117, Mismatches: 12, Indels: 16
0.81 0.08 0.11
Matches are distributed among these distances:
169 3 0.03
170 1 0.01
171 102 0.87
172 11 0.09
ACGTcount: A:0.41, C:0.11, G:0.10, T:0.38
Consensus pattern (170 bp):
AAAAAATAAATATGGTTACCAAACAAGTTCAAATAGTCAAGACTATCTAAATAATTATCTATTTC
AAATAATTATGACCTTCTATTTTATAATAAAATAATTGTTCTAGTTACATAAGCGTATTTGAAAT
AAAATAGCTCTAATTTATGGCCATTTGTTTACTGAATTAA
Found at i:6932 original size:178 final size:177
Alignment explanation
Indices: 6293--7131 Score: 668
Period size: 180 Copynumber: 4.7 Consensus size: 177
6283 GTTATGGCTT
* * *
6293 TTTGTTTTGTAATAAAACAATTATTTCTGTTCATACAAGCTTA-TTCAAATAAAATAATATTAAT
1 TTTGTTTTGTCATAAAACAATTATTTCTATTCATACAAGCTTATTTGAAATAAAATAATATTAAT
* * * *
6357 TTATTAATATTTTGACAATTAATAAGTGAAAGATTTAAAAAATAAATATGGTTACCAAACAAGTT
66 TTATTAATATTCT-AAAATTAATAAGT-AAAGATTT-AAAAATAAATATGTTTACCGAACAAGTT
* * * * * *
6422 CAAATAGTCAAGACTATTTGAATAATTATCTATTTCAAATAATTGTGAC-C
128 CAAATAGTTATGACTATTTGAACAATTATCTATTTCAAAT-TTTATGACAA
* * * * * * * * * *
6472 TTCTATTTTGTAATAAAATAATTGTTT-TAGTTAACATAAGCGTATTTGAAATAAAATAGCT-CT
1 TT-TGTTTTGTCATAAAACAATTATTTCTA-TTCATACAAGCTTATTTGAAATAAAATA-ATATT
**** ** * * * * **
6535 AATTTATGGCCATT-T--GTTTACTGAA-TTAA-A---AAAAATGAATCTGTTTACTAAACAAGT
63 AATTTATTAATATTCTAAAATTAAT-AAGTAAAGATTTAAAAATAAATATGTTTACCGAACAAGT
* * * * * *
6592 TCAAATAGGTATGACTATCTAAATAATTATCTATTTCAAAATATTATGACCA
127 TCAAATAGTTATGACTATTTGAACAATTATCTATTTC-AAATTTTATGACAA
* * * * * * *
6644 TTTGTTTTATCAAAAAATAATTAGTTCTGTTCATGCAAGCTTATTTCG-AATAAAATAATATAAA
1 TTTGTTTTGTCATAAAACAATTATTTCTATTCATACAAGCTTATTT-GAAATAAAATAATATTAA
* * * * * ***
6708 TTTATTAAAACTCCAAAAATTAATAAATAAAAATTTTAAAAATAAATATGTTTTTTGAACACA-T
65 TTTATTAATA-TTCTAAAATTAATAAGTAAAGA-TTTAAAAATAAATATGTTTACCGAACA-AGT
* *
6772 T-TAATAGTTATGATTATTTGAACAATTATCTATTTCAAATTGTTATGACAA
127 TCAAATAGTTATGACTATTTGAACAATTATCTATTTCAAATT-TTATGACAA
*
6823 TTTG-TTTGTCATAAACCAATTATTTCTATTCATACAAGCTTATTTGAAATAAAATAATATTAAT
1 TTTGTTTTGTCATAAAACAATTATTTCTATTCATACAAGCTTATTTGAAATAAAATAATATTAAT
* *
6887 TTATTAATATTTCTAAAATTAATAAGTAAAGATTTAAATAATAAATTTGTTTACCGAGCAAGTTC
66 TTATTAATA-TTCTAAAATTAATAAGTAAAGATTTAAA-AATAAATATGTTTACCGAACAAGTTC
* * * *
6952 AAATAGTTATTACTATTTGAACAATTATATATTTCAAATCTTTATGATAT
129 AAATAGTTATGACTATTTGAACAATTATCTATTTCAAAT-TTTATGACAA
* * * * * *
7002 TTTGTTTTGTCATAAAACAATTGTTTCTATCCACATAAGTTTATTT-AGAATAAAATAATACTAA
1 TTTGTTTTGTCATAAAACAATTATTTCTATTCATACAAGCTTATTTGA-AATAAAATAATATTAA
* * * * * * *
7066 TTTATTATTATTCTAAAAACTAATGAGTTAGAGATTTAAAAAATAAATCTATTTACCAAACAAGT
65 TTTATTAATATTCT-AAAATTAATAAG-TAAAGATTT-AAAAATAAATATGTTTACCGAACAAGT
7131 T
127 T
7132 TAAAAAATGA
Statistics
Matches: 520, Mismatches: 108, Indels: 62
0.75 0.16 0.09
Matches are distributed among these distances:
170 1 0.00
171 109 0.21
172 9 0.02
174 2 0.00
175 8 0.02
176 3 0.01
177 13 0.03
178 100 0.19
179 95 0.18
180 123 0.24
181 53 0.10
182 4 0.01
ACGTcount: A:0.42, C:0.09, G:0.08, T:0.40
Consensus pattern (177 bp):
TTTGTTTTGTCATAAAACAATTATTTCTATTCATACAAGCTTATTTGAAATAAAATAATATTAAT
TTATTAATATTCTAAAATTAATAAGTAAAGATTTAAAAATAAATATGTTTACCGAACAAGTTCAA
ATAGTTATGACTATTTGAACAATTATCTATTTCAAATTTTATGACAA
Found at i:7082 original size:179 final size:181
Alignment explanation
Indices: 6564--7131 Score: 510
Period size: 179 Copynumber: 3.2 Consensus size: 181
6554 ACTGAATTAA
* * * * * * * *
6564 AAAAAATGAATCTGTTTACTAAACAAGTTCAAATAGGTATGACTATCTAAATAATTATCTATTTC
1 AAAAAATAAATCTATTTACCAAACAAGTTCAAATAGTTATGACTATTTGAACAATTATATATTTC
* * * * * * * * * **
6629 AAAATATTATGACCATTTGTTTTATCAAAAAATAATTAGTTCTGTTCATGCAAGCTTATTTCG-A
66 AAATTGTTATGACAATTTG-TTTGTCATAAAACAATTATTTCTATCCACACAAGCTTATTT-GAA
** * * * *
6693 ATAAAATAATA-TAAATTTATTAA-AACTCCAAAAATTAATAA-ATAAAAATTT
129 ATAAAATAATACT-AATTTATTAATATTTCTAAAAACTAATAAGTTAAAGATTT
* * * **** * * *
6744 TAAAAATAAATATGTTTTTTGAACACA-TT-TAATAGTTATGATTATTTGAACAATTATCTATTT
1 AAAAAATAAATCTATTTACCAAACA-AGTTCAAATAGTTATGACTATTTGAACAATTATATATTT
* * *
6807 CAAATTGTTATGACAATTTGTTTGTCATAAACCAATTATTTCTATTCATACAAGCTTATTTGAAA
65 CAAATTGTTATGACAATTTGTTTGTCATAAAACAATTATTTCTATCCACACAAGCTTATTTGAAA
* *
6872 TAAAATAATATTAATTTATTAATATTTCT-AAAATTAATAAG-TAAAGATTT
130 TAAAATAATACTAATTTATTAATATTTCTAAAAACTAATAAGTTAAAGATTT
* * * * * *
6922 AAATAATAAATTTGTTTACCGAGCAAGTTCAAATAGTTATTACTATTTGAACAATTATATATTTC
1 AAAAAATAAATCTATTTACCAAACAAGTTCAAATAGTTATGACTATTTGAACAATTATATATTTC
* * * * *
6987 AAATCT-TTATGATATTTTGTTTTGTCATAAAACAATTGTTTCTATCCACATAAGTTTATTT-AG
66 AAAT-TGTTATGACAATTTG-TTTGTCATAAAACAATTATTTCTATCCACACAAGCTTATTTGA-
* * *
7050 AATAAAATAATACTAATTTATTATTA-TTCTAAAAACTAATGAGTTAGAGATTT
128 AATAAAATAATACTAATTTATTAATATTTCTAAAAACTAATAAGTTAAAGATTT
7103 AAAAAATAAATCTATTTACCAAACAAGTT
1 AAAAAATAAATCTATTTACCAAACAAGTT
7132 TAAAAAATGA
Statistics
Matches: 321, Mismatches: 55, Indels: 23
0.80 0.14 0.06
Matches are distributed among these distances:
177 2 0.01
178 95 0.30
179 100 0.31
180 91 0.28
181 33 0.10
ACGTcount: A:0.43, C:0.10, G:0.08, T:0.40
Consensus pattern (181 bp):
AAAAAATAAATCTATTTACCAAACAAGTTCAAATAGTTATGACTATTTGAACAATTATATATTTC
AAATTGTTATGACAATTTGTTTGTCATAAAACAATTATTTCTATCCACACAAGCTTATTTGAAAT
AAAATAATACTAATTTATTAATATTTCTAAAAACTAATAAGTTAAAGATTT
Found at i:7148 original size:29 final size:30
Alignment explanation
Indices: 7100--7160 Score: 106
Period size: 29 Copynumber: 2.1 Consensus size: 30
7090 GAGTTAGAGA
7100 TTTAAAAAATAAATCTATTTACCAAACAAG
1 TTTAAAAAATAAATCTATTTACCAAACAAG
*
7130 TTTAAAAAATGAATC-ATTTACCAAACAAG
1 TTTAAAAAATAAATCTATTTACCAAACAAG
7159 TT
1 TT
7161 CAAATAGTTA
Statistics
Matches: 30, Mismatches: 1, Indels: 1
0.94 0.03 0.03
Matches are distributed among these distances:
29 16 0.53
30 14 0.47
ACGTcount: A:0.51, C:0.13, G:0.05, T:0.31
Consensus pattern (30 bp):
TTTAAAAAATAAATCTATTTACCAAACAAG
Found at i:7316 original size:210 final size:210
Alignment explanation
Indices: 6936--7323 Score: 496
Period size: 210 Copynumber: 1.8 Consensus size: 210
6926 AATAAATTTG
* * * * **
6936 TTTACCGAGCAAGTTCAAATAGTTATTACTATTTGAACAATTATATATTTCAAATCTTTATGATA
1 TTTACCAAACAAGTTCAAATAGTTATGACTATTTGAACAATTATATATTTAAAATAGTTATGATA
* * * * * * *
7001 TTTTGTTTTGTCATAAAACAATTGTTTCTATCCACATAAGTTTATTTAGAATAAAATAATACTAA
66 TTTTATTTTATCATAAAACAATTGTTTCCATACACAAAAGTTTATTCAAAATAAAATAATACTAA
*
7066 TTTATTATTATTCTAAAAACTAATGAGTTAGAGATTTAAAAAATAAATCTATTTACCAAACAAGT
131 TTTATTAATATTCTAAAAACTAATGAGTTAGAGATTTAAAAAATAAATCTATTTACCAAACAAGT
7131 TTAAAAAATGAATCA
196 TTAAAAAATGAATCA
* *
7146 TTTACCAAACAAGTTCAAATAGTTATGACTATTTGAACAATTATCTTTTTAAAATAGTTATGA-A
1 TTTACCAAACAAGTTCAAATAGTTATGACTATTTGAACAATTATATATTTAAAATAGTTATGATA
* * *
7210 CTTTTATTTTATCATAAAACAATTGTTTCCGTACATAAAAGTTT-TTCCAAAATAAAATAATATT
66 -TTTTATTTTATCATAAAACAATTGTTTCCATACACAAAAGTTTATT-CAAAATAAAATAATACT
** * * *
7274 GCTTTATTAATATT-TCAAAAATTAA-GAAGTTGGAGTTTTAAAAAATAAAT
129 AATTTATTAATATTCT-AAAAACTAATG-AGTTAGAGATTTAAAAAATAAAT
7324 TAGTTTATCA
Statistics
Matches: 150, Mismatches: 24, Indels: 8
0.82 0.13 0.04
Matches are distributed among these distances:
209 5 0.03
210 145 0.97
ACGTcount: A:0.42, C:0.10, G:0.08, T:0.40
Consensus pattern (210 bp):
TTTACCAAACAAGTTCAAATAGTTATGACTATTTGAACAATTATATATTTAAAATAGTTATGATA
TTTTATTTTATCATAAAACAATTGTTTCCATACACAAAAGTTTATTCAAAATAAAATAATACTAA
TTTATTAATATTCTAAAAACTAATGAGTTAGAGATTTAAAAAATAAATCTATTTACCAAACAAGT
TTAAAAAATGAATCA
Found at i:8253 original size:362 final size:359
Alignment explanation
Indices: 7457--8255 Score: 935
Period size: 362 Copynumber: 2.2 Consensus size: 359
7447 AGATTTAAAA
* * * * *
7457 AGTTATGACTATTTGAATAATTATATATTTCAAATTGTTATAACCTTTTGTTATCTCATAAAATA
1 AGTTATGACTATTTGAATAATTATCTATTTCAAATTGTTATGACCTTTTGTTTTATCATAAAACA
* * * *
7522 ATTATTTTTATTCAAACAAGTTTATTCAAAAAAAATAATACTAATATAATAATATTTTGAAAATT
66 ATTGTTTTTGTACAAACAAGTTTATTCAAAAAAAACAATACTAATATAATAATATTTTGAAAATT
* * * ** * *
7587 AATAACTAAGAGATTTAAAAAATAAATTTGTTTACTGAACTAGTTCAAATATTTAAGGCCATATG
131 AAGAACTAAGAAATCTAAAAAATAAAACTGTTTACTAAACCAGTTCAAATATTTAA-GCCATATG
* * * * * * *
7652 AATAATTCTTTATTTCAAATCGTTATGTCATTTTGTTTTGTCGTAAAATAATTTTTTCATTTCTT
195 AACAATTATTTATTTCAAATCATTATGCCATTTTGTATTGTCATAAAATAATTATTTCATTTCTT
*
7717 AGTAACTTATTCGGAATAAAGTAAAACAAATTTATTAATATTTCAAAACTTAATAAGCAAGAGAT
260 AG-AACTTATTCGGAATAAAGTAAAACAAATTTATCAATATTTCAAAACTTAATAAGCAAGAGAT
* *
7782 TTAAAAAACAATTCAATTTGCCTAACCAGTTCAAAT
324 TTAAAAAACAATTCAATTGGCCTAACCAGTACAAAT
* * * ** * *
7818 AATTATGACTATTTGAACAATTATCTATTTCAAATCGTTATGTTCTTTTATTTTGTCATAAAACA
1 AGTTATGACTATTTGAATAATTATCTATTTCAAATTGTTATGACCTTTTGTTTTATCATAAAACA
* * * * * * * * *
7883 AATGTTTTTGTACATATAAGTTTGTTCGGAATAAAACAATATTAATTTATTAATATTTTGAAAAT
66 ATTGTTTTTGTACAAACAAGTTTATTC-AAAAAAAACAATACTAATATAATAATATTTTGAAAAT
* * * *
7948 TAAGAAGTAAGAAATCTAAAAAGTAAAACTGTTTACTAAACCAGTTCAAATAGTTATAA-CTATT
130 TAAGAACTAAGAAATCTAAAAAATAAAACTGTTTACTAAACCAGTTCAAATA-TT-TAAGCCATA
8012 TGAACAATTATTTATTTCAAATCATTATGACCA-TTTGTATTGTCATAAAATAATTATTTC-TAT
193 TGAACAATTATTTATTTCAAATCATTATG-CCATTTTGTATTGTCATAAAATAATTATTTCAT-T
* * * * *
8075 TCATTCA-ATCTTATTCGGAATAAAGTAATACTAATTTATCAATATTTTAAAA-TTAAATAAGTA
256 TC-TT-AGAACTTATTCGGAATAAAGTAAAACAAATTTATCAATATTTCAAAACTT-AATAAGCA
* * *
8138 ATAGATTTAAAAAATGAA-TCAATTGGCCTAATCAGTACAAAT
318 AGAGATTTAAAAAA-CAATTCAATTGGCCTAACCAGTACAAAT
* * * *
8180 AGTTATGACTGTTTGAATAATTATCTATTTCAAATTATTATGACCTTTTGTTTTATCACATAACA
1 AGTTATGACTATTTGAATAATTATCTATTTCAAATTGTTATGACCTTTTGTTTTATCATAAAACA
8245 ATTGTTTTTGT
66 ATTGTTTTTGT
8256 CTGTATTAGC
Statistics
Matches: 364, Mismatches: 65, Indels: 17
0.82 0.15 0.04
Matches are distributed among these distances:
361 77 0.21
362 275 0.76
363 8 0.02
364 4 0.01
ACGTcount: A:0.40, C:0.10, G:0.09, T:0.41
Consensus pattern (359 bp):
AGTTATGACTATTTGAATAATTATCTATTTCAAATTGTTATGACCTTTTGTTTTATCATAAAACA
ATTGTTTTTGTACAAACAAGTTTATTCAAAAAAAACAATACTAATATAATAATATTTTGAAAATT
AAGAACTAAGAAATCTAAAAAATAAAACTGTTTACTAAACCAGTTCAAATATTTAAGCCATATGA
ACAATTATTTATTTCAAATCATTATGCCATTTTGTATTGTCATAAAATAATTATTTCATTTCTTA
GAACTTATTCGGAATAAAGTAAAACAAATTTATCAATATTTCAAAACTTAATAAGCAAGAGATTT
AAAAAACAATTCAATTGGCCTAACCAGTACAAAT
Found at i:8373 original size:176 final size:179
Alignment explanation
Indices: 7459--8591 Score: 595
Period size: 181 Copynumber: 6.3 Consensus size: 179
7449 ATTTAAAAAG
* * * * * *
7459 TTATGACTATTTGAATAATTATATATTTCAAATTGTTATAACCTTTTGTTATCTCATAAAATAAT
1 TTATGACTATTTGAATAATTATCTATTTCAAATTGTTATGACCTTTTGTTTTATCCTAAAACAA-
* * * * * * ** * *
7524 TATTTT-TATTCAAACAAGTTTA-TTCAAAAAAAATAATACTAATATAATAATATTTTGAAAATT
65 -ATTTTCTATTCATACAAGCTTATTTCAAATAAAATAATACAAATTTATTAATATTCAGACAACT
* * * * * * *
7587 AATAACTAAGAGATTTAAAAAATAAATTTGTTTA-CTGAACTAGTTCAAATAT
129 -ATAAGTAAAAGATTTAAAAAATAAATCTATTTATC-GAACAAGTACAAATAA
* * * * * * * * * * * *
7639 TTAAGGCCATATGAATAATTCTTTATTTCAAATCGTTATGTCATTTTGTTTTGTCGTAAAA-TAA
1 TTATGACTATTTGAATAATTATCTATTTCAAATTGTTATGACCTTTTGTTTTATCCTAAAACAAA
* * * * * *
7703 TTTTTTCATTTCTTAGTAA-CTTA-TTCGGAATAAAGTAAAACAAATTTATTAATATTTCA-A-A
66 TTTTCT-A-TTCATA-CAAGCTTATTTC-AAATAAAATAATACAAATTTATTAATA-TTCAGACA
* * * * * ** * * *
7764 ACTTAATAAGCAAGAGATTTAAAAAACAATTCAATTTGCCTAACCAGTTCAAATAA
126 AC-T-ATAAGTAAAAGATTTAAAAAATAAATCTATTTATCGAACAAGTACAAATAA
* * ** * * *
7820 TTATGACTATTTGAACAATTATCTATTTCAAATCGTTATGTTCTTTTATTTTGTCATAAAACAAA
1 TTATGACTATTTGAATAATTATCTATTTCAAATTGTTATGACCTTTTGTTTTATCCTAAAACAAA
* * * * * * ** ** * *
7885 TGTTTTTGTACATATAAG-TT-TGTTCGGAATAAAACAATATTAATTTATTAATATTTTGAAAAT
66 T-TTTCTATTCATACAAGCTTAT-TTC-AAATAAAATAATACAAATTTATTAATATTCAGACAAC
* * * * * * * * *
7948 TAAGAAGTAAGAA-ATCTAAAAAGTAAAACTGTTTA-CTAAACCAGTTCAAATAG
128 T-ATAAGTAA-AAGATTTAAAAAATAAATCTATTTATC-GAACAAGTACAAATAA
* * * ** * * * * * *
8001 TTATAACTATTTGAACAATTATTTATTTCAAATCATTATGACCATTTGTATTGTCATAAAATAAT
1 TTATGACTATTTGAATAATTATCTATTTCAAATTGTTATGACCTTTTGTTTTATCCTAAAACAAA
* * * * * * * *
8066 TATTTCTATTCATTCAATCTTA-TTCGGAATAAAGTAATACTAATTTATCAATATTTTA-A-AAT
66 T-TTTCTATTCATACAAGCTTATTTC-AAATAAAATAATACAAATTTATTAATA-TTCAGACAAC
* * * *** * *
8128 TAAATAAGTAATAGATTTAAAAAATGAATCAATTGGCCTAATC-AGTACAAATAG
128 T--ATAAGTAAAAGATTTAAAAAATAAATCTATTTATCGAA-CAAGTACAAATAA
* * *
8182 TTATGACTGTTTGAATAATTATCTATTTCAAATTATTATGACCTTTTGTTTTATCAC-ATAAC-A
1 TTATGACTATTTGAATAATTATCTATTTCAAATTGTTATGACCTTTTGTTTTATC-CTAAAACAA
* * ** * * * * *
8245 ATTGTT-TTTGTCTGTATTAGCTTATTT-GAATAATATAATTCTATTTTATTAATATTCTAGA-A
65 ATT-TTCTAT-TC-ATACAAGCTTATTTCAAATAAAATAATACAAATTTATTAATATTC-AGACA
* * * *
8307 A-T-TAA-TAAGAGATTTAAAAAATGAATCTGTTTATTGAACAAGTACAAATAA
126 ACTATAAGTAAAAGATTTAAAAAATAAATCTATTTATCGAACAAGTACAAATAA
* * * * *
8358 TTATGACTATTTGAATAATTATCTATTTCTAACTGCTATAACCTTTTTGTTTTGTCCTAAAACAA
1 TTATGACTATTTGAATAATTATCTATTTCAAATTGTTATGACC-TTTTGTTTTATCCTAAAAC-A
*
8423 AATTTTCTATTCATACAAGCTTATTTCAAATAAAATTATACAAATTTATTAATATTCAGACAACT
64 AATTTTCTATTCATACAAGCTTATTTCAAATAAAATAATACAAATTTATTAATATTCAGACAACT
* ** *
8488 AATAAGTAAAAGATTTAAAAAATAAATCTATTTATCGAATAAGTTTAAACAA
129 -ATAAGTAAAAGATTTAAAAAATAAATCTATTTATCGAACAAGTACAAATAA
* * * *
8540 TTCTGACTATTTGAACAATTATTTATTTCAAATTGTTATGACTTTTTGTTTT
1 TTATGACTATTTGAATAATTATCTATTTCAAATTGTTATGACCTTTTGTTTT
8592 CTCATGATAC
Statistics
Matches: 734, Mismatches: 176, Indels: 85
0.74 0.18 0.09
Matches are distributed among these distances:
175 1 0.00
176 73 0.10
177 37 0.05
178 31 0.04
179 14 0.02
180 103 0.14
181 379 0.52
182 91 0.12
183 5 0.01
ACGTcount: A:0.40, C:0.10, G:0.08, T:0.41
Consensus pattern (179 bp):
TTATGACTATTTGAATAATTATCTATTTCAAATTGTTATGACCTTTTGTTTTATCCTAAAACAAA
TTTTCTATTCATACAAGCTTATTTCAAATAAAATAATACAAATTTATTAATATTCAGACAACTAT
AAGTAAAAGATTTAAAAAATAAATCTATTTATCGAACAAGTACAAATAA
Found at i:8385 original size:16 final size:17
Alignment explanation
Indices: 8353--8385 Score: 50
Period size: 18 Copynumber: 1.9 Consensus size: 17
8343 AACAAGTACA
8353 AATAATTATGACTATTTG
1 AATAATTAT-ACTATTTG
8371 AATAATTAT-CTATTT
1 AATAATTATACTATTT
8386 CTAACTGCTA
Statistics
Matches: 15, Mismatches: 0, Indels: 2
0.88 0.00 0.12
Matches are distributed among these distances:
16 6 0.40
18 9 0.60
ACGTcount: A:0.39, C:0.06, G:0.06, T:0.48
Consensus pattern (17 bp):
AATAATTATACTATTTG
Found at i:8756 original size:13 final size:13
Alignment explanation
Indices: 8700--8756 Score: 53
Period size: 13 Copynumber: 4.5 Consensus size: 13
8690 AAATAGTTTT
* *
8700 GATAATAAATTTA
1 GATAATTAATTAA
8713 GATAATT-ATTAA
1 GATAATTAATTAA
* *
8725 GATAGTTAATTAT
1 GATAATTAATTAA
**
8738 TTTAATTAATTAA
1 GATAATTAATTAA
8751 GATAAT
1 GATAAT
8757 AATATAGTTA
Statistics
Matches: 33, Mismatches: 10, Indels: 2
0.73 0.22 0.04
Matches are distributed among these distances:
12 10 0.30
13 23 0.70
ACGTcount: A:0.47, C:0.00, G:0.09, T:0.44
Consensus pattern (13 bp):
GATAATTAATTAA
Found at i:9380 original size:17 final size:16
Alignment explanation
Indices: 9340--9389 Score: 61
Period size: 14 Copynumber: 3.2 Consensus size: 16
9330 ATCTATATAG
9340 TTATAATTAA-TTTAA
1 TTATAATTAATTTTAA
9355 TTA-AA-TAATTTTAA
1 TTATAATTAATTTTAA
9369 TTATCAATTAATTTATAA
1 TTAT-AATTAATTT-TAA
9387 TTA
1 TTA
9390 ATAAAAACTA
Statistics
Matches: 30, Mismatches: 0, Indels: 7
0.81 0.00 0.19
Matches are distributed among these distances:
13 3 0.10
14 10 0.33
15 3 0.10
16 2 0.07
17 6 0.20
18 6 0.20
ACGTcount: A:0.46, C:0.02, G:0.00, T:0.52
Consensus pattern (16 bp):
TTATAATTAATTTTAA
Found at i:10315 original size:173 final size:175
Alignment explanation
Indices: 10049--10427 Score: 453
Period size: 176 Copynumber: 2.1 Consensus size: 175
10039 AACTATACAT
* * * * *
10049 TTGTTCAAATAGTCATAACTATTT-AAATAGGTTCGATAAATA-AATTTATTTTTTAAATTTCTT
1 TTGTTCAAATAGCCATAACTATTTGAACTA-ATTCGATAAACATAA-TCA-TTTTTAAA--TC--
*
10112 ACTTATTAATCTTTGAAAGATTAATAAATTAGTATTATTTTATTCT-A-AAGCTTGTATGATA-A
59 ACTTATTAATCTTTGAAAGATTAATAAATTACTATTATTTTATTCTAATAAGCTTGTATGA-ACA
* *
10174 AAAACAATTGTTATATGACCAAACAAAAGGTAATATTGATTTCAAATAGATAA
123 AAAACAATTGTTATATGACAAAACAAAAGGTAATAATGATTTCAAATAGATAA
* *
10227 TTGTTGAAATAGCCATAATTATTTGAACTAATTCGATAAACATAATCATTTTTAAATCACTTATT
1 TTGTTCAAATAGCCATAACTATTTGAACTAATTCGATAAACATAATCATTTTTAAATCACTTATT
* * * * ** *
10292 AATTTTTGGAATATTAATAAATTACTATTATTTTATTTTGAATAAGCTTGTATGAACTGAAATAA
66 AATCTTTGAAAGATTAATAAATTACTATTATTTTATTCT-AATAAGCTTGTATGAACAAAAACAA
* * *
10357 TTGTTTTATGACAAAACAAAAGGTCATAATGATTTTAAATAGATAA
130 TTGTTATATGACAAAACAAAAGGTAATAATGATTTCAAATAGATAA
*
10403 TTGTTCAAATAGTCATAACTATTTG
1 TTGTTCAAATAGCCATAACTATTTG
10428 GATTTTTTCA
Statistics
Matches: 172, Mismatches: 23, Indels: 14
0.82 0.11 0.07
Matches are distributed among these distances:
173 41 0.24
175 4 0.02
176 80 0.47
177 8 0.05
178 33 0.19
179 6 0.03
ACGTcount: A:0.41, C:0.08, G:0.10, T:0.41
Consensus pattern (175 bp):
TTGTTCAAATAGCCATAACTATTTGAACTAATTCGATAAACATAATCATTTTTAAATCACTTATT
AATCTTTGAAAGATTAATAAATTACTATTATTTTATTCTAATAAGCTTGTATGAACAAAAACAAT
TGTTATATGACAAAACAAAAGGTAATAATGATTTCAAATAGATAA
Found at i:10496 original size:156 final size:157
Alignment explanation
Indices: 10289--10583 Score: 493
Period size: 156 Copynumber: 1.9 Consensus size: 157
10279 TAAATCACTT
* *
10289 ATTAATTTTTGGAATATTAATAAATTACTATTATTTTATTTTGAATAAGCTTGTATGAACTGAAA
1 ATTAATTTTTGAAATATTAAGAAATTACTATTATTTTATTTTGAATAAGCTTGTATGAACTGAAA
* *
10354 TAATTGTTTTATGACAAAACAAAAGGTCATAATGATTTTAAATAGATAATTGTTCAAATAGTCAT
66 CAATTGTTTTATGACAAAACAAAAGGTCATAATGATTTTAAATAAATAATTGTTCAAATAGTCAT
10419 AACTATTTGGATTTTTTCAGTGAACAA
131 AACTATTTGGATTTTTTCAGTGAACAA
* * *
10446 ATTAATTTTTGAAATATTAAGAAATTAGTA-TATTTTATTTTGGATAAGCTTTTATGAACTGAAA
1 ATTAATTTTTGAAATATTAAGAAATTACTATTATTTTATTTTGAATAAGCTTGTATGAACTGAAA
* * *
10510 CAATTGTTTTTTGTCAAAACAAAAGGTCATAATGATTTTAAATAAATAATTGTTTAAATAGTCAT
66 CAATTGTTTTATGACAAAACAAAAGGTCATAATGATTTTAAATAAATAATTGTTCAAATAGTCAT
10575 AACTATTTG
131 AACTATTTG
10584 AACTTGATTG
Statistics
Matches: 128, Mismatches: 10, Indels: 1
0.92 0.07 0.01
Matches are distributed among these distances:
156 101 0.79
157 27 0.21
ACGTcount: A:0.40, C:0.06, G:0.12, T:0.42
Consensus pattern (157 bp):
ATTAATTTTTGAAATATTAAGAAATTACTATTATTTTATTTTGAATAAGCTTGTATGAACTGAAA
CAATTGTTTTATGACAAAACAAAAGGTCATAATGATTTTAAATAAATAATTGTTCAAATAGTCAT
AACTATTTGGATTTTTTCAGTGAACAA
Found at i:10664 original size:7 final size:7
Alignment explanation
Indices: 10654--10688 Score: 61
Period size: 7 Copynumber: 4.9 Consensus size: 7
10644 TAATAATTAA
10654 AAATTTT
1 AAATTTT
10661 AAATTTT
1 AAATTTT
10668 AAATTTT
1 AAATTTT
10675 AAATATTT
1 AAAT-TTT
10683 AAATTT
1 AAATTT
10689 AATATTTAAT
Statistics
Matches: 27, Mismatches: 0, Indels: 2
0.93 0.00 0.07
Matches are distributed among these distances:
7 20 0.74
8 7 0.26
ACGTcount: A:0.46, C:0.00, G:0.00, T:0.54
Consensus pattern (7 bp):
AAATTTT
Found at i:10671 original size:14 final size:15
Alignment explanation
Indices: 10654--10703 Score: 70
Period size: 14 Copynumber: 3.5 Consensus size: 15
10644 TAATAATTAA
10654 AAATTTTAAAT-TTT
1 AAATTTTAAATATTT
10668 AAATTTTAAATATTT
1 AAATTTTAAATATTT
10683 AAA-TTT-AATATTT
1 AAATTTTAAATATTT
*
10696 AATTTTTA
1 AAATTTTA
10704 TTATTTAATT
Statistics
Matches: 32, Mismatches: 1, Indels: 5
0.84 0.03 0.13
Matches are distributed among these distances:
13 9 0.28
14 17 0.53
15 6 0.19
ACGTcount: A:0.44, C:0.00, G:0.00, T:0.56
Consensus pattern (15 bp):
AAATTTTAAATATTT
Found at i:10708 original size:14 final size:14
Alignment explanation
Indices: 10655--10713 Score: 59
Period size: 14 Copynumber: 4.3 Consensus size: 14
10645 AATAATTAAA
*
10655 AATTTTAAAT-TTT
1 AATTTTTAATATTT
*
10668 AAATTTTAAATATTT
1 -AATTTTTAATATTT
*
10683 AA-ATTTAATATTT
1 AATTTTTAATATTT
*
10696 AATTTTTATTATTT
1 AATTTTTAATATTT
10710 AATT
1 AATT
10714 ATCGATATTT
Statistics
Matches: 39, Mismatches: 4, Indels: 4
0.83 0.09 0.09
Matches are distributed among these distances:
13 11 0.28
14 25 0.64
15 3 0.08
ACGTcount: A:0.41, C:0.00, G:0.00, T:0.59
Consensus pattern (14 bp):
AATTTTTAATATTT
Found at i:11538 original size:65 final size:67
Alignment explanation
Indices: 11431--11560 Score: 205
Period size: 65 Copynumber: 2.0 Consensus size: 67
11421 TTTCAAATCA
*
11431 TTATTACCTTTCATTTTGTCATAAAACAATTGTTTTCTAACATACAAGCTTA-TTAA-ATAAAAT
1 TTATTACCTTTCATTTTATCATAAAACAATTGTTTTCTAACATACAAGCTTATTTAATATAAAAT
11494 TG
66 TG
11496 TTATTACCTTTC-TTTCTATCATAAAACAATTGCTTTTC-AACATACAAGCTTATTTAATATAAA
1 TTATTACCTTTCATTT-TATCATAAAACAATTG-TTTTCTAACATACAAGCTTATTTAATATAAA
11559 AT
64 AT
11561 AATAGTAATT
Statistics
Matches: 60, Mismatches: 1, Indels: 6
0.90 0.01 0.09
Matches are distributed among these distances:
64 3 0.05
65 41 0.68
66 9 0.15
67 7 0.12
ACGTcount: A:0.37, C:0.15, G:0.05, T:0.43
Consensus pattern (67 bp):
TTATTACCTTTCATTTTATCATAAAACAATTGTTTTCTAACATACAAGCTTATTTAATATAAAAT
TG
Found at i:13470 original size:180 final size:179
Alignment explanation
Indices: 13050--13962 Score: 533
Period size: 180 Copynumber: 5.1 Consensus size: 179
13040 TAGATAATTG
* * * * ** * *
13050 TTATGACTTTTTGTTTTGTCATAAAACAATTGTTTCTATTCA-ACAAGCTTATTT-GGATTAAAA
1 TTATGACTATTTGTTTTGTCAGAAAGCAATCGGATCTATTCATACAAGCTT-TTTAAGAATAAAA
* * * * *
13113 TAATATTAATTTATTAATATTT-AGATAAT-TATAAGTAAAAAATTTAAAAAATAAATATATTTA
65 TAATA-TAATTTATTAATATTTCA-AAAATGAATAAAT-AAAAATTAAAAAAATAAATTTATTTA
* * * * ** * * *
13176 CTAAATAAGTTCAAATAG-GCTGACTATTTGAATAATTATCTATTTCAAATCA
127 TTGAACAAATTCAAATAGTTATGACTATCTAAACAATTATCTATTTCAAATCA
* * * * * * * * * * * * *
13228 TTATGACCT-TTTATTTTTTAATAAAACAAT-TGTTTTAGTTGATATAA-ATTATTAAAAATAAA
1 TTATGA-CTATTTGTTTTGTCAGAAAGCAATCGGATCTA-TTCATACAAGCTTTTTAAGAATAAA
** * *
13290 ATAATACTAATTTATTAATATTTCAAAAATGAATGAGTTAGAAAATTAAAAAAATGAATTTGTTT
64 ATAATA-TAATTTATTAATATTTCAAAAATGAAT-AAATA-AAAATTAAAAAAATAAATTTATTT
*
13355 ATTGAA-AAAGTTCAAA-AGTTATGACTATCTAAGCAATTATCTATTTCAACA-CA
126 ATTGAACAAA-TTCAAATAGTTATGACTATCTAAACAATTATCTATTTCAA-ATCA
* * *
13408 TTA-GACTTTTTGTTTTGTCAGAAAGCAATTGGATCTATTCATGA-AAGCTTATTT-CGAATAAA
1 TTATGACTATTTGTTTTGTCAGAAAGCAATCGGATCTATTCAT-ACAAGCTT-TTTAAGAATAAA
* * * * *
13470 ATAATATAAATTTATTAATA-TTCAAAAAATTAATAAATAATAATTTAAACAATAAATTTATTTT
64 ATAATAT-AATTTATTAATATTTC-AAAAATGAATAAATAAAAATTAAAAAAATAAATTTATTTA
* * * **
13534 TTGAACACATTTAAATAGTTATGACTATTTAAACAATTATCTATTTCAAATTG
127 TTGAACAAATTCAAATAGTTATGACTATCTAAACAATTATCTATTTCAAATCA
* * * **
13587 TTATGACTATTTGTTTTGTTATAAATCAATCGTTTCTATTCATACAAGCTTTTTAAGAATAAAAT
1 TTATGACTATTTGTTTTGTCAGAAAGCAATCGGATCTATTCATACAAGCTTTTTAAGAATAAAAT
* * * * * * * **
13652 AATATTAATTTATTAAAATTTCAAAAATTAATAAGTAAAAGTT--TAAAA-AAATCTGTTTA-CC
66 AATA-TAATTTATTAATATTTCAAAAATGAATAAATAAAAATTAAAAAAATAAATTTATTTATTG
* * * * * * *
13713 AAGCAAGTTCAAATAATTATAACTATTTGAACAAATATTTATTTCAAATCA
130 AA-CAAATTCAAATAGTTATGACTATCTAAACAATTATCTATTTCAAATCA
* * * * * ** * ** *
13764 TTATGATTTTTTCTTTGGTCATAAAATAATTGTTTCTATTCATAAAAG-TTTATTCAA-AATAAA
1 TTATGACTATTTGTTTTGTCAGAAAGCAATCGGATCTATTCATACAAGCTTT-TT-AAGAATAAA
* * ** * *
13827 ATAATATTAATTTATTAATA-TTCTAAAAATTAATAAGTTGGAGATT-TAAAAATAAATTTATTT
64 ATAATA-TAATTTATTAATATTTC-AAAAATGAATAA-ATAAAAATTAAAAAAATAAATTTATTT
*** * * * * * * *
13890 AGCAAACAAGTTCAAATAGTCATGGCCATTTGAACTATTATCTATTTCAAATCA
126 ATTGAACAAATTCAAATAGTTATGACTATCTAAACAATTATCTATTTCAAATCA
*
13944 TTGTGAC-ATTTTGTTTTGT
1 TTATGACTA-TTTGTTTTGT
13963 TGTAAAATAA
Statistics
Matches: 580, Mismatches: 120, Indels: 68
0.76 0.16 0.09
Matches are distributed among these distances:
176 8 0.01
177 130 0.22
178 101 0.17
179 88 0.15
180 243 0.42
181 10 0.02
ACGTcount: A:0.42, C:0.08, G:0.08, T:0.41
Consensus pattern (179 bp):
TTATGACTATTTGTTTTGTCAGAAAGCAATCGGATCTATTCATACAAGCTTTTTAAGAATAAAAT
AATATAATTTATTAATATTTCAAAAATGAATAAATAAAAATTAAAAAAATAAATTTATTTATTGA
ACAAATTCAAATAGTTATGACTATCTAAACAATTATCTATTTCAAATCA
Found at i:13565 original size:18 final size:18
Alignment explanation
Indices: 13542--13598 Score: 64
Period size: 18 Copynumber: 3.2 Consensus size: 18
13532 TTTTGAACAC
13542 ATTTAAATAGTTATGACT
1 ATTTAAATAGTTATGACT
* *
13560 ATTTAAACAATTAT--CT
1 ATTTAAATAGTTATGACT
*
13576 ATTTCAAATTGTTATGACT
1 ATTT-AAATAGTTATGACT
13595 ATTT
1 ATTT
13599 GTTTTGTTAT
Statistics
Matches: 31, Mismatches: 5, Indels: 5
0.76 0.12 0.12
Matches are distributed among these distances:
16 6 0.19
17 7 0.23
18 12 0.39
19 6 0.19
ACGTcount: A:0.37, C:0.09, G:0.07, T:0.47
Consensus pattern (18 bp):
ATTTAAATAGTTATGACT
Found at i:13857 original size:357 final size:357
Alignment explanation
Indices: 13050--14763 Score: 1118
Period size: 357 Copynumber: 4.7 Consensus size: 357
13040 TAGATAATTG
* * *
13050 TTATGACTTTTTGTTTTGTCATAAAACAATTGTTTCTATTCA-ACAAGCTTATTTGGATTAAAAT
1 TTATGACTTTTTGTTTTGTCATAAAACAATTGTTTCTATTCATAAAAGCTTA-TTCGAATAAAAT
* *
13114 AATATTAATTTATTAATATT-TAGATAATT-ATAAGTAAAAAATTTAAAAAATAAATATATTTAC
65 AATATTAATTTATTAATATTCTA-AAAATTAATAAGT-AAAAATTT-AAAAATAAATTTATTTAC
* * *
13177 TAAATAAGTTCAAATAGGC-TGACTATTTGAATAATTATCTATTTCAAATCATTATGACCT-TTT
127 TAAACAAGTTCAAATAGTCATGACTATTTGAACAATTATCTATTTCAAATCATTATGA-CTATTT
* * * *
13240 ATTTT-TTAATAAAACAATTGTTTTAGTTGATATAAATTATTAAAAATAAAATAATACTAATTTA
191 GTTTTGTT-ATAAAACAATCGTTTTAGTTCATACAAATTATTAAAAATAAAATAATACTAATTTA
* * * **
13304 TTAATATTTCAAAAATGAATGAGTTAGAAAATTAAAAAAATGAATTTGTTTATTGAAAAAGTTCA
255 TTAAAATTTCAAAAATGAATAAGTTAGAAAATTAAAAAAA-GAATCTGTTTATCCAAAAAGTTCA
* * *
13369 AAAGTTATGACTATCTAAGCAATTATCTATTTCAACACA
319 AAAATTATAACTATCTAAGCAAATATCTATTTCAACACA
* * ** *
13408 TTA-GACTTTTTGTTTTGTCAGAAAGCAATTGGATCTATTCATGAAAGCTTATTTCGAATAAAAT
1 TTATGACTTTTTGTTTTGTCATAAAACAATTGTTTCTATTCATAAAAGCTTA-TTCGAATAAAAT
* * * * ** *
13472 AATATAAATTTATTAATATTCAAAAAATTAATAAATAATAATTTAAACAATAAATTTATTTTTTG
65 AATATTAATTTATTAATATTCTAAAAATTAATAAGTAAAAATTTAAA-AATAAATTTATTTACTA
* * * **
13537 AACACA-TTTAAATAGTTATGACTATTTAAACAATTATCTATTTCAAATTGTTATGACTATTTGT
129 AACA-AGTTCAAATAGTCATGACTATTTGAACAATTATCTATTTCAAATCATTATGACTATTTGT
* * * * *
13601 TTTGTTATAAATCAATCGTTTCTA-TTCATACAAGCTTTTTAAGAATAAAATAATATTAATTTAT
193 TTTGTTATAAAACAATCGTTT-TAGTTCATACAA-ATTATTAAAAATAAAATAATACTAATTTAT
* * * *
13665 TAAAATTTCAAAAATTAATAAG-TA-AAAGTT-TAAAAA-AATCTGTTTA-CCAAGCAAGTTCAA
256 TAAAATTTCAAAAATGAATAAGTTAGAAAATTAAAAAAAGAATCTGTTTATCCAA-AAAGTTCAA
* *
13725 ATAATTATAACTATTTGAA-CAAATATTTATTTCAA-ATCA
320 A-AATTATAACTATCT-AAGCAAATATCTATTTCAACA-CA
* * * * * *
13764 TTATGATTTTTTCTTTGGTCATAAAATAATTGTTTCTATTCATAAAAGTTTATTCAAAATAAAAT
1 TTATGACTTTTTGTTTTGTCATAAAACAATTGTTTCTATTCATAAAAGCTTATTC-GAATAAAAT
** *
13829 AATATTAATTTATTAATATTCTAAAAATTAATAAGTTGGAGATTTAAAAATAAATTTATTTAGC-
65 AATATTAATTTATTAATATTCTAAAAATTAATAAG-TAAAAATTTAAAAATAAATTTATTTA-CT
* * * *
13893 AAACAAGTTCAAATAGTCATGGCCATTTGAACTATTATCTATTTCAAATCATTGTGAC-ATTTTG
128 AAACAAGTTCAAATAGTCATGACTATTTGAACAATTATCTATTTCAAATCATTATGACTA-TTTG
* * *
13957 TTTTGTTGTAAAATAATACCAATGATTTAGAATAATTGGTATTCATACAGAATTATTCAAAATAA
192 TTTTGTTATAAAACAAT--C---G-TTT----T-A---G--TTCATACA-AATTATTAAAAATAA
** * * * *
14022 AATAATACTAATTTATTACTATTTCAAAAATTAATAAG---G--ATTTAAAAATA-AATGTGTTT
240 AATAATACTAATTTATTAAAATTTCAAAAATGAATAAGTTAGAAAATTAAAAAAAGAATCTGTTT
* ** ** * * * * * **
14081 GTTGAATCAGTTCAAATAGTTAAAACTAT-TAGAACAATTATCTGTTTCAACTTA
305 ATCCAAAAAGTTCAAA-AATTATAACTATCTA-AGCAAATATCTATTTCAACACA
* * * * * * * ** * *
14135 TTCTGATTTTTTGTTTAGTCATAAAATAATTGTTTC-AGCTCATACATGCCAATTTGAAATATAA
1 TTATGACTTTTTGTTTTGTCATAAAACAATTGTTTCTA-TTCATAAAAGCTTATTCG-AATAAAA
* * * * *
14199 TAATACTAATTTATTAACATT-TAAAAAATTAATAAGCAAGAAATTAAAAAACATAAA-TCAGTT
64 TAATATTAATTTATTAATATTCT-AAAAATTAATAAGTAA-AAATT-TAAAA-ATAAATTTA-TT
* * * * * * * *
14262 TATTGAACAAGTTAAAATTGTTATGACTATTTGAGCAATTATATATTTAAAATCATTATGAC-AT
124 TACTAAACAAGTTCAAATAGTCATGACTATTTGAACAATTATCTATTTCAAATCATTATGACTA-
* * * * * ** ** *
14326 TTTATTTTATCATAAAACAATTGTTTCAGCGCATA-AAAGCTTATTCGAAATAAAATAATA-TTA
188 TTTGTTTTGTTATAAAACAATCGTTTTAGTTCATACAAA--TTATTAAAAATAAAATAATACTAA
* * * *
14389 CTTATTAATATTTCAATAATTG-ATAAGTTAG-AGATTCAAAAAATA-AAT-TAGTTTAT-CAAA
251 TTTATTAAAATTTCAA-AAATGAATAAGTTAGAAAATT-AAAAAA-AGAATCT-GTTTATCCAAA
* * * * * ** *
14449 TTAGTTCAAATAATTACAGCCATTTAAATAATTATCTATTTCAA-ATCA
312 -AAGTTCAAA-AATTATAACTATCTAAGCAAATATCTATTTCAACA-CA
** * * * * *
14497 TTATGAAC-TTTTGTTTCATCATAAACCAATTGTTTTTTTATCATACAAGCCTATTCGAATTAAA
1 TTATG-ACTTTTTGTTTTGTCATAAAACAATTGTTTCTAT-TCATAAAAGCTTATTCGAA-TAAA
* * * * * * * * *
14561 ATAAAACTAATTTACTAATATT-TCAAAAATCAATAAGTAGGAGATTCAAAAAATAAGTTTGTTT
63 ATAATATTAATTTATTAATATTCT-AAAAATTAATAAGTA-AAAATT-TAAAAATAAATTTATTT
* * * * * * *
14625 ACTGAGCCAGTTCAAATAGTTATGACTATTTGAACAATTATATATTTCAAATTATTATAAC-ATT
125 ACTAAACAAGTTCAAATAGTCATGACTATTTGAACAATTATCTATTTCAAATCATTATGACTA-T
* * ** * *
14689 TTGTTATGTCATAAAACAATTATTTCTA-TTCACACAAGTTTATTAAAAATAAAATAATACT-AT
189 TTGTTTTGTTATAAAACAATCGTTT-TAGTTCATACAA-ATTATTAAAAATAAAATAATACTAAT
*
14752 TGTAATAAAATT
252 T-TATTAAAATT
14764 ATAAAATTAA
Statistics
Matches: 1066, Mismatches: 215, Indels: 145
0.75 0.15 0.10
Matches are distributed among these distances:
354 2 0.00
355 21 0.02
356 57 0.05
357 225 0.21
358 91 0.09
359 73 0.07
360 51 0.05
361 8 0.01
362 180 0.17
363 78 0.07
366 1 0.00
367 4 0.00
368 1 0.00
369 1 0.00
370 7 0.01
371 130 0.12
372 8 0.01
373 127 0.12
374 1 0.00
ACGTcount: A:0.43, C:0.09, G:0.08, T:0.40
Consensus pattern (357 bp):
TTATGACTTTTTGTTTTGTCATAAAACAATTGTTTCTATTCATAAAAGCTTATTCGAATAAAATA
ATATTAATTTATTAATATTCTAAAAATTAATAAGTAAAAATTTAAAAATAAATTTATTTACTAAA
CAAGTTCAAATAGTCATGACTATTTGAACAATTATCTATTTCAAATCATTATGACTATTTGTTTT
GTTATAAAACAATCGTTTTAGTTCATACAAATTATTAAAAATAAAATAATACTAATTTATTAAAA
TTTCAAAAATGAATAAGTTAGAAAATTAAAAAAAGAATCTGTTTATCCAAAAAGTTCAAAAATTA
TAACTATCTAAGCAAATATCTATTTCAACACA
Found at i:14162 original size:191 final size:193
Alignment explanation
Indices: 13813--14164 Score: 419
Period size: 191 Copynumber: 1.8 Consensus size: 193
13803 TCATAAAAGT
*
13813 TTATTCAAAATAAAATAATATTAATTTATTAATATTCTAAAAATTAATAAGTTGGAGATTTAAAA
1 TTATTCAAAATAAAATAATACTAATTTATTAATATTCTAAAAATTAATAA---GGAGATTTAAAA
*** * *
13878 ATAAATTTATTTAGCAAACAAGTTCAAATAGTCATGGCCATTTGAACTATTATCTATTTCAAATC
63 ATAAATTTATTTAGCAAACAAGTTCAAATAGTCAAAACCATTAGAACAATTATCTATTTCAAATC
* * **
13943 ATTGTGACATTTTGTTTTGTTGTAAAATAATACCAATGATTTAGAATAATTGGTATTCATACAGA
128 ATTCTGACATTTTGTTTAGTCATAAAATAATACCAATGATTTAGAATAATTGGTATTCATACAGA
14008 A
193 A
*
14009 TTATTCAAAATAAAATAATACTAATTTATTACTATT-TCAAAAATTAATAA-G-GATTTAAAAAT
1 TTATTCAAAATAAAATAATACTAATTTATTAATATTCT-AAAAATTAATAAGGAGATTTAAAAAT
* * * * * *
14071 AAATGTGT-TTGTTG-AATC-AGTTCAAATAGTTAAAACTATTAGAACAATTATCTGTTTCAACT
65 AAAT-T-TATT-TAGCAAACAAGTTCAAATAGTCAAAACCATTAGAACAATTATCTATTTCAAAT
* **
14133 TATTCTGATTTTTTGTTTAGTCATAAAATAAT
127 CATTCTGACATTTTGTTTAGTCATAAAATAAT
14165 TGTTTCAGCT
Statistics
Matches: 132, Mismatches: 20, Indels: 13
0.80 0.12 0.08
Matches are distributed among these distances:
191 75 0.57
192 7 0.05
193 3 0.02
195 1 0.01
196 46 0.35
ACGTcount: A:0.42, C:0.09, G:0.09, T:0.40
Consensus pattern (193 bp):
TTATTCAAAATAAAATAATACTAATTTATTAATATTCTAAAAATTAATAAGGAGATTTAAAAATA
AATTTATTTAGCAAACAAGTTCAAATAGTCAAAACCATTAGAACAATTATCTATTTCAAATCATT
CTGACATTTTGTTTAGTCATAAAATAATACCAATGATTTAGAATAATTGGTATTCATACAGAA
Found at i:14385 original size:182 final size:179
Alignment explanation
Indices: 14010--14750 Score: 615
Period size: 182 Copynumber: 4.1 Consensus size: 179
14000 CATACAGAAT
* *
14010 TATTCAAAATAAAATAATACTAATTTATT-ACTATTTCAAAAA-T--TAA-TAAG-GATT-TAAA
1 TATTCGAAATAAAATAATACTAATTTATTAAC-ATTTCAAAAATTAATAAGTAAGAGATTCAAAA
* ** * * * *
14068 AATAAATGT-GTTTGTTGAATCAGTTCAAATAGTTAAAACTATTAGAACAATTATCTGTTTCAAC
65 AATAAAT-TAGTTTATTGAA-CAGTTCAAATAGTTATGACTATTTGAACAATTATATATTTCAAA
* * * * *
14132 TTATTCTG-ATTTTTTGTTTAGTCATAAAATAATTGTTTCAGCTCATACATGCC
128 TCATTATGAATTTTGT-TTTA-TCATAAAACAATTGTTTCAGCTCATACAAGCC
* * * * * * *
14185 AATTTGAAATATAATAATACTAATTTATTAACATTTAAAAAATTAATAAGCAAGAAATTAAAAAA
1 TATTCGAAATAAAATAATACTAATTTATTAACATTTCAAAAATTAATAAGTAAGAGATTCAAAAA
* * * * *
14250 CATAAATCAGTTTATTGAACAAGTTAAAATTGTTATGACTATTTGAGCAATTATATATTTAAAAT
66 -ATAAATTAGTTTATTGAAC-AGTTCAAATAGTTATGACTATTTGAACAATTATATATTTCAAAT
* * * *
14315 CATTATGACATTTTATTTTATCATAAAACAATTGTTTCAGCGCATAAAAGCT
129 CATTATGA-ATTTTGTTTTATCATAAAACAATTGTTTCAGCTCATACAAGCC
* * * * * *
14367 TATTCGAAATAAAATAATA-TTACTTATTAATATTTCAATAATTGATAAGTTAGAGATTCAAAAA
1 TATTCGAAATAAAATAATACTAATTTATTAACATTTCAAAAATTAATAAGTAAGAGATTCAAAAA
** * * * * * * *
14431 ATAAATTAGTTTATCAAATTAGTTCAAATAATTA-CAGCCATTTAAATAATTATCTATTTCAAAT
66 ATAAATTAGTTTATTGAA-CAGTTCAAATAGTTATGA-CTATTTGAACAATTATATATTTCAAAT
* * ****
14495 CATTATGAACTTTTGTTTCATCATAAACCAATTGTTTTTTTATCATACAAGCC
129 CATTATGAA-TTTTGTTTTATCATAAAACAATTG-TTTCAGCTCATACAAGCC
* * * * * *
14548 TATTCGAATTAAAATAAAACTAATTTACTAATATTTCAAAAATCAATAAGTAGGAGATTCAAAAA
1 TATTCGAAATAAAATAATACTAATTTATTAACATTTCAAAAATTAATAAGTAAGAGATTCAAAAA
* * * * *
14613 ATAAGTTTGTTTACTGAGCCAGTTCAAATAGTTATGACTATTTGAACAATTATATATTTCAAATT
66 ATAAATTAGTTTATTGA-ACAGTTCAAATAGTTATGACTATTTGAACAATTATATATTTCAAATC
* * * * * * **
14678 ATTATAACATTTTGTTATGTCATAAAACAATTATTTCTA-TTCACACAAGTT
130 ATTATGA-ATTTTGTTTTATCATAAAACAATTGTTTC-AGCTCATACAAGCC
**
14729 TATTAAAAATAAAATAATACTA
1 TATTCGAAATAAAATAATACTA
14751 TTGTAATAAA
Statistics
Matches: 440, Mismatches: 105, Indels: 36
0.76 0.18 0.06
Matches are distributed among these distances:
175 34 0.08
176 3 0.01
178 3 0.01
179 5 0.01
180 79 0.18
181 97 0.22
182 207 0.47
183 6 0.01
184 6 0.01
ACGTcount: A:0.43, C:0.10, G:0.08, T:0.39
Consensus pattern (179 bp):
TATTCGAAATAAAATAATACTAATTTATTAACATTTCAAAAATTAATAAGTAAGAGATTCAAAAA
ATAAATTAGTTTATTGAACAGTTCAAATAGTTATGACTATTTGAACAATTATATATTTCAAATCA
TTATGAATTTTGTTTTATCATAAAACAATTGTTTCAGCTCATACAAGCC
Found at i:14837 original size:11 final size:10
Alignment explanation
Indices: 14793--14841 Score: 55
Period size: 10 Copynumber: 4.8 Consensus size: 10
14783 GATTTAAAAT
14793 ATTAAATA-A
1 ATTAAATATA
14802 ATTAGAATATA
1 ATTA-AATATA
* *
14813 TTTAATTATA
1 ATTAAATATA
14823 ATTAAATATTA
1 ATTAAATA-TA
14834 ATTAAATA
1 ATTAAATA
14842 AACTAATAAT
Statistics
Matches: 33, Mismatches: 4, Indels: 4
0.80 0.10 0.10
Matches are distributed among these distances:
9 4 0.12
10 15 0.45
11 14 0.42
ACGTcount: A:0.55, C:0.00, G:0.02, T:0.43
Consensus pattern (10 bp):
ATTAAATATA
Found at i:14991 original size:22 final size:22
Alignment explanation
Indices: 14958--15012 Score: 67
Period size: 22 Copynumber: 2.5 Consensus size: 22
14948 AGATTTTTAC
*
14958 TTAATTATTATA-TATTTATATAA
1 TTAA-TATTATATTAATT-TATAA
14981 TTAATATTATATTAATTTATAA
1 TTAATATTATATTAATTTATAA
*
15003 TCAATATTAT
1 TTAATATTAT
15013 CTCGATATTA
Statistics
Matches: 29, Mismatches: 2, Indels: 3
0.85 0.06 0.09
Matches are distributed among these distances:
22 21 0.72
23 8 0.28
ACGTcount: A:0.44, C:0.02, G:0.00, T:0.55
Consensus pattern (22 bp):
TTAATATTATATTAATTTATAA
Found at i:16989 original size:267 final size:267
Alignment explanation
Indices: 16514--17002 Score: 863
Period size: 267 Copynumber: 1.8 Consensus size: 267
16504 AGTTTTACTC
* *
16514 TTAGTTTTTCACACAGTTTTATTTCTTAGTTTTTTCACGTGGTAAAAGAGCTAAGACTTTCTTTC
1 TTAGTTTTTCACACAGTTTTATTTCTTAGTTTTTTCACATGGTAAAAGAGCCAAGACTTTCTTTC
* *
16579 CATTGCCCTTTCCTAATTTGTCATGTAGAAGGCTTCTTTCCTTTTCACCTACACGTGATGAGGGC
66 CATTGCCCTTTCCTAATTTGTCACGTAGAAGGCTTCTTTCCTCTTCACCTACACGTGATGAGGGC
16644 CTGTTAAAAGTTTAAATAACTAATATTATATCTAAAAATTATTTAATTTTTATTTTAATATTAAT
131 CTGTTAAAAGTTTAAATAACTAATATTATATCTAAAAATTATTTAATTTTTATTTTAATATTAAT
16709 AATTTAATAAGTTTATTATACAAGCACATAATTACTTGTATACTTCTTTATAAACAGTTTTTCAA
196 AATTTAATAAGTTTATTATACAAGCACATAATTACTTGTATACTTCTTTATAAACAGTTTTTCAA
16774 TATACAT
261 TATACAT
* ** *
16781 TTAGTTTTTCATACAGTTTTATTTCTTAGTTTTTTCACATGGTATGAGAGCCAAGACTTTCTTTT
1 TTAGTTTTTCACACAGTTTTATTTCTTAGTTTTTTCACATGGTAAAAGAGCCAAGACTTTCTTTC
* *
16846 CGTTGCCCTTTCCTAATTTGTCACGTAGAAGGCTTCTTTCCTCTTCACCTACTA-GTGATGGGGG
66 CATTGCCCTTTCCTAATTTGTCACGTAGAAGGCTTCTTTCCTCTTCACCTAC-ACGTGATGAGGG
*
16910 CTTGTTAAAAGTTTAAATAACTAATATTATATCTAAAAATTATTTAATTTTTATTTTAATATTAA
130 CCTGTTAAAAGTTTAAATAACTAATATTATATCTAAAAATTATTTAATTTTTATTTTAATATTAA
16975 TAATTTAATAAGTTTATTATACAAGCAC
195 TAATTTAATAAGTTTATTATACAAGCAC
17003 CTTAGGTTTA
Statistics
Matches: 210, Mismatches: 11, Indels: 2
0.94 0.05 0.01
Matches are distributed among these distances:
267 209 1.00
268 1 0.00
ACGTcount: A:0.30, C:0.15, G:0.11, T:0.44
Consensus pattern (267 bp):
TTAGTTTTTCACACAGTTTTATTTCTTAGTTTTTTCACATGGTAAAAGAGCCAAGACTTTCTTTC
CATTGCCCTTTCCTAATTTGTCACGTAGAAGGCTTCTTTCCTCTTCACCTACACGTGATGAGGGC
CTGTTAAAAGTTTAAATAACTAATATTATATCTAAAAATTATTTAATTTTTATTTTAATATTAAT
AATTTAATAAGTTTATTATACAAGCACATAATTACTTGTATACTTCTTTATAAACAGTTTTTCAA
TATACAT
Found at i:17130 original size:22 final size:22
Alignment explanation
Indices: 17102--17145 Score: 70
Period size: 22 Copynumber: 2.0 Consensus size: 22
17092 ATTTTTTATC
* *
17102 CTTAATTTTAGGGATACAAATA
1 CTTAATTCTAGAGATACAAATA
17124 CTTAATTCTAGAGATACAAATA
1 CTTAATTCTAGAGATACAAATA
17146 TAAATATATA
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
22 20 1.00
ACGTcount: A:0.43, C:0.11, G:0.11, T:0.34
Consensus pattern (22 bp):
CTTAATTCTAGAGATACAAATA
Found at i:17157 original size:22 final size:22
Alignment explanation
Indices: 17105--17157 Score: 54
Period size: 22 Copynumber: 2.4 Consensus size: 22
17095 TTTTATCCTT
* * *
17105 AATTTTAGGGATACAAATACTT
1 AATTATAGAGATACAAATACTA
*
17127 AATTCTAGAGATACAAATA-TA
1 AATTATAGAGATACAAATACTA
17148 AATATATAGA
1 AAT-TATAGA
17158 TTACAAGATT
Statistics
Matches: 26, Mismatches: 4, Indels: 2
0.81 0.12 0.06
Matches are distributed among these distances:
21 4 0.15
22 22 0.85
ACGTcount: A:0.49, C:0.08, G:0.11, T:0.32
Consensus pattern (22 bp):
AATTATAGAGATACAAATACTA
Found at i:17550 original size:31 final size:31
Alignment explanation
Indices: 17515--17579 Score: 87
Period size: 31 Copynumber: 2.1 Consensus size: 31
17505 AATTCATATT
*
17515 TAATTATAATTAATTAA-ATTATAATAATTAA
1 TAATTATAATTAATTAATATTACAA-AATTAA
* *
17546 TAATTCTAATTAATTAATATTCCAAAATTAA
1 TAATTATAATTAATTAATATTACAAAATTAA
17577 TAA
1 TAA
17580 GTAAAAGATT
Statistics
Matches: 30, Mismatches: 3, Indels: 2
0.86 0.09 0.06
Matches are distributed among these distances:
31 25 0.83
32 5 0.17
ACGTcount: A:0.52, C:0.05, G:0.00, T:0.43
Consensus pattern (31 bp):
TAATTATAATTAATTAATATTACAAAATTAA
Found at i:18444 original size:23 final size:21
Alignment explanation
Indices: 18404--18468 Score: 53
Period size: 22 Copynumber: 3.1 Consensus size: 21
18394 AATATTTAAC
18404 AAATATTTTAATAATTATTATT
1 AAATATTTTAATAATTA-TATT
* *
18426 AAATATTTTTACTACTTATATT
1 AAATA-TTTTAATAATTATATT
* * *
18448 TAATACTATAAT-A-TATATT
1 AAATATTTTAATAATTATATT
18467 AA
1 AA
18469 TTTTAAATAT
Statistics
Matches: 34, Mismatches: 8, Indels: 5
0.72 0.17 0.11
Matches are distributed among these distances:
19 7 0.21
21 4 0.12
22 13 0.38
23 10 0.29
ACGTcount: A:0.45, C:0.05, G:0.00, T:0.51
Consensus pattern (21 bp):
AAATATTTTAATAATTATATT
Found at i:18539 original size:31 final size:33
Alignment explanation
Indices: 18463--18541 Score: 87
Period size: 31 Copynumber: 2.5 Consensus size: 33
18453 CTATAATATA
* *
18463 TATTAATTTTAAA-T-ATTAAATATAATTTATT
1 TATTAATTTAAAATTAATTAAATATAATTTACT
*
18494 TATATAA-TTAAAATTAATTAAA-AT-TTTTACT
1 TAT-TAATTTAAAATTAATTAAATATAATTTACT
18525 TATTAATTTAAAATTAA
1 TATTAATTTAAAATTAA
18542 AATAATTATT
Statistics
Matches: 41, Mismatches: 3, Indels: 8
0.79 0.06 0.15
Matches are distributed among these distances:
30 3 0.07
31 26 0.63
32 6 0.15
33 6 0.15
ACGTcount: A:0.48, C:0.01, G:0.00, T:0.51
Consensus pattern (33 bp):
TATTAATTTAAAATTAATTAAATATAATTTACT
Found at i:18605 original size:15 final size:17
Alignment explanation
Indices: 18551--18603 Score: 54
Period size: 17 Copynumber: 3.1 Consensus size: 17
18541 AAATAATTAT
* *
18551 TATAATTAAATCATAATC
1 TATAATT-AATTATAATA
*
18569 TA-ATTTAATTATAATA
1 TATAATTAATTATAATA
*
18585 TATAATTAATTAAAATA
1 TATAATTAATTATAATA
18602 TA
1 TA
18604 ATATAAATAT
Statistics
Matches: 29, Mismatches: 5, Indels: 3
0.78 0.14 0.08
Matches are distributed among these distances:
16 10 0.34
17 17 0.59
18 2 0.07
ACGTcount: A:0.53, C:0.04, G:0.00, T:0.43
Consensus pattern (17 bp):
TATAATTAATTATAATA
Found at i:18618 original size:20 final size:22
Alignment explanation
Indices: 18454--18608 Score: 77
Period size: 22 Copynumber: 7.4 Consensus size: 22
18444 TATTTAATAC
*
18454 TATAATATAT-ATTAATTTTAAA
1 TATAATATATAATTAA-TTAAAA
* *
18476 TATTAA-ATATAATTTATT--TA
1 TA-TAATATATAATTAATTAAAA
*
18496 TATAAT-TAAAATTAATTAAAA
1 TATAATATATAATTAATTAAAA
* *
18517 T-T--TTTACTTATTAATTTAAAA
1 TATAATATA-TAATTAA-TTAAAA
*
18538 T-TAA-A-ATAATT-ATTATAA
1 TATAATATATAATTAATTAAAA
* *
18556 T-TAA-ATCATAATCTAATTTAAT
1 TATAATAT-ATAAT-TAATTAAAA
18578 TATAATATATAATTAATTAAAA
1 TATAATATATAATTAATTAAAA
18600 TATAATATA
1 TATAATATA
18609 AATATTTAAA
Statistics
Matches: 102, Mismatches: 15, Indels: 32
0.68 0.10 0.21
Matches are distributed among these distances:
18 11 0.11
19 15 0.15
20 18 0.18
21 12 0.12
22 29 0.28
23 15 0.15
24 2 0.02
ACGTcount: A:0.51, C:0.02, G:0.00, T:0.47
Consensus pattern (22 bp):
TATAATATATAATTAATTAAAA
Found at i:19297 original size:14 final size:14
Alignment explanation
Indices: 19278--19307 Score: 51
Period size: 14 Copynumber: 2.1 Consensus size: 14
19268 ATTAGAGATT
19278 ATAAATTTAGTATA
1 ATAAATTTAGTATA
*
19292 ATAAATTTATTATA
1 ATAAATTTAGTATA
19306 AT
1 AT
19308 TTAAAGTAAG
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
14 15 1.00
ACGTcount: A:0.50, C:0.00, G:0.03, T:0.47
Consensus pattern (14 bp):
ATAAATTTAGTATA
Found at i:19675 original size:18 final size:18
Alignment explanation
Indices: 19652--19689 Score: 51
Period size: 18 Copynumber: 2.1 Consensus size: 18
19642 AAATATATTA
19652 TATAATTTATAAT-ATAAT
1 TATAA-TTATAATAATAAT
*
19670 TATAATTATATTAATAAT
1 TATAATTATAATAATAAT
19688 TA
1 TA
19690 AAAATATTAT
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
17 6 0.33
18 12 0.67
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (18 bp):
TATAATTATAATAATAAT
Found at i:19831 original size:28 final size:28
Alignment explanation
Indices: 19800--19864 Score: 70
Period size: 23 Copynumber: 2.5 Consensus size: 28
19790 TTAATATACA
19800 ATTAATCTAATAAAATAATATTAATTA-T
1 ATTAATCTAATAAAATAA-ATTAATTATT
19828 ATT-A--TAAT--AATAAATTAATTATT
1 ATTAATCTAATAAAATAAATTAATTATT
19851 ATTAATCCTAATAA
1 ATTAAT-CTAATAA
19865 TTAATAATTA
Statistics
Matches: 30, Mismatches: 0, Indels: 13
0.70 0.00 0.30
Matches are distributed among these distances:
22 8 0.27
23 9 0.30
24 1 0.03
25 4 0.13
27 5 0.17
28 3 0.10
ACGTcount: A:0.52, C:0.05, G:0.00, T:0.43
Consensus pattern (28 bp):
ATTAATCTAATAAAATAAATTAATTATT
Found at i:19839 original size:23 final size:23
Alignment explanation
Indices: 19809--19884 Score: 70
Period size: 23 Copynumber: 3.3 Consensus size: 23
19799 AATTAATCTA
19809 ATAA-AATAATATTAATTATATT
1 ATAATAATAATATTAATTATATT
19831 ATAATAATAA-ATTAA-T-TATT
1 ATAATAATAATATTAATTATATT
** *
19851 ATTAATCCTAATAATTAATAATTATT
1 A-TAATAATAAT-ATTAATTA-TATT
19877 ATAATAAT
1 ATAATAAT
19885 GTTTACTTAA
Statistics
Matches: 42, Mismatches: 5, Indels: 11
0.72 0.09 0.19
Matches are distributed among these distances:
20 5 0.12
21 8 0.19
22 9 0.21
23 10 0.24
25 5 0.12
26 5 0.12
ACGTcount: A:0.53, C:0.03, G:0.00, T:0.45
Consensus pattern (23 bp):
ATAATAATAATATTAATTATATT
Found at i:19985 original size:22 final size:21
Alignment explanation
Indices: 19946--19999 Score: 63
Period size: 22 Copynumber: 2.5 Consensus size: 21
19936 GTTTATCATT
19946 ATTAATAGTTAATAATTATAA
1 ATTAATAGTTAATAATTATAA
* * *
19967 ATTAATATTATAATTATTATAT
1 ATTAATAGT-TAATAATTATAA
19989 ATTAAATAGTT
1 ATT-AATAGTT
20000 TTGTTATTAA
Statistics
Matches: 27, Mismatches: 4, Indels: 3
0.79 0.12 0.09
Matches are distributed among these distances:
21 8 0.30
22 14 0.52
23 5 0.19
ACGTcount: A:0.48, C:0.00, G:0.04, T:0.48
Consensus pattern (21 bp):
ATTAATAGTTAATAATTATAA
Found at i:20076 original size:39 final size:39
Alignment explanation
Indices: 20003--20077 Score: 98
Period size: 39 Copynumber: 1.9 Consensus size: 39
19993 AATAGTTTTG
* *
20003 TTATTAAACTATTATCTAACAATTATATAATTAATTAAC
1 TTATTAAACTAATATCTAACAACTATATAATTAATTAAC
* *
20042 TTATTAAACTAATATCTAAATAACTAT-TATTTAATT
1 TTATTAAACTAATATCT-AACAACTATATAATTAATT
20078 TATATTTAAT
Statistics
Matches: 31, Mismatches: 4, Indels: 2
0.84 0.11 0.05
Matches are distributed among these distances:
39 24 0.77
40 7 0.23
ACGTcount: A:0.45, C:0.09, G:0.00, T:0.45
Consensus pattern (39 bp):
TTATTAAACTAATATCTAACAACTATATAATTAATTAAC
Found at i:20118 original size:22 final size:22
Alignment explanation
Indices: 20058--20119 Score: 56
Period size: 22 Copynumber: 2.8 Consensus size: 22
20048 AACTAATATC
*
20058 TAAATAACTATTATTTAATTTA
1 TAAATAACTAATATTTAATTTA
** *
20080 TATTTAATTAA-AGTTTAA-TTA
1 TAAATAACTAATA-TTTAATTTA
20101 TTAAATAACTAATATTTAA
1 -TAAATAACTAATATTTAA
20120 ATGTTCAAAT
Statistics
Matches: 30, Mismatches: 7, Indels: 6
0.70 0.16 0.14
Matches are distributed among these distances:
21 4 0.13
22 25 0.83
23 1 0.03
ACGTcount: A:0.47, C:0.03, G:0.02, T:0.48
Consensus pattern (22 bp):
TAAATAACTAATATTTAATTTA
Found at i:20894 original size:17 final size:16
Alignment explanation
Indices: 20869--20921 Score: 52
Period size: 17 Copynumber: 3.1 Consensus size: 16
20859 AACATAATTC
* *
20869 ATAATTAATTGTAATTA
1 ATAAATAATT-TAATAA
*
20886 ATTAATAATATTAATAA
1 ATAAATAAT-TTAATAA
20903 ATAAATAATTTATATAA
1 ATAAATAATTTA-ATAA
20920 AT
1 AT
20922 TACTCGATAA
Statistics
Matches: 30, Mismatches: 4, Indels: 4
0.79 0.11 0.11
Matches are distributed among these distances:
16 3 0.10
17 26 0.87
18 1 0.03
ACGTcount: A:0.55, C:0.00, G:0.02, T:0.43
Consensus pattern (16 bp):
ATAAATAATTTAATAA
Found at i:22228 original size:15 final size:15
Alignment explanation
Indices: 22202--22243 Score: 61
Period size: 14 Copynumber: 2.9 Consensus size: 15
22192 TTTAAATATA
22202 ATAATT-TTTTATGT
1 ATAATTATTTTATGT
*
22216 ATAATTATTTTATAT
1 ATAATTATTTTATGT
22231 ATAA-TATTTTATG
1 ATAATTATTTTATG
22244 AATTACTAAT
Statistics
Matches: 25, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
14 14 0.56
15 11 0.44
ACGTcount: A:0.36, C:0.00, G:0.05, T:0.60
Consensus pattern (15 bp):
ATAATTATTTTATGT
Found at i:23063 original size:181 final size:179
Alignment explanation
Indices: 22738--23375 Score: 552
Period size: 181 Copynumber: 3.5 Consensus size: 179
22728 CAAAAAATTA
* * * * * * *
22738 TAAGAGATTTAGAAAAT-AATTCTATTTACCGAACCAGTTCAAATAATTATAACTATTTGAACAA
1 TAAGAAATTTAAAAAATAAATT-TATTTACCAAACAAGTTCAAATAGTTATGACTATTTAAACAA
* * * * * * * * *
22802 TTATTTATTTCAAATCATTATTACTTTTTAGTTTGTCATAAAACAATTGTTTTTGTTAAGATAAG
65 TTATCTATTTCAAATCGTTATGACCTTTTATTTTGTCATTAAACAATTGGTTTTGTTATGCT-AG
* * * * *
22867 TTTGTTCAAAATAAAATGATACTAATTTATTAATATTTAGAAAATTAATTAG
129 TTTATT-TAAATAAAATAATACTAATTTAATAATATTTAGAAAATTAATAAG
* * * * * * * *
22919 TAAGAGATTTAAAAAGTAAATTTGTTTACCAAACCATTTCAAATAGTTTTGACTATTTGAATAAT
1 TAAGAAATTTAAAAAATAAATTTATTTACCAAACAAGTTCAAATAGTTATGACTATTTAAACAAT
* * * *
22984 TATCTATTTCAAATTGTTATAACCTTTTATTTTGTCATTAAACAATTGGTTCTGTTCATGCTATT
66 TATCTATTTCAAATCGTTATGACCTTTTATTTTGTCATTAAACAATTGGTTTTGTT-ATGCTAGT
* * * *
23049 TTATTTAGAATAAAATAATATTAATTTAATAATATTTCGAAACTTAATAAC
130 TTATTTA-AATAAAATAATACTAATTTAATAATATTTAGAAAATTAATAAG
* * * * **** * * * * * **
23100 CAAGAAAATTAAAAAATAAATCTAATTGTTGAACAAGTTAAAACAGTTACGACGATATAAATGAT
1 TAAGAAATTTAAAAAATAAATTTATTTACCAAACAAGTTCAAATAGTTATGACTATTTAAACAAT
* * * *
23165 TATCTATTTTAAATCGTTATGACCTTTTCTTTTATCA-TAGAACAATT-GTTTTGTT-TGTACAA
66 TATCTATTTCAAATCGTTATGACCTTTTATTTTGTCATTA-AACAATTGGTTTTGTTATG--CTA
* *
23227 GCTTATTCTAATTAAAATAATACTAATTTAATAATATTTTA-AAAATTAATAAG
128 GTTTATT-TAAATAAAATAATACTAATTTAATAATA-TTTAGAAAATTAATAAG
* * * *
23280 TAAGAAATTTAAAAAATAAATTTATTTA-CAAATAAGTTCAAATGGTTAAGACTATTAAAACAAT
1 TAAGAAATTTAAAAAATAAATTTATTTACCAAACAAGTTCAAATAGTTATGACTATTTAAACAAT
* * *
23344 TATCTATTTAAAATTGTTCTGACCTTTT-TTTT
66 TATCTATTTCAAATCGTTATGACCTTTTATTTT
23376 AGTTATAATA
Statistics
Matches: 364, Mismatches: 85, Indels: 19
0.78 0.18 0.04
Matches are distributed among these distances:
178 6 0.02
179 49 0.13
180 74 0.20
181 228 0.63
182 7 0.02
ACGTcount: A:0.41, C:0.09, G:0.08, T:0.42
Consensus pattern (179 bp):
TAAGAAATTTAAAAAATAAATTTATTTACCAAACAAGTTCAAATAGTTATGACTATTTAAACAAT
TATCTATTTCAAATCGTTATGACCTTTTATTTTGTCATTAAACAATTGGTTTTGTTATGCTAGTT
TATTTAAATAAAATAATACTAATTTAATAATATTTAGAAAATTAATAAG
Found at i:23894 original size:180 final size:173
Alignment explanation
Indices: 23462--24017 Score: 447
Period size: 180 Copynumber: 3.1 Consensus size: 173
23452 TTTATTTACT
* * * * **
23462 ATTTGAACAATTTTCTAT-TTAAATCATTATA-ACCCTTTGATTTGTCATAAAACAATTATTTAA
1 ATTTGAACAATTATCTATCTCAAATCATTA-AGACCTTTTG-TTTTTCATAAAACAATTATTTTT
* * **** * *
23525 GTTAATACAAGCTTAGAGGGAATAAAATAATACTAATTTATTAATATTTCCTAAAATAATAAGAA
64 GATCATACAAGCTTA-TTCAAATAAAATAATACTAATTTATTAATATTT-CAAAAATAACAAGAA
* * *
23590 ATTTAAAAATAAATTTGTTTACCGAATCAATTAAAATAATTATGACC
127 ATTTAAAAAAAAATATGTTTACCGAACCAATTAAAATAATTATGACC
** * * * * *
23637 ATTTGAATGATTATCTATTTCAAATCATTATGACCTTTTGTTTTTCATAAAATATTTGTTTTTGA
1 ATTTGAACAATTATCTATCTCAAATCATTAAGACCTTTTGTTTTTCATAAAACAATTATTTTTGA
* *
23702 TCATACAAGCTTATTCAAAATAAAATATTACTAATTTTTTAATATTTCAAAAATTAACAAGTTAG
66 TCATACAAGCTTATTC-AAATAAAATAATACTAATTTATTAATATTTCAAAAA-TAACAAG--A-
** * * **
23767 AGATTTAAAAAAATAATATGTTTATTGAACCAATTCAAATAGTTATGAGT
126 A-ATTTAAAAAAA-AATATGTTTACCGAACCAATTAAAATAATTATGACC
*
23817 ATTTGAACAATTATC-AGTCTCAAATCATTAAGATC-TTTGTTTTGTCATAAAACAATTATTTCT
1 ATTTGAACAATTATCTA-TCTCAAATCATTAAGACCTTTTGTTTT-TCATAAAACAATTATTT-T
* * ** * ** *
23880 T-ATTATAGAAGCTTATTCAGTTAAAAATAATACTAATTTAATAATATTTCAAATTTTAATAAGA
63 TGATCATACAAGCTTATTCAAAT-AAAATAATACTAATTTATTAATATTTCAAA-AATAACAAGA
* * * * * * ** *
23944 GATTTAAAAAAGAAATTTTTTTACCAAACCAATTCAAATAGTTAAAACT
126 AATTTAAAAAA-AAATATGTTTACCGAACCAATTAAAATAATTATGACC
* * *
23993 ATTAGAATAATTATCTATTTCAAAT
1 ATTTGAACAATTATCTATCTCAAAT
24018 AATTCCAATC
Statistics
Matches: 304, Mismatches: 61, Indels: 31
0.77 0.15 0.08
Matches are distributed among these distances:
174 5 0.02
175 78 0.26
176 75 0.25
177 3 0.01
178 2 0.01
179 21 0.07
180 118 0.39
181 2 0.01
ACGTcount: A:0.43, C:0.10, G:0.07, T:0.40
Consensus pattern (173 bp):
ATTTGAACAATTATCTATCTCAAATCATTAAGACCTTTTGTTTTTCATAAAACAATTATTTTTGA
TCATACAAGCTTATTCAAATAAAATAATACTAATTTATTAATATTTCAAAAATAACAAGAAATTT
AAAAAAAAATATGTTTACCGAACCAATTAAAATAATTATGACC
Found at i:24241 original size:25 final size:26
Alignment explanation
Indices: 24207--24265 Score: 77
Period size: 25 Copynumber: 2.3 Consensus size: 26
24197 TAATTTTAAT
*
24207 TAAATTATTAATATAGA-ATTAATTAA
1 TAAATAATTAATATAGATATTAA-TAA
*
24233 T-AATAATTAATATTGATATTAATAA
1 TAAATAATTAATATAGATATTAATAA
24258 TAAATAAT
1 TAAATAAT
24266 ATTAATATTT
Statistics
Matches: 29, Mismatches: 2, Indels: 4
0.83 0.06 0.11
Matches are distributed among these distances:
25 17 0.59
26 12 0.41
ACGTcount: A:0.54, C:0.00, G:0.03, T:0.42
Consensus pattern (26 bp):
TAAATAATTAATATAGATATTAATAA
Found at i:24256 original size:22 final size:22
Alignment explanation
Indices: 24228--24274 Score: 76
Period size: 22 Copynumber: 2.1 Consensus size: 22
24218 TATAGAATTA
* *
24228 ATTAATAATAATTAATATTGAT
1 ATTAATAATAAATAATATTAAT
24250 ATTAATAATAAATAATATTAAT
1 ATTAATAATAAATAATATTAAT
24272 ATT
1 ATT
24275 TAGTTCTAAT
Statistics
Matches: 23, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
22 23 1.00
ACGTcount: A:0.53, C:0.00, G:0.02, T:0.45
Consensus pattern (22 bp):
ATTAATAATAAATAATATTAAT
Found at i:24377 original size:11 final size:11
Alignment explanation
Indices: 24361--24404 Score: 54
Period size: 10 Copynumber: 3.8 Consensus size: 11
24351 TTTTTCCTAT
24361 AATATTTTATA
1 AATATTTTATA
24372 AATA-TTTATA
1 AATATTTTATA
24382 AATTATTATTAATA
1 AA-TATT-TT-ATA
24396 AATATTTTA
1 AATATTTTA
24405 ATTAATTATA
Statistics
Matches: 29, Mismatches: 0, Indels: 8
0.78 0.00 0.22
Matches are distributed among these distances:
10 8 0.28
11 7 0.24
12 3 0.10
13 6 0.21
14 5 0.17
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (11 bp):
AATATTTTATA
Found at i:24390 original size:20 final size:20
Alignment explanation
Indices: 24358--24406 Score: 55
Period size: 24 Copynumber: 2.3 Consensus size: 20
24348 AGTTTTTTCC
24358 TATAATATTTTATAAATATT
1 TATAATATTTTATAAATATT
24378 TATAAATTATTATTAATAAATATT
1 TAT-AA-TATT-TT-ATAAATATT
24402 T-TAAT
1 TATAAT
24407 TAATTATAAT
Statistics
Matches: 25, Mismatches: 0, Indels: 7
0.78 0.00 0.22
Matches are distributed among these distances:
20 3 0.12
21 3 0.12
22 6 0.24
23 3 0.12
24 10 0.40
ACGTcount: A:0.47, C:0.00, G:0.00, T:0.53
Consensus pattern (20 bp):
TATAATATTTTATAAATATT
Found at i:24802 original size:181 final size:181
Alignment explanation
Indices: 24561--25749 Score: 818
Period size: 181 Copynumber: 6.6 Consensus size: 181
24551 ATAAATGTTC
* * * *
24561 AAATAGATTTATTTATTAAA---TCT-CTTATTAATTTTTGAAATATTAATAAATTAATATTATT
1 AAATAGATTTATTTTTTAAATCTTCTACTTATTAATATTTCAAATATTAATAAATTAGTATTATT
* * * * * * *
24622 TTATTTCTAACAAACTTATATGAACAAAAACATTTGTTTTACGACAAAACAAAAAATCATAACGA
66 TTATTTCTAATAAGCTTGTATGAAGAAAAACAATTGTTTTATGACAAAACAAAAGATCATAACGA
* * * * * * *
24687 TTTTAAATAGATAATTATTCATATAGCCTTAATTATTTGAATTGGTTCGGT
131 TTTAAAATAAATAATTGTTCAAATAGCCATAATTATTTGAATTGATTCGAT
* * * * *
24738 AAATAAATTTATTTTTTAAATCTATC-AGTTATTAA-ATTTCATAGTATTACTAGATTAGTATTA
1 AAATAGATTTATTTTTTAAATCT-TCTACTTATTAATATTTCA-AATATTAATAAATTAGTATTA
* * * * *
24801 TTTTATTTCGAATAAGCTTGTATGAAGATAAATAATTGTTTTATGACAAAACAAAAGGTTATAAC
64 TTTTATTTCTAATAAGCTTGTATGAAGAAAAACAATTGTTTTATGACAAAACAAAAGATCATAAC
* * * *
24866 GATTGAAAATATATAATTGTTCAAATAGGCATAACTATTTGAATTGATTCGAT
129 GATTTAAAATAAATAATTGTTCAAATAGCCATAATTATTTGAATTGATTCGAT
* * * *
24919 AAACAGATTTAGTTTTTAAATCTTCTACTTATTAATTTTTCAAACATTAATAAATTAGTATTATT
1 AAATAGATTTATTTTTTAAATCTTCTACTTATTAATATTTCAAATATTAATAAATTAGTATTATT
* * * * * *
24984 TTATTT-TGAATATGCTTGTATGATGAAAAGCAATTATTTTATGACAAAACAAAAGTTCATAATG
66 TTATTTCT-AATAAGCTTGTATGAAGAAAAACAATTGTTTTATGACAAAACAAAAGATCATAACG
* * * * *
25048 ATTTGAAATAAATAATTGTTTAAATGGCCATAATTATTTAAACTGATTCGAT
130 ATTTAAAATAAATAATTGTTCAAATAGCCATAATTATTTGAATTGATTCGAT
* *
25100 AAACT-GATTTATGTTTTAAATC-TCTAACTTATCAATTTTATATCAAATTTTATAATATTAATA
1 AAA-TAGATTTATTTTTTAAATCTTCT-AC-T-T--A--TTA-AT---ATTTCA-AATATTAATA
* * * * * ** * *
25163 AAGTAATATTATTTTATTTCAAATAAGCTTTTATAAACTAAAACAATTGTTTTATGAGAAAATAT
53 AATTAGTATTATTTTATTTCTAATAAGCTTGTATGAAGAAAAACAATTGTTTTATGACAAAACA-
* * * ** * * * *
25228 AAAG-TCATAATGATTTTAAATAGATAATTGTTCAAATAGTAAAAAATATTTAAACTTG-TTCGG
117 AAAGATCATAACGATTTAAAATAAATAATTGTTCAAATAGCCATAATTATTTGAA-TTGATTCGA
25291 T
181 T
* * ** *
25292 AAATAGATTT-TTTTTCT-AA--TT-T-CTTAATAATTTTTTGAATGTTAATAAATTAGTATTAT
1 AAATAGATTTATTTTT-TAAATCTTCTACTTATTAATATTTCAAATATTAATAAATTAGTATTAT
* * ** ** * * * * *
25351 TTTATTTCGAATAAGCATGTATG-AGTTGAAGTAATTATTTTATGACTAAACAAAAGGTCAAAAT
65 TTTATTTCTAATAAGCTTGTATGAAG-AAAAACAATTGTTTTATGACAAAACAAAAGATCATAAC
* * * * ** * * *
25415 GATTTCAAATAGATAATTATTCTAATAATCTTAACTATTTGAATTGATTC-AGC
129 GATTTAAAATAAATAATTGTTCAAATAGCCATAATTATTTGAATTGATTCGA-T
* * * * * * *
25468 AAACACATTTATTTTTTAAATCCT-TACTTATTAATGTTT-AGAATATTATTAATTTAGTAATAT
1 AAATAGATTTATTTTTTAAATCTTCTACTTATTAATATTTCA-AATATTAATAAATTAGTATTAT
* * ** * *
25531 TTTA-CTCTGAATAAGCTTGT-TGAACATAAATTAAATGTTTTAGGACAAAACAAAA-ATCATAA
65 TTTATTTCT-AATAAGCTTGTATGAAGA-AAAACAATTGTTTTATGACAAAACAAAAGATCATAA
* * * * * * * * *
25593 CAATTGGAAAATAGATAATTGTTCAAATAGTCATAACTATTTGAACTGGTTTGGT
128 CGATT-TAAAATAAATAATTGTTCAAATAGCCATAATTATTTGAATTGATTCGAT
* * * *
25648 AAAGAGATTTAGTTTTTAAA---TCT-CTTATTAAT-TTTCAAAATAGTAATAAAATAGTATTAT
1 AAATAGATTTATTTTTTAAATCTTCTACTTATTAATATTTC-AAATATTAATAAATTAGTATTAT
** * *
25708 TTTA-TTCTAAATAATTTTGTATGAATAGAAACAATTGGTTTT
65 TTTATTTCT-AATAAGCTTGTATGAAGAAAAACAATT-GTTTT
25750 GGAACATTAA
Statistics
Matches: 792, Mismatches: 172, Indels: 95
0.75 0.16 0.09
Matches are distributed among these distances:
175 8 0.01
176 112 0.14
177 77 0.10
178 12 0.02
179 14 0.02
180 131 0.17
181 287 0.36
182 6 0.01
183 2 0.00
185 2 0.00
186 1 0.00
187 4 0.01
188 2 0.00
189 1 0.00
190 1 0.00
191 11 0.01
192 115 0.15
193 6 0.01
ACGTcount: A:0.40, C:0.08, G:0.10, T:0.42
Consensus pattern (181 bp):
AAATAGATTTATTTTTTAAATCTTCTACTTATTAATATTTCAAATATTAATAAATTAGTATTATT
TTATTTCTAATAAGCTTGTATGAAGAAAAACAATTGTTTTATGACAAAACAAAAGATCATAACGA
TTTAAAATAAATAATTGTTCAAATAGCCATAATTATTTGAATTGATTCGAT
Found at i:25487 original size:368 final size:370
Alignment explanation
Indices: 24796--25713 Score: 820
Period size: 368 Copynumber: 2.5 Consensus size: 370
24786 ACTAGATTAG
* * *
24796 TATTATTTTATTTCGAATAAGCTTGTATGAAGATAAATAATTGTTTTATGACAAAACAAAAGGTT
1 TATTATTTTATTTCAAATAAGCTTGTATGAAGATAAACAATTGTTTTATGACAAAACAAAAGGTC
* * * * *
24861 ATAACGATTGAAAATATATAATTGTTCAAATAGGCATAACTATTTGAATTGATTCGATAAACAGA
66 ATAACGATTGAAAATAGATAATTGTTCAAATAGGAAAAAATATTTAAATTGATTCGATAAACAGA
* *
24926 TTTAGTTTTTAAATCTTCTACTTATTAATTTTTCAAACATTAATAAATTAGTATTATTTTATTTT
131 TTTA-TTTTTAAA-CTTCTACTTAATAATTTTTCAAACATTAATAAATTAGTATTATTTTATTTC
* * * * *
24991 GAATATGCTTGTATGATGAAAAGCAATTATTTTATGACAAAACAAAAGTTCATAATGATTTGAAA
194 GAATAAGCATGTATGATG-AAAGCAATTATTTTATGACAAAACAAAAGGTCAAAATGATTTCAAA
* ** * * **
25056 TAAATAATTGTTTAAATGGCCATAATTATTTAAACTGATTCGATAAACTGATTTATGTTTTAAAT
258 TAAATAATTATTTAAATAACCATAACTATTTAAACTGATTCGACAAACACATTTATGTTTTAAAT
25121 CTCTAACTTATCAAT-TTTATATCAAATTTTATAATATTAATAAAGTAA
323 C-CTAACTTATCAATGTTTATATCAAATTTTATAATATTAATAAAGTAA
* * *
25169 TATTATTTTATTTCAAATAAGCTTTTAT-AA-ACTAAAACAATTGTTTTATGAGAAAATATAAA-
1 TATTATTTTATTTCAAATAAGCTTGTATGAAGA-T-AAACAATTGTTTTATGACAAAACA-AAAG
* ** * *
25231 GTCATAATGATTTTAAATAGATAATTGTTCAAATAGTAAAAAATATTTAAACTTG-TTCGGTAAA
63 GTCATAACGATTGAAAATAGATAATTGTTCAAATAGGAAAAAATATTTAAA-TTGATTCGATAAA
* * ** **
25295 TAGATTT-TTTTTCTAA-TT-T-CTTAATAATTTTTTGAATGTTAATAAATTAGTATTATTTTAT
127 CAGATTTATTTTT-AAACTTCTACTTAATAATTTTTCAAACATTAATAAATTAGTATTATTTTAT
* *
25356 TTCGAATAAGCATGTATGAGTTG-AAGTAATTATTTTATGACTAAACAAAAGGTCAAAATGATTT
191 TTCGAATAAGCATGTATGA--TGAAAGCAATTATTTTATGACAAAACAAAAGGTCAAAATGATTT
* * * * * *
25420 CAAATAGATAATTATTCT-AATAATCTTAACTATTTGAATTGATTC-AGCAAACACATTTATTTT
254 CAAATAAATAATTATT-TAAATAACCATAACTATTTAAACTGATTCGA-CAAACACATTTATGTT
* * * **
25483 TTAAATCCTTACTTATTAATG-TT-TA--GAA---TAT--TATTAATTTAGT-A
317 TTAAATCCTAACTTATCAATGTTTATATCAAATTTTATAATATTAATAAAGTAA
* * * * * * *
25527 -A-TATTTTA-CTCTGAATAAGCTTGT-TGAACATAAATTAAATGTTTTAGGACAAAACAAAA-A
1 TATTATTTTATTTC-AAATAAGCTTGTATGAAGATAAA-CAATTGTTTTATGACAAAACAAAAGG
* ** * * * * * * * *
25587 TCATAACAATTGGAAAATAGATAATTGTTCAAATAGTCATAACTATTTGAACTGGTTTGGTAAAG
64 TCATAACGATT-GAAAATAGATAATTGTTCAAATAGGAAAAAATATTTAAATTGATTCGATAAAC
* *
25652 AGATTTAGTTTTTAAA--TCT-CTTATTAA-TTTTCAAA-ATAGTAATAAAATAGTATTATTTTA
128 AGATTTA-TTTTTAAACTTCTACTTAATAATTTTTCAAACAT--TAATAAATTAGTATTATTTTA
25712 TT
190 TT
25714 CTAAATAATT
Statistics
Matches: 449, Mismatches: 75, Indels: 58
0.77 0.13 0.10
Matches are distributed among these distances:
355 21 0.05
356 90 0.20
357 34 0.08
358 6 0.01
359 10 0.02
361 3 0.01
364 2 0.00
366 2 0.00
367 14 0.03
368 142 0.32
369 2 0.00
370 4 0.01
371 6 0.01
372 5 0.01
373 102 0.23
374 6 0.01
ACGTcount: A:0.40, C:0.08, G:0.10, T:0.42
Consensus pattern (370 bp):
TATTATTTTATTTCAAATAAGCTTGTATGAAGATAAACAATTGTTTTATGACAAAACAAAAGGTC
ATAACGATTGAAAATAGATAATTGTTCAAATAGGAAAAAATATTTAAATTGATTCGATAAACAGA
TTTATTTTTAAACTTCTACTTAATAATTTTTCAAACATTAATAAATTAGTATTATTTTATTTCGA
ATAAGCATGTATGATGAAAGCAATTATTTTATGACAAAACAAAAGGTCAAAATGATTTCAAATAA
ATAATTATTTAAATAACCATAACTATTTAAACTGATTCGACAAACACATTTATGTTTTAAATCCT
AACTTATCAATGTTTATATCAAATTTTATAATATTAATAAAGTAA
Found at i:26204 original size:177 final size:179
Alignment explanation
Indices: 25767--26829 Score: 601
Period size: 182 Copynumber: 6.0 Consensus size: 179
25757 TAATTTTTAA
* * *
25767 ATAAA-TTTATTTTAAAAAT-TTTTACTTATTAATTTTTGGAACATTAATAAATTTATATTATTT
1 ATAAACTTTATTTTAAAAATCTTTTACTTATTAATTTTTGAAATATTAATAAATTAATATTATTT
* * * * *
25830 TATTTGAAATAAGCTTGA-ATGAATAGAACCAATTGTTTTATGACAAAATAAAAAGGTTGTAATG
66 TATTTCAAATAAGC-TAACATGAATAGAAACAATTGTTTTATGACAAAATAAAAAAGTTATAATG
* * *
25894 TTTTGAAATAGATAATTATT-AAGATAGTCATAACTATTTGAACTTGTTCG
130 ATTTGAAATAGATAATTATTCAA-ATAGTCATAACTATTTGAACTTTTTTG
** * * * * *
25944 ATAAACAAATTTATTTTTTTAATTCTCTTACTTTTTAATTTTTGAAATAGTAATAAATTAGTATT
1 ATAAAC---TTTA-TTTTAAAAATCTTTTACTTATTAATTTTTGAAATATTAATAAATTAATATT
* * * ** * *
26009 ATTTTATTTCAAATAAGCTAACATGAATTGAAACAATTTTTTTATTAC-AAAGCAAAATGTTACA
62 ATTTTATTTCAAATAAGCTAACATGAATAGAAACAATTGTTTTATGACAAAATAAAAAAGTTATA
* *
26073 ATGATTTGAAGTAGATAATTATTCAAATAGTCATGACTATTTGAACTTTTTTG
127 ATGATTTGAAATAGATAATTATTCAAATAGTCATAACTATTTGAACTTTTTTG
* * *
26126 GTAAACTTT-TTTTAAAAATCTTTTACTTATTAATTGTTGAAATATTAATAAATCAAT-TCTATT
1 ATAAACTTTATTTTAAAAATCTTTTACTTATTAATTTTTGAAATATTAATAAATTAATAT-TATT
* * ** * * *
26189 TTAATCCAAATAAGCTCGCATGGATGGAAACAATTGTTTTATGACAAAATAAAAAAGTCATAA-G
65 TTATTTCAAATAAGCTAACATGAATAGAAACAATTGTTTTATGACAAAATAAAAAAGTTATAATG
* * * *
26253 AATTTGAAATAAATAATGATTCAGATAGTCATAACGATTTGAA-TTTGTTTG
130 -ATTTGAAATAGATAATTATTCAAATAGTCATAACTATTTGAACTTT-TTTG
* ** **
26304 ATAAATATATTTATTTTTTAAATCTTTTACTTATTAATTATCTT--AATATTAATAAATTTGTAT
1 AT-AA-A-CTTTATTTTAAAAATCTTTTACTTATTAATT-T-TTGAAATATTAATAAATTAATAT
* * * ** * * * *
26367 TATTTTA-TTCGAAGTAAGCCT-ATATGAACA-AATA-AAGTCATTATATGACAAACT-GAAAGG
61 TATTTTATTTC-AAATAAG-CTAACATGAATAGAA-ACAA-TTGTTTTATGACAAAATAAAAAAG
** ** * * * * * *
26427 TTATAGCGATTCCAAATCA-ATAATTGTTCAAATGGTCATAATTATTTAAACTTGTTCG
122 TTATAATGATTTGAAAT-AGATAATTATTCAAATAGTCATAACTATTTGAACTTTTTTG
* ** * * * **
26485 GTAAA-TAGATTCATTTTTTAAATCTCTTAATTATTAA-TTTTCAGAATATTAATAACA-TGGTA
1 ATAAACT---TT-ATTTTAAAAATCTTTTACTTATTAATTTTTGA-AATATTAATAA-ATTAATA
* * * * ** * * *
26547 TTATTTTATTTCCAATAACCTTATATGGCT-GAAATAAGTT-TTTTATGACAAAA-CAAAAAGTC
60 TTATTTTATTTCAAATAAGCTAACATGAATAGAAACAA-TTGTTTTATGACAAAATAAAAAAGTT
* * ** * * ***
26609 ATAACGATTTGAAGTAGATAGCTATTCAAATAGTCATGAC----TG-TC-TAGGT-
124 ATAATGATTTGAAATAGATAATTATTCAAATAGTCATAACTATTTGAACTTTTTTG
* ** *
26658 A-AACACATTTATTTCT-AAAAT-TTTTAACTTATTAATTGTCAAAATATTAATAAATTAGTATT
1 ATAA-AC-TTTATTT-TAAAAATCTTTT-ACTTATTAATTTTTGAAATATTAATAAATTAATATT
* * * *** * * * * * *
26720 ATTTTAATCCAAATAAGGTTGTATGAATAGAAACAATTGTTTTATAATAGAA-CAAAATGTCATA
62 ATTTTATTTCAAATAAGCTAACATGAATAGAAACAATTGTTTTATGACAAAATAAAAAAGTTATA
* * ** * *
26784 AAGATTTGAAATAAATAATTGCTCACATAATCATAACTATTTGAAC
127 ATGATTTGAAATAGATAATTATTCAAATAGTCATAACTATTTGAAC
26830 AAGTTTGATA
Statistics
Matches: 679, Mismatches: 153, Indels: 108
0.72 0.16 0.11
Matches are distributed among these distances:
170 4 0.01
171 55 0.08
172 62 0.09
173 1 0.00
174 1 0.00
175 2 0.00
176 4 0.01
177 91 0.13
178 55 0.08
179 8 0.01
180 53 0.08
181 117 0.17
182 147 0.22
183 77 0.11
184 2 0.00
ACGTcount: A:0.40, C:0.09, G:0.10, T:0.41
Consensus pattern (179 bp):
ATAAACTTTATTTTAAAAATCTTTTACTTATTAATTTTTGAAATATTAATAAATTAATATTATTT
TATTTCAAATAAGCTAACATGAATAGAAACAATTGTTTTATGACAAAATAAAAAAGTTATAATGA
TTTGAAATAGATAATTATTCAAATAGTCATAACTATTTGAACTTTTTTG
Found at i:26355 original size:182 final size:181
Alignment explanation
Indices: 25764--26853 Score: 653
Period size: 181 Copynumber: 6.1 Consensus size: 181
25754 CATTAATTTT
* *
25764 TAAATAAATTTATTTTAAAAAT-TTTTACTTATTAATTTTTGGAACATTAATAAATTTATATTAT
1 TAAATAAATTTATTTTAAAAATCTTTTACTTATTAATTTTT-GAATATTAATAAATTAATATTAT
* * * * * *
25828 TTTATTTGAAATAAGCTTGAATGAATAGAACCAATTGTTTTATGACAAAATAAAAAGGTTGTAAT
65 TTTATTTCAAATAAGCTAGCATGAATAGAAACAATTGTTTTATGACAAAATAAAAAAGTTATAAT
* * * *
25893 GTTTTGAAATAGATAATTATTAAGATAGTCATAACTATTTGAACTTGTTCGA
130 GATTTGAAATAGATAATTATTCAGATAGTCATAACTATTTGAATTTGTTTGA
* ** * * * * *
25945 TAAACAAATTTATTTTTTTAATTCTCTTACTTTTTAATTTTTGAAATAGTAATAAATTAGTATTA
1 TAAATAAATTTA-TTTTAAAAATCTTTTACTTATTAATTTTTG-AATATTAATAAATTAATATTA
* * * * ** * *
26010 TTTTATTTCAAATAAGCTAACATGAATTGAAACAATTTTTTTATTAC-AAAGCAAAATGTTACAA
64 TTTTATTTCAAATAAGCTAGCATGAATAGAAACAATTGTTTTATGACAAAATAAAAAAGTTATAA
* * * *
26074 TGATTTGAAGTAGATAATTATTCAAATAGTCATGACTATTTGAACTTT-TTTGG
129 TGATTTGAAATAGATAATTATTCAGATAGTCATAACTATTTGAA-TTTGTTTGA
* * *
26127 T--A-AACTTT-TTTTAAAAATCTTTTACTTATTAATTGTTGAAATATTAATAAATCAAT-TCTA
1 TAAATAAATTTATTTTAAAAATCTTTTACTTATTAATTTTTG-AATATTAATAAATTAATAT-TA
* * * * * *
26187 TTTTAATCCAAATAAGCTCGCATGGATGGAAACAATTGTTTTATGACAAAATAAAAAAGTCATAA
64 TTTTATTTCAAATAAGCTAGCATGAATAGAAACAATTGTTTTATGACAAAATAAAAAAGTTATAA
* * *
26252 -GAATTTGAAATAAATAATGATTCAGATAGTCATAACGATTTGAATTTGTTTGA
129 TG-ATTTGAAATAGATAATTATTCAGATAGTCATAACTATTTGAATTTGTTTGA
* ** **
26305 TAAATATATTTATTTTTTAAATCTTTTACTTATTAATTATCTT-AATATTAATAAATTTGTATTA
1 TAAATAAATTTATTTTAAAAATCTTTTACTTATTAATT-T-TTGAATATTAATAAATTAATATTA
* * * ** * * * *
26369 TTTTA-TTCGAAGTAAGCCTA-TATGAACA-AATA-AAGTCATTATATGACAAACT-GAAAGGTT
64 TTTTATTTC-AAATAAG-CTAGCATGAATAGAA-ACAA-TTGTTTTATGACAAAATAAAAAAGTT
** ** * * * * * * * *
26429 ATAGCGATTCCAAATCA-ATAATTGTTCAAATGGTCATAATTATTTAAACTTGTTCGG
125 ATAATGATTTGAAAT-AGATAATTATTCAGATAGTCATAACTATTTGAATTTGTTTGA
* * ** * * * **
26486 TAAATAGATTCATTTTTTAAATCTCTTAATTATTAATTTTCAGAATATTAATAACA-TGGTATTA
1 TAAATAAATTTATTTTAAAAATCTTTTACTTATTAATTTT-TGAATATTAATAA-ATTAATATTA
* * * ** * * *
26550 TTTTATTTCCAATAACCTTA-TATGGCT-GAAATAAGTT-TTTTATGACAAAA-CAAAAAGTCAT
64 TTTTATTTCAAATAAGC-TAGCATGAATAGAAACAA-TTGTTTTATGACAAAATAAAAAAGTTAT
* * ** * * * *
26611 AACGATTTGAAGTAGATAGCTATTCAAATAGTCATGACTGTCT--A---G---G-
127 AATGATTTGAAATAGATAATTATTCAGATAGTCATAACTATTTGAATTTGTTTGA
* * *** *
26657 TAAACACATTTATTTCT-AAAAT-TTTTAACTTATTAATTGTCAAAATATTAATAAATTAGTATT
1 TAAATAAATTTATTT-TAAAAATCTTTT-ACTTATTAATT-TTTGAATATTAATAAATTAATATT
* * * * * * * * * * *
26720 ATTTTAATCCAAATAAGGTTGTATGAATAGAAACAATTGTTTTATAATAGAA-CAAAATGTCATA
63 ATTTTATTTCAAATAAGCTAGCATGAATAGAAACAATTGTTTTATGACAAAATAAAAAAGTTATA
* * ** * * ***
26784 AAGATTTGAAATAAATAATTGCTCACATAATCATAACTATTTGAACAAGTTTGA
128 ATGATTTGAAATAGATAATTATTCAGATAGTCATAACTATTTGAATTTGTTTGA
* *
26838 TAAATAGATTAATTTT
1 TAAATAAATTTATTTT
26854 TTAAATCACT
Statistics
Matches: 700, Mismatches: 163, Indels: 93
0.73 0.17 0.10
Matches are distributed among these distances:
170 5 0.01
171 64 0.09
172 60 0.09
174 1 0.00
175 1 0.00
176 1 0.00
177 85 0.12
178 54 0.08
179 7 0.01
180 54 0.08
181 151 0.22
182 138 0.20
183 77 0.11
184 2 0.00
ACGTcount: A:0.40, C:0.09, G:0.10, T:0.41
Consensus pattern (181 bp):
TAAATAAATTTATTTTAAAAATCTTTTACTTATTAATTTTTGAATATTAATAAATTAATATTATT
TTATTTCAAATAAGCTAGCATGAATAGAAACAATTGTTTTATGACAAAATAAAAAAGTTATAATG
ATTTGAAATAGATAATTATTCAGATAGTCATAACTATTTGAATTTGTTTGA
Found at i:27094 original size:18 final size:18
Alignment explanation
Indices: 27071--27106 Score: 54
Period size: 18 Copynumber: 2.0 Consensus size: 18
27061 TGAAGTATTA
* *
27071 TAATATTTTATAATTAAT
1 TAATATTATAAAATTAAT
27089 TAATATTATAAAATTAAT
1 TAATATTATAAAATTAAT
27107 GATAAATTAA
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
18 16 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (18 bp):
TAATATTATAAAATTAAT
Found at i:27582 original size:7 final size:7
Alignment explanation
Indices: 27567--27623 Score: 89
Period size: 7 Copynumber: 8.3 Consensus size: 7
27557 TTGATGGTTA
27567 ATTAATT
1 ATTAATT
*
27574 ATTATTT
1 ATTAATT
27581 ATTAATT
1 ATTAATT
27588 ATTAATT
1 ATTAATT
27595 ATTAATT
1 ATTAATT
27602 ATTAATT
1 ATTAATT
*
27609 ATTAATA
1 ATTAATT
27616 ATT-ATT
1 ATTAATT
27622 AT
1 AT
27624 AATAAATAAC
Statistics
Matches: 46, Mismatches: 4, Indels: 1
0.90 0.08 0.02
Matches are distributed among these distances:
6 4 0.09
7 42 0.91
ACGTcount: A:0.42, C:0.00, G:0.00, T:0.58
Consensus pattern (7 bp):
ATTAATT
Found at i:28078 original size:27 final size:27
Alignment explanation
Indices: 28025--28085 Score: 72
Period size: 27 Copynumber: 2.3 Consensus size: 27
28015 TATTTGTATT
* *
28025 TAATTAATTAATACTAAATTAATTTTA
1 TAATTAATTAATAATAAATTAACTTTA
*
28052 TAATTAATCTAATAATTAA-TAACTTTA
1 TAATTAAT-TAATAATAAATTAACTTTA
28079 -AATTAAT
1 TAATTAAT
28086 ATATTTACAA
Statistics
Matches: 30, Mismatches: 3, Indels: 3
0.83 0.08 0.08
Matches are distributed among these distances:
26 7 0.23
27 15 0.50
28 8 0.27
ACGTcount: A:0.49, C:0.05, G:0.00, T:0.46
Consensus pattern (27 bp):
TAATTAATTAATAATAAATTAACTTTA
Found at i:28322 original size:20 final size:20
Alignment explanation
Indices: 28273--28341 Score: 56
Period size: 19 Copynumber: 3.5 Consensus size: 20
28263 ATATATATTA
28273 ATTATTAATT-TGTAATATAT
1 ATTATTAATTATG-AATATAT
*
28293 ATT-TTTATTATG-ATATAT
1 ATTATTAATTATGAATATAT
* *
28311 AGTTATTAATTATTAA-ATAA
1 A-TTATTAATTATGAATATAT
*
28331 ATTAATAATTA
1 ATTATTAATTA
28342 ATAAATAGAT
Statistics
Matches: 40, Mismatches: 5, Indels: 9
0.74 0.09 0.17
Matches are distributed among these distances:
18 7 0.17
19 16 0.40
20 16 0.40
21 1 0.03
ACGTcount: A:0.43, C:0.00, G:0.04, T:0.52
Consensus pattern (20 bp):
ATTATTAATTATGAATATAT
Found at i:28400 original size:13 final size:14
Alignment explanation
Indices: 28363--28410 Score: 55
Period size: 13 Copynumber: 3.5 Consensus size: 14
28353 AATGATTTTA
28363 ATAATTTAA-TATT
1 ATAATTTAATTATT
* *
28376 AAAATTAAAATTATT
1 ATAATT-TAATTATT
28391 -TAATTTAATTATT
1 ATAATTTAATTATT
28404 ATAATTT
1 ATAATTT
28411 CATATAATTG
Statistics
Matches: 28, Mismatches: 4, Indels: 5
0.76 0.11 0.14
Matches are distributed among these distances:
13 12 0.43
14 12 0.43
15 4 0.14
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (14 bp):
ATAATTTAATTATT
Found at i:28409 original size:22 final size:22
Alignment explanation
Indices: 28361--28409 Score: 55
Period size: 22 Copynumber: 2.2 Consensus size: 22
28351 TAAATGATTT
*
28361 TAATAATTTAATATTAAAATTA
1 TAATTATTTAATATTAAAATTA
* *
28383 AAATTATTTAAT-TTAATTATTA
1 TAATTATTTAATATTAA-AATTA
28405 TAATT
1 TAATT
28410 TCATATAATT
Statistics
Matches: 22, Mismatches: 4, Indels: 2
0.79 0.14 0.07
Matches are distributed among these distances:
21 4 0.18
22 18 0.82
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (22 bp):
TAATTATTTAATATTAAAATTA
Found at i:29006 original size:33 final size:34
Alignment explanation
Indices: 28969--29035 Score: 86
Period size: 34 Copynumber: 2.0 Consensus size: 34
28959 ATTATAATTG
28969 AATTA-TTA-TATATAAATAAATACAATTT-TTAAT
1 AATTAGTTATTATA-AAATAAATA-AATTTATTAAT
*
29002 AATTAGTTATTATAAAATAACTAAATTTATTAAT
1 AATTAGTTATTATAAAATAAATAAATTTATTAAT
29036 TAATAAATTG
Statistics
Matches: 30, Mismatches: 1, Indels: 5
0.83 0.03 0.14
Matches are distributed among these distances:
33 10 0.33
34 16 0.53
35 4 0.13
ACGTcount: A:0.51, C:0.03, G:0.01, T:0.45
Consensus pattern (34 bp):
AATTAGTTATTATAAAATAAATAAATTTATTAAT
Found at i:29961 original size:183 final size:181
Alignment explanation
Indices: 29174--29973 Score: 644
Period size: 181 Copynumber: 4.4 Consensus size: 181
29164 AGGTTATTGG
** ** * * *
29174 AAATAAAATAATA-CCATGTTATTAATATTCTGAAAATTAATAATTAAGAGATTTAAAAAATGAA
1 AAATAAAATAATATAAAT-TTATTAATATTCCAAAAATTAATAAGTAAAAGATTTAAAAAATAAA
* * * * * * * ** *
29238 TCTATTTACCTAACAAGTTTAAATAATTATGGCCATTTGAACAATTAT-TGATTTGGAATCACTA
65 TCTATTTATCGAACAAGTTCAAATAGTTATGACTATTTGAATAATTATAT-ATTTCAAATCATTA
* * * * * *** *
29302 TAACCTTTTG-GTTTGTCATATAATAATT-TTATTTGTTCATAT-AAGCTTACTTC
129 CAA-CTTTTGTTTTTGTCATAAAACAATTGCT-TCAATTCAT-TCAAGCTTATTTC
* * *** *
29355 GAATAAAATAATACAAATTTATTAATATTAGGACAATTAATAAGTAAAAGATTTAAAAAATAAAT
1 AAATAAAATAATATAAATTTATTAATATTCCAAAAATTAATAAGTAAAAGATTTAAAAAATAAAT
* *
29420 CTATTTATCGAACAAATTCAAATCA-TTATGACTATTTGAATAATTATTTATTTCAAATTC-TTA
66 CTATTTATCGAACAAGTTCAAAT-AGTTATGACTATTTGAATAATTATATATTTCAAA-TCATTA
** * * * * * * * *
29483 TGACTTTTTTGTTTTATCATAAAACAATTGTTTCCATCCATACGAGCTT-TTTG
129 CAACTTTTGT-TTTTGTCATAAAACAATTGCTTCAATTCATTCAAGCTTATTTC
* * ** * * * *
29536 GATTAAAATAATATTGATTTATTAATATTTCAACAATTAATAAGCAAAAGATTT-TAAAA-AAAT
1 AAATAAAATAATATAAATTTATTAATATTCCAAAAATTAATAAGTAAAAGATTTAAAAAATAAAT
* * * * * *
29599 -AAGTTTACCAAACAAGTTCAAATAGTCATGACTATTTGAATAATTATATACTTCAAATCATTGT
66 CTA-TTTATCGAACAAGTTCAAATAGTTATGACTATTTGAATAATTATATATTTCAAATCATT-A
* * * *
29663 CTTGTAATATTTTG-TTTTGTAATAAAACAATTGCTTCAATTCATGT-TAGCTTATTTG
129 C----AA-CTTTTGTTTTTGTCATAAAACAATTGCTTCAATTCAT-TCAAGCTTATTTC
* * *
29720 AAATAAAATAATACT-AATTTATTAATATTCCAAAAATTAAAAAGTAAGAGAATTAAAAAAATAA
1 AAATAAAATAATA-TAAATTTATTAATATTCCAAAAATTAATAAGTAAAAG-ATTTAAAAAATAA
* * *
29784 ATCTATTTATCGAACAAGTTCAAATGGTTATGACTATCTT-AATAATTATCTATTTCAAAACATT
64 ATCTATTTATCGAACAAGTTCAAATAGTTATGACTAT-TTGAATAATTATATATTTCAAATCATT
*
29848 ACAACCTTTTGTTTTTGTCATAAAACAATTAG-TTCTATTCATTCAAGCTTATTTC
128 ACAA-CTTTTGTTTTTGTCATAAAACAATT-GCTTCAATTCATTCAAGCTTATTTC
* *
29903 AAATAAAATAATATAAATTTATTAATGTTCCAAAAATTAATAAGTAAAA-ATTTTAAAAATAAAT
1 AAATAAAATAATATAAATTTATTAATATTCCAAAAATTAATAAGTAAAAGATTTAAAAAATAAAT
*
29967 TTATTTA
66 CTATTTA
29974 AAAATTAATG
Statistics
Matches: 498, Mismatches: 92, Indels: 58
0.77 0.14 0.09
Matches are distributed among these distances:
178 4 0.01
179 52 0.10
180 9 0.02
181 168 0.34
182 39 0.08
183 111 0.22
184 46 0.09
185 8 0.02
186 5 0.01
187 53 0.11
188 3 0.01
ACGTcount: A:0.43, C:0.10, G:0.08, T:0.40
Consensus pattern (181 bp):
AAATAAAATAATATAAATTTATTAATATTCCAAAAATTAATAAGTAAAAGATTTAAAAAATAAAT
CTATTTATCGAACAAGTTCAAATAGTTATGACTATTTGAATAATTATATATTTCAAATCATTACA
ACTTTTGTTTTTGTCATAAAACAATTGCTTCAATTCATTCAAGCTTATTTC
Found at i:30679 original size:180 final size:177
Alignment explanation
Indices: 30453--30830 Score: 442
Period size: 177 Copynumber: 2.1 Consensus size: 177
30443 AATAAACCTT
* * * *
30453 TTTTGTTCTGTCATAAAACAATTTTTCATGTTCATACAAGCTTATTCGA-AATAAAATAATACCA
1 TTTTGTTTTGTCATAAAACAATTTTTCATATTCACACAAGCTTATTC-ATAATAAAATAAAACCA
**
30517 ATCTAGTAATATTTTGAAAATTAATAACTAAGAGATTTAA-AAATAAATT-TG-TTTGCTGAACC
65 ATCTAGTAATATTTT-AAAA--AATAA-TAAGAGATTTAACAAAT-AATTATGCTTACCT-AACC
* * * * * *
30579 GGTTTAAATAGTTAAGACTATATGAATAATTATCTATTTTAAATCATTATGACC
124 AGTTCAAATAATTAAGACTATATGAATAATTATCTACTTCAAATAATTATGACC
* * **
30633 TTTTGTTTTGTCATAAAATAATTTTTTCA-ATTCACACTAGCTTATTCATAATAAAATAAAATGA
1 TTTTGTTTTGTCATAAAACAA-TTTTTCATATTCACACAAGCTTATTCATAATAAAATAAAACCA
* * *
30697 ATTTATTAATATTTTAAAAATTAATAAGAGATTTAACAAATAATTATGCTTACCTAACCAGTTCA
65 ATCTAGTAATATTTTAAAAAATAATAAGAGATTTAACAAATAATTATGCTTACCTAACCAGTTCA
* * * *
30762 AATAATTATGATTATTTGAATAATTATTTACTTCAAATAATTATGACC
130 AATAATTAAGACTATATGAATAATTATCTACTTCAAATAATTATGACC
30810 TTTTGTTTTGTCATAAAACAA
1 TTTTGTTTTGTCATAAAACAA
30831 ATGTTTTTGT
Statistics
Matches: 169, Mismatches: 24, Indels: 13
0.82 0.12 0.06
Matches are distributed among these distances:
176 16 0.09
177 78 0.46
178 4 0.02
179 5 0.03
180 59 0.35
181 7 0.04
ACGTcount: A:0.40, C:0.11, G:0.08, T:0.41
Consensus pattern (177 bp):
TTTTGTTTTGTCATAAAACAATTTTTCATATTCACACAAGCTTATTCATAATAAAATAAAACCAA
TCTAGTAATATTTTAAAAAATAATAAGAGATTTAACAAATAATTATGCTTACCTAACCAGTTCAA
ATAATTAAGACTATATGAATAATTATCTACTTCAAATAATTATGACC
Found at i:30988 original size:23 final size:24
Alignment explanation
Indices: 30958--31006 Score: 66
Period size: 23 Copynumber: 2.1 Consensus size: 24
30948 TTTAGATAAT
30958 TAATAATAAATT-A-TAAGTATTTA
1 TAATAATAAATTAATTAA-TATTTA
*
30981 TAATAATAATTTAATTAATATTTA
1 TAATAATAAATTAATTAATATTTA
31005 TA
1 TA
31007 TTATAATTAT
Statistics
Matches: 23, Mismatches: 1, Indels: 3
0.85 0.04 0.11
Matches are distributed among these distances:
23 11 0.48
24 9 0.39
25 3 0.13
ACGTcount: A:0.51, C:0.00, G:0.02, T:0.47
Consensus pattern (24 bp):
TAATAATAAATTAATTAATATTTA
Found at i:31101 original size:19 final size:17
Alignment explanation
Indices: 31060--31101 Score: 68
Period size: 17 Copynumber: 2.5 Consensus size: 17
31050 TTTAATTATT
*
31060 TTATTATAAATATATAA
1 TTATAATAAATATATAA
31077 TTATAATAAATATATAA
1 TTATAATAAATATATAA
31094 -TATAATAA
1 TTATAATAA
31102 CTATGGATAT
Statistics
Matches: 24, Mismatches: 1, Indels: 1
0.92 0.04 0.04
Matches are distributed among these distances:
16 8 0.33
17 16 0.67
ACGTcount: A:0.57, C:0.00, G:0.00, T:0.43
Consensus pattern (17 bp):
TTATAATAAATATATAA
Found at i:32155 original size:9 final size:9
Alignment explanation
Indices: 32131--32162 Score: 50
Period size: 9 Copynumber: 3.8 Consensus size: 9
32121 TACTATCAAA
32131 TAATATTAT
1 TAATATTAT
32140 T--TATTAT
1 TAATATTAT
32147 TAATATTAT
1 TAATATTAT
32156 TAATATT
1 TAATATT
32163 TAAATTAATA
Statistics
Matches: 21, Mismatches: 0, Indels: 4
0.84 0.00 0.16
Matches are distributed among these distances:
7 7 0.33
9 14 0.67
ACGTcount: A:0.41, C:0.00, G:0.00, T:0.59
Consensus pattern (9 bp):
TAATATTAT
Found at i:32183 original size:19 final size:19
Alignment explanation
Indices: 32130--32188 Score: 64
Period size: 21 Copynumber: 2.9 Consensus size: 19
32120 ATACTATCAA
32130 ATAATATTATTTATTATTAAT
1 ATAAT-TTATTTA-TATTAAT
* *
32151 ATTATTAATATTTAAATTAAT
1 ATAATT--TATTTATATTAAT
32172 ATAATTTATTTATATTA
1 ATAATTTATTTATATTA
32189 CTAGATTTAT
Statistics
Matches: 32, Mismatches: 4, Indels: 6
0.76 0.10 0.14
Matches are distributed among these distances:
19 10 0.31
20 1 0.03
21 15 0.47
22 6 0.19
ACGTcount: A:0.44, C:0.00, G:0.00, T:0.56
Consensus pattern (19 bp):
ATAATTTATTTATATTAAT
Found at i:32459 original size:17 final size:18
Alignment explanation
Indices: 32437--32480 Score: 56
Period size: 17 Copynumber: 2.6 Consensus size: 18
32427 TAATTAATAA
32437 AAAATTAATAAT-TATTT
1 AAAATTAATAATATATTT
*
32454 AAAATT-TTAATATATTT
1 AAAATTAATAATATATTT
*
32471 AATATTAATA
1 AAAATTAATA
32481 TAATTAATAT
Statistics
Matches: 22, Mismatches: 3, Indels: 3
0.79 0.11 0.11
Matches are distributed among these distances:
16 4 0.18
17 16 0.73
18 2 0.09
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (18 bp):
AAAATTAATAATATATTT
Found at i:32480 original size:15 final size:15
Alignment explanation
Indices: 32460--32505 Score: 58
Period size: 15 Copynumber: 3.1 Consensus size: 15
32450 ATTTAAAATT
32460 TTAATATATTTAATA
1 TTAATATATTTAATA
*
32475 TTAATATAATTAATA
1 TTAATATATTTAATA
*
32490 TT-ATATTTTTTAATA
1 TTAATA-TATTTAATA
32505 T
1 T
32506 AACAATTTTA
Statistics
Matches: 27, Mismatches: 3, Indels: 2
0.84 0.09 0.06
Matches are distributed among these distances:
14 3 0.11
15 24 0.89
ACGTcount: A:0.43, C:0.00, G:0.00, T:0.57
Consensus pattern (15 bp):
TTAATATATTTAATA
Found at i:32790 original size:8 final size:8
Alignment explanation
Indices: 32759--32820 Score: 54
Period size: 8 Copynumber: 7.2 Consensus size: 8
32749 TTATTTTTTA
*
32759 TATAATAG
1 TATAATAT
32767 TATAATAATT
1 TATAAT-A-T
32777 TGATAATAT
1 T-ATAATAT
32786 TATAACTAT
1 TATAA-TAT
32795 TATAATAT
1 TATAATAT
*
32803 TATTAT-T
1 TATAATAT
32810 TGATAATAT
1 T-ATAATAT
32819 TA
1 TA
32821 ACTATAATAG
Statistics
Matches: 45, Mismatches: 3, Indels: 12
0.75 0.05 0.20
Matches are distributed among these distances:
7 2 0.04
8 23 0.51
9 13 0.29
10 2 0.04
11 5 0.11
ACGTcount: A:0.45, C:0.02, G:0.05, T:0.48
Consensus pattern (8 bp):
TATAATAT
Found at i:33002 original size:14 final size:15
Alignment explanation
Indices: 32964--33019 Score: 55
Period size: 14 Copynumber: 3.8 Consensus size: 15
32954 GACTAGAATA
*
32964 ATATAA-TATATTATG
1 ATATAATTA-ATTATT
32979 ATAGTAATTAATTATT
1 ATA-TAATTAATTATT
32995 AT-TAATTAA-TATT
1 ATATAATTAATTATT
*
33008 TTATAATTAATT
1 ATATAATTAATT
33020 TATAATTTAT
Statistics
Matches: 35, Mismatches: 2, Indels: 8
0.78 0.04 0.18
Matches are distributed among these distances:
13 5 0.14
14 14 0.40
15 4 0.11
16 10 0.29
17 2 0.06
ACGTcount: A:0.45, C:0.00, G:0.04, T:0.52
Consensus pattern (15 bp):
ATATAATTAATTATT
Found at i:33011 original size:18 final size:18
Alignment explanation
Indices: 32990--33030 Score: 55
Period size: 18 Copynumber: 2.3 Consensus size: 18
32980 TAGTAATTAA
* *
32990 TTATTATTAATTAATATT
1 TTATAATTAATTAATAAT
*
33008 TTATAATTAATTTATAAT
1 TTATAATTAATTAATAAT
33026 TTATA
1 TTATA
33031 GTATAAATTA
Statistics
Matches: 20, Mismatches: 3, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
18 20 1.00
ACGTcount: A:0.41, C:0.00, G:0.00, T:0.59
Consensus pattern (18 bp):
TTATAATTAATTAATAAT
Found at i:33178 original size:18 final size:16
Alignment explanation
Indices: 33157--33198 Score: 50
Period size: 18 Copynumber: 2.6 Consensus size: 16
33147 ATTACTAGTT
33157 ATACTTATATTATTAATA
1 ATACTTATATTA-TAA-A
*
33175 ATACATATATTATAAA
1 ATACTTATATTATAAA
33191 ATA-TTATA
1 ATACTTATA
33199 ATAAACAATT
Statistics
Matches: 22, Mismatches: 2, Indels: 3
0.81 0.07 0.11
Matches are distributed among these distances:
15 4 0.18
16 4 0.18
17 3 0.14
18 11 0.50
ACGTcount: A:0.50, C:0.05, G:0.00, T:0.45
Consensus pattern (16 bp):
ATACTTATATTATAAA
Found at i:33599 original size:38 final size:34
Alignment explanation
Indices: 33538--33646 Score: 100
Period size: 35 Copynumber: 3.2 Consensus size: 34
33528 ACAATAATAT
* *
33538 TATT-TATTA-TTTATAGTTTAAATTAATATAAAT
1 TATTATATTATTTTATAATTTAAATT-ATATAAAA
33571 TAATTATATTATTTTATAATTTACAAATTATATAAAA
1 T-ATTATATTATTTTATAATTT--AAATTATATAAAA
* * *
33608 TATTATA-TATTATATAAGTT-AATAATATATAAA
1 TATTATATTATTTTATAATTTAAATTATATA-AAA
33641 TATTAT
1 TATTAT
33647 TATATGTTAA
Statistics
Matches: 65, Mismatches: 5, Indels: 12
0.79 0.06 0.15
Matches are distributed among these distances:
32 8 0.12
33 10 0.15
34 3 0.05
35 16 0.25
36 15 0.23
37 8 0.12
38 5 0.08
ACGTcount: A:0.47, C:0.01, G:0.02, T:0.50
Consensus pattern (34 bp):
TATTATATTATTTTATAATTTAAATTATATAAAA
Found at i:33642 original size:33 final size:32
Alignment explanation
Indices: 33563--33667 Score: 88
Period size: 33 Copynumber: 3.0 Consensus size: 32
33553 GTTTAAATTA
*
33563 ATATAAATTAATTATATTATTTTATAATTTACA-AATT
1 ATATAAA-T-ATTATA-TA-TTTATAAATTA-ATAA-T
*
33600 ATATAAAATATTATATATTATATAAGTTAATAAT
1 ATAT-AAATATTATATATT-TATAAATTAATAAT
33634 ATATAAATATTATTATATGTTA-AAATTAATAAT
1 ATATAAATATTA-TATAT-TTATAAATTAATAAT
33667 A
1 A
33668 ACTAATAATA
Statistics
Matches: 61, Mismatches: 2, Indels: 14
0.79 0.03 0.18
Matches are distributed among these distances:
33 19 0.31
34 15 0.25
35 13 0.21
36 6 0.10
37 5 0.08
38 3 0.05
ACGTcount: A:0.50, C:0.01, G:0.02, T:0.47
Consensus pattern (32 bp):
ATATAAATATTATATATTTATAAATTAATAAT
Found at i:33648 original size:36 final size:35
Alignment explanation
Indices: 33563--33667 Score: 96
Period size: 36 Copynumber: 3.0 Consensus size: 35
33553 GTTTAAATTA
* *
33563 ATATAAAT-TAATTATATTATTTTATAATTTACA-AATT
1 ATATAAATATTATTATA-TATTATATAA-TTA-ATAA-T
33600 ATATAAA-A-TATTATATATTATATAAGTTAATAAT
1 ATATAAATATTATTATATATTATATAA-TTAATAAT
*
33634 ATATAAATATTATTATATGTTA-A-AATTAATAAT
1 ATATAAATATTATTATATATTATATAATTAATAAT
33667 A
1 A
33668 ACTAATAATA
Statistics
Matches: 60, Mismatches: 4, Indels: 12
0.79 0.05 0.16
Matches are distributed among these distances:
33 9 0.15
34 11 0.18
35 16 0.27
36 17 0.28
37 7 0.12
ACGTcount: A:0.50, C:0.01, G:0.02, T:0.47
Consensus pattern (35 bp):
ATATAAATATTATTATATATTATATAATTAATAAT
Found at i:33665 original size:26 final size:26
Alignment explanation
Indices: 33606--33656 Score: 68
Period size: 27 Copynumber: 2.0 Consensus size: 26
33596 AATTATATAA
*
33606 AATAT-TATATATTATATAAGTTAAT
1 AATATATAAATATTATATAAGTTAAT
*
33631 AATATATAAATATTATTATATGTTAA
1 AATATATAAATATTA-TATAAGTTAA
33657 AATTAATAAT
Statistics
Matches: 22, Mismatches: 2, Indels: 2
0.85 0.08 0.08
Matches are distributed among these distances:
25 5 0.23
26 8 0.36
27 9 0.41
ACGTcount: A:0.49, C:0.00, G:0.04, T:0.47
Consensus pattern (26 bp):
AATATATAAATATTATATAAGTTAAT
Found at i:34392 original size:11 final size:12
Alignment explanation
Indices: 34377--34409 Score: 50
Period size: 11 Copynumber: 2.8 Consensus size: 12
34367 ATTATATTTG
34377 AATTAATATACT
1 AATTAATATACT
34389 -ATTAATATTACT
1 AATTAATA-TACT
34401 AATTAATAT
1 AATTAATAT
34410 TAAGTCTTGA
Statistics
Matches: 19, Mismatches: 0, Indels: 4
0.83 0.00 0.17
Matches are distributed among these distances:
11 7 0.37
12 5 0.26
13 7 0.37
ACGTcount: A:0.48, C:0.06, G:0.00, T:0.45
Consensus pattern (12 bp):
AATTAATATACT
Found at i:34407 original size:13 final size:13
Alignment explanation
Indices: 34377--34411 Score: 56
Period size: 13 Copynumber: 2.8 Consensus size: 13
34367 ATTATATTTG
34377 AATTAATA-TACT
1 AATTAATATTACT
34389 -ATTAATATTACT
1 AATTAATATTACT
34401 AATTAATATTA
1 AATTAATATTA
34412 AGTCTTGAAA
Statistics
Matches: 21, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
11 7 0.33
12 4 0.19
13 10 0.48
ACGTcount: A:0.49, C:0.06, G:0.00, T:0.46
Consensus pattern (13 bp):
AATTAATATTACT
Found at i:35008 original size:19 final size:19
Alignment explanation
Indices: 34984--35026 Score: 59
Period size: 19 Copynumber: 2.3 Consensus size: 19
34974 TAATTATCGA
*
34984 TTATAACTAATCTAATAAT
1 TTATAACTAATCAAATAAT
*
35003 TTATAACTATTCAAATAAT
1 TTATAACTAATCAAATAAT
*
35022 GTATA
1 TTATA
35027 TTTTAGTATA
Statistics
Matches: 21, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
19 21 1.00
ACGTcount: A:0.47, C:0.09, G:0.02, T:0.42
Consensus pattern (19 bp):
TTATAACTAATCAAATAAT
Found at i:35088 original size:16 final size:17
Alignment explanation
Indices: 35069--35115 Score: 59
Period size: 16 Copynumber: 3.1 Consensus size: 17
35059 TTATTCATAA
35069 AACTAATTA-TAATTAT
1 AACTAATTATTAATTAT
35085 AACTAATTATTAATTA-
1 AACTAATTATTAATTAT
35101 AA-T-ATT-TTAATTAT
1 AACTAATTATTAATTAT
35115 A
1 A
35116 TTATTAATAA
Statistics
Matches: 29, Mismatches: 0, Indels: 6
0.83 0.00 0.17
Matches are distributed among these distances:
13 7 0.24
14 4 0.14
15 1 0.03
16 11 0.38
17 6 0.21
ACGTcount: A:0.49, C:0.04, G:0.00, T:0.47
Consensus pattern (17 bp):
AACTAATTATTAATTAT
Found at i:35249 original size:28 final size:27
Alignment explanation
Indices: 35213--35265 Score: 79
Period size: 28 Copynumber: 1.9 Consensus size: 27
35203 CATAATATAT
* *
35213 TATATTATTCTAGTCATACTATAAATTA
1 TATAATATTATAGT-ATACTATAAATTA
35241 TATAATATTATAGTATACTATAAAT
1 TATAATATTATAGTATACTATAAAT
35266 CAAATATTAT
Statistics
Matches: 23, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
27 11 0.48
28 12 0.52
ACGTcount: A:0.43, C:0.08, G:0.04, T:0.45
Consensus pattern (27 bp):
TATAATATTATAGTATACTATAAATTA
Found at i:35484 original size:20 final size:19
Alignment explanation
Indices: 35459--35544 Score: 75
Period size: 20 Copynumber: 4.3 Consensus size: 19
35449 GTTATTAAAT
*
35459 TAAATAAGTATTTAATTATA
1 TAAATAAAT-TTTAATTATA
35479 TAAATATAATTATTAATT-TAA
1 TAAATA-AATT-TTAATTAT-A
* * *
35500 TTAATTAATAATTAATTATA
1 TAAATAAAT-TTTAATTATA
35520 TAAGATAAATTTTAATTATA
1 TAA-ATAAATTTTAATTATA
35540 TAAAT
1 TAAAT
35545 TTTAATTAAT
Statistics
Matches: 53, Mismatches: 7, Indels: 13
0.73 0.10 0.18
Matches are distributed among these distances:
19 2 0.04
20 32 0.60
21 19 0.36
ACGTcount: A:0.51, C:0.00, G:0.02, T:0.47
Consensus pattern (19 bp):
TAAATAAATTTTAATTATA
Found at i:35603 original size:23 final size:22
Alignment explanation
Indices: 35570--35612 Score: 68
Period size: 23 Copynumber: 1.9 Consensus size: 22
35560 CCATGGATCT
*
35570 ATTATTAATATTTATAATTATA
1 ATTATTAATATTAATAATTATA
35592 ATTATATAATATTAATAATTA
1 ATTAT-TAATATTAATAATTA
35613 GCTATAAATT
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
22 5 0.26
23 14 0.74
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (22 bp):
ATTATTAATATTAATAATTATA
Found at i:36237 original size:179 final size:180
Alignment explanation
Indices: 35827--36238 Score: 459
Period size: 179 Copynumber: 2.3 Consensus size: 180
35817 AATAATTATT
* * * *
35827 TATAAA-TAAATAATATTCCAAAAATTAA-AGAGTAACATAATTAAAAAAATGAA--TTTTCTTG
1 TATAAATTAATTAATATTCCAAAAATTAATA-AGTAA-A-AATTTAAAAAATAAAGCTATT-TT-
* * *
35888 TTGATCA-AGTTGAAATAGTTATGACTGTCTAAACAATTATCTATTTCAAAACATTATGACATTT
61 TTGAACACA-TTCAAATAGTTATGACTATCTAAACAATTATCTATTTCAAAACATTATGACATTT
* **
35952 TGTTTTGTCAAAAAACAATTGGTTCTGTTCATGCAAGTGTATTTTGAATAAAATAA
125 TGTTTTGTCAAAAAACAATTGGTTCTATTCAAACAAGTGTATTTTGAATAAAATAA
* * * * *
36008 TATAAATTTATTAATATTCCAAAAATTAATATGTATAATTTTAGAAAATAAAGCTATTTTTTGAA
1 TATAAATTAATTAATATTCCAAAAATTAATAAGTAAAAATTTAAAAAATAAAGCTATTTTTTGAA
* *
36073 CACATTCAAATAGTTATGACTAT-TTAACAATTATCTATTTCAAATCATTATGAC-TATTTGTTT
66 CACATTCAAATAGTTATGACTATCTAAACAATTATCTATTTCAAAACATTATGACAT-TTTGTTT
* * *
36136 TGTCATAAACCAATTGTTTCTATTCAAACAAGCT-TA-TTTGAAATAAAATAA
130 TGTCAAAAAACAATTGGTTCTATTCAAACAAG-TGTATTTTG-AATAAAATAA
*
36187 T-TCTAATTAATTAATATTCC-AAAATTAATAAGTAAAAGATTTAAAAAATAAA
1 TAT-AAATTAATTAATATTCCAAAAATTAATAAGTAAAA-ATTTAAAAAATAAA
36239 TTTGTTTACC
Statistics
Matches: 195, Mismatches: 26, Indels: 22
0.80 0.11 0.09
Matches are distributed among these distances:
178 21 0.11
179 102 0.52
180 35 0.18
181 10 0.05
182 26 0.13
183 1 0.01
ACGTcount: A:0.44, C:0.09, G:0.08, T:0.39
Consensus pattern (180 bp):
TATAAATTAATTAATATTCCAAAAATTAATAAGTAAAAATTTAAAAAATAAAGCTATTTTTTGAA
CACATTCAAATAGTTATGACTATCTAAACAATTATCTATTTCAAAACATTATGACATTTTGTTTT
GTCAAAAAACAATTGGTTCTATTCAAACAAGTGTATTTTGAATAAAATAA
Found at i:36379 original size:145 final size:145
Alignment explanation
Indices: 36111--36411 Score: 385
Period size: 145 Copynumber: 2.1 Consensus size: 145
36101 AATTATCTAT
*
36111 TTCAAATCA-TTATGACTATTTGTTTTGTCATAAACCAATTGTTTCTATTCAAACAAGCTTATTT
1 TTCAAAT-AGTTATGACTATTTGTTTTGTCATAAAACAATTGTTTCTATTCAAACAAGCTTATTT
* * * *
36175 GAAATAAAATAATTCTAATTAATTAATATTCCAAAATTAATAAGTAAAAGATTTAAAAAATAAAT
65 GAAATAAAATAATACTAATTAACTAACATTCAAAAATTAATAAGTAAAAGATTTAAAAAATAAAT
* ***
36240 TTGTTTACCGAGTGAG
130 TAGTTTACCGAACCAG
* *
36256 TTCAAATAGTTATGATCT-TTTGTTTTGTTATAAAACAATTGTTTCTATTCATAA-AAGTTTATT
1 TTCAAATAGTTATGA-CTATTTGTTTTGTCATAAAACAATTGTTTCTATTCA-AACAAGCTTATT
* ** *
36319 TGGAATAAAATAATACTAA-TATACTAACATTCTAAAAATTAATAAGTTGAAGATTTAAAAAATT
64 TGAAATAAAATAATACTAATTA-ACTAACATTC-AAAAATTAATAAGTAAAAGATTTAAAAAATA
*
36383 AATTAGTTTATCGAACCAG
127 AATTAGTTTACCGAACCAG
36402 TTCAAATAGT
1 TTCAAATAGT
36412 CAAGTCCATT
Statistics
Matches: 135, Mismatches: 16, Indels: 9
0.84 0.10 0.06
Matches are distributed among these distances:
144 3 0.02
145 77 0.57
146 55 0.41
ACGTcount: A:0.42, C:0.09, G:0.09, T:0.40
Consensus pattern (145 bp):
TTCAAATAGTTATGACTATTTGTTTTGTCATAAAACAATTGTTTCTATTCAAACAAGCTTATTTG
AAATAAAATAATACTAATTAACTAACATTCAAAAATTAATAAGTAAAAGATTTAAAAAATAAATT
AGTTTACCGAACCAG
Found at i:37479 original size:20 final size:19
Alignment explanation
Indices: 37411--37490 Score: 56
Period size: 20 Copynumber: 4.0 Consensus size: 19
37401 GTATTAATTA
37411 GTTTATTAT-ATAAACTATT
1 GTTTATTATAATAAA-TATT
*
37430 G-TTATAAGTAATAAATATT
1 GTTTATTA-TAATAAATATT
* * *
37449 GCATGAATATAATAAATTATT
1 G-TTTATTATAATAAA-TATT
37470 GTTTATTATAAATTAAATATT
1 GTTTATTAT-AA-TAAATATT
37491 AATTTAAGTT
Statistics
Matches: 47, Mismatches: 7, Indels: 12
0.71 0.11 0.18
Matches are distributed among these distances:
18 5 0.11
19 7 0.15
20 17 0.36
21 14 0.30
22 4 0.09
ACGTcount: A:0.44, C:0.03, G:0.07, T:0.46
Consensus pattern (19 bp):
GTTTATTATAATAAATATT
Found at i:37855 original size:18 final size:18
Alignment explanation
Indices: 37814--37909 Score: 53
Period size: 18 Copynumber: 5.4 Consensus size: 18
37804 TGAGGAAAAT
*
37814 AATTATAT-ACTATAATA
1 AATTATATAACTATTATA
* *
37831 TAGTATATAACTATTATA
1 AATTATATAACTATTATA
37849 AATTATAATTAA-TA-TATA
1 AATTAT-A-TAACTATTATA
*
37867 ATTTAT-TAA-TATTAATA
1 AATTATATAACTATT-ATA
*
37884 TAATTAT-TAAC-ATTAAA
1 -AATTATATAACTATTATA
37901 TAATTATAT
1 -AATTATAT
37910 TATAATTAAG
Statistics
Matches: 63, Mismatches: 8, Indels: 15
0.73 0.09 0.17
Matches are distributed among these distances:
15 5 0.08
16 1 0.02
17 18 0.29
18 33 0.52
19 3 0.05
20 3 0.05
ACGTcount: A:0.50, C:0.03, G:0.01, T:0.46
Consensus pattern (18 bp):
AATTATATAACTATTATA
Found at i:37873 original size:28 final size:28
Alignment explanation
Indices: 37815--37887 Score: 73
Period size: 28 Copynumber: 2.7 Consensus size: 28
37805 GAGGAAAATA
* *
37815 ATTATATACTATAATATAGTATATAACT
1 ATTATAAACTATAATATAATATATAACT
*
37843 ATTATAAATTATAAT-TAATATATAA-T
1 ATTATAAACTATAATATAATATATAACT
*
37869 -TTATTAA-TATTAATATAAT
1 ATTATAAACTA-TAATATAAT
37888 TATTAACATT
Statistics
Matches: 39, Mismatches: 4, Indels: 6
0.80 0.08 0.12
Matches are distributed among these distances:
24 2 0.05
25 10 0.26
26 5 0.13
27 9 0.23
28 13 0.33
ACGTcount: A:0.49, C:0.03, G:0.01, T:0.47
Consensus pattern (28 bp):
ATTATAAACTATAATATAATATATAACT
Found at i:37918 original size:19 final size:19
Alignment explanation
Indices: 37862--37911 Score: 68
Period size: 18 Copynumber: 2.7 Consensus size: 19
37852 TATAATTAAT
*
37862 ATATAATTTATTAATATTA
1 ATATAATTTATTAACATTA
37881 ATATAA-TTATTAACATTA
1 ATATAATTTATTAACATTA
37899 A-ATAATTATATTA
1 ATATAATT-TATTA
37912 TAATTAAGTT
Statistics
Matches: 28, Mismatches: 1, Indels: 4
0.85 0.03 0.12
Matches are distributed among these distances:
17 4 0.14
18 13 0.46
19 11 0.39
ACGTcount: A:0.50, C:0.02, G:0.00, T:0.48
Consensus pattern (19 bp):
ATATAATTTATTAACATTA
Found at i:37979 original size:19 final size:20
Alignment explanation
Indices: 37951--37989 Score: 55
Period size: 20 Copynumber: 2.0 Consensus size: 20
37941 CAATATCCGC
37951 TTCAAGTTA-TTATATATTTA
1 TTCAAGTTATTTATA-ATTTA
37971 TTCAA-TTATTTATAATTTA
1 TTCAAGTTATTTATAATTTA
37990 ATATTTGAAT
Statistics
Matches: 18, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
19 8 0.44
20 10 0.56
ACGTcount: A:0.36, C:0.05, G:0.03, T:0.56
Consensus pattern (20 bp):
TTCAAGTTATTTATAATTTA
Found at i:38600 original size:9 final size:9
Alignment explanation
Indices: 38586--38618 Score: 50
Period size: 9 Copynumber: 3.8 Consensus size: 9
38576 ATACCTTAAT
38586 ATAATTATA
1 ATAATTATA
38595 ATAATTATA
1 ATAATTATA
*
38604 ATAAATAT-
1 ATAATTATA
38612 ATAATTA
1 ATAATTA
38619 GTATAATACT
Statistics
Matches: 22, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
8 6 0.27
9 16 0.73
ACGTcount: A:0.58, C:0.00, G:0.00, T:0.42
Consensus pattern (9 bp):
ATAATTATA
Found at i:38614 original size:20 final size:20
Alignment explanation
Indices: 38582--38626 Score: 56
Period size: 20 Copynumber: 2.2 Consensus size: 20
38572 ATTGATACCT
*
38582 TAATATAATTATAATAATTA
1 TAATATAATTATAATAAGTA
*
38602 TAATA-AATATATAATTAGTA
1 TAATATAAT-TATAATAAGTA
38622 TAATA
1 TAATA
38627 CTATAATAAG
Statistics
Matches: 22, Mismatches: 2, Indels: 2
0.85 0.08 0.08
Matches are distributed among these distances:
19 3 0.14
20 19 0.86
ACGTcount: A:0.56, C:0.00, G:0.02, T:0.42
Consensus pattern (20 bp):
TAATATAATTATAATAAGTA
Found at i:38855 original size:18 final size:18
Alignment explanation
Indices: 38821--38964 Score: 50
Period size: 18 Copynumber: 7.7 Consensus size: 18
38811 TTATTATAAC
*
38821 TAATTAT-TAATTAAATAT
1 TAATTATATTATT-AATAT
38839 TAATTATATTATTAATAAAT
1 TAATTATATTATTAAT--AT
* *
38859 CATAAATATATTATATTATATT
1 --TAATTATATTAT-TAATA-T
*
38881 TAATAAT-TTA-TAATAT
1 TAATTATATTATTAATAT
* *
38897 AAATTATA-AATTAAT-T
1 TAATTATATTATTAATAT
* *
38913 ATAA-AATATTAATTAATAA
1 -TAATTATATT-ATTAATAT
*
38932 TAATTA-ATTATTATCATAG
1 TAATTATATTATTA--ATAT
38951 TATATTATATTATT
1 TA-ATTATATTATT
38965 TGAGTCATAC
Statistics
Matches: 93, Mismatches: 15, Indels: 33
0.66 0.11 0.23
Matches are distributed among these distances:
16 11 0.12
17 14 0.15
18 22 0.24
19 13 0.14
20 11 0.12
21 7 0.08
22 12 0.13
23 3 0.03
ACGTcount: A:0.49, C:0.01, G:0.01, T:0.49
Consensus pattern (18 bp):
TAATTATATTATTAATAT
Found at i:38868 original size:22 final size:23
Alignment explanation
Indices: 38823--38872 Score: 68
Period size: 22 Copynumber: 2.2 Consensus size: 23
38813 ATTATAACTA
*
38823 ATTATTAATTAAATATTAATTAT
1 ATTATTAATTAAATATTAAATAT
38846 ATTATTAA-TAAATCA-TAAATAT
1 ATTATTAATTAAAT-ATTAAATAT
38868 ATTAT
1 ATTAT
38873 ATTATATTTA
Statistics
Matches: 25, Mismatches: 1, Indels: 3
0.86 0.03 0.10
Matches are distributed among these distances:
22 16 0.64
23 9 0.36
ACGTcount: A:0.50, C:0.02, G:0.00, T:0.48
Consensus pattern (23 bp):
ATTATTAATTAAATATTAAATAT
Found at i:38880 original size:29 final size:28
Alignment explanation
Indices: 38832--38904 Score: 67
Period size: 30 Copynumber: 2.5 Consensus size: 28
38822 AATTATTAAT
38832 TAAATATTAATTATATTA-TTAATAAATCA
1 TAAATA-T-ATTATATTATTTAATAAATCA
* *
38861 TAAATATATTATATTATATTTAATAATTTA
1 TAAATATATTATA-T-TATTTAATAAATCA
*
38891 TAATATAAATTATA
1 TAA-ATATATTATA
38905 AATTAATTAT
Statistics
Matches: 37, Mismatches: 3, Indels: 6
0.80 0.07 0.13
Matches are distributed among these distances:
27 6 0.16
28 2 0.05
29 8 0.22
30 12 0.32
31 9 0.24
ACGTcount: A:0.51, C:0.01, G:0.00, T:0.48
Consensus pattern (28 bp):
TAAATATATTATATTATTTAATAAATCA
Found at i:38884 original size:42 final size:42
Alignment explanation
Indices: 38825--38963 Score: 99
Period size: 42 Copynumber: 3.3 Consensus size: 42
38815 TATAACTAAT
*
38825 TATTA-ATTAAATATTAATTATATTATTAATAAATCATAAATA
1 TATTATATTATAT-TTAATTATATTATTAATAAATCATAAATA
* * *
38867 TATTATATTATATTTAATAAT-TTATAATATAAATTATAAAT-
1 TATTATATTATATTTAATTATATTATTA-ATAAATCATAAATA
** * * *
38908 TAATTATAAAATA-TTAATTAATAATAATTAATTATTATCAT-AGTA
1 T-ATTATATTATATTTAATT-AT-ATTATTAA-TA-AATCATAAATA
38953 TATTATATTAT
1 TATTATATTAT
38964 TTGAGTCATA
Statistics
Matches: 74, Mismatches: 14, Indels: 16
0.71 0.13 0.15
Matches are distributed among these distances:
41 11 0.15
42 35 0.47
43 7 0.09
44 16 0.22
45 5 0.07
ACGTcount: A:0.50, C:0.01, G:0.01, T:0.48
Consensus pattern (42 bp):
TATTATATTATATTTAATTATATTATTAATAAATCATAAATA
Found at i:38925 original size:14 final size:15
Alignment explanation
Indices: 38905--38942 Score: 53
Period size: 14 Copynumber: 2.7 Consensus size: 15
38895 ATAAATTATA
38905 AATTAATTATAAAAT
1 AATTAATTATAAAAT
*
38920 -ATTAATTA-ATAAT
1 AATTAATTATAAAAT
38933 AATTAATTAT
1 AATTAATTAT
38943 TATCATAGTA
Statistics
Matches: 20, Mismatches: 1, Indels: 4
0.80 0.04 0.16
Matches are distributed among these distances:
13 4 0.20
14 16 0.80
ACGTcount: A:0.55, C:0.00, G:0.00, T:0.45
Consensus pattern (15 bp):
AATTAATTATAAAAT
Found at i:39028 original size:27 final size:26
Alignment explanation
Indices: 38989--39039 Score: 84
Period size: 27 Copynumber: 1.9 Consensus size: 26
38979 AATTGTTACT
38989 TATAATTTATATTAAACTATAAATTA
1 TATAATTTATATTAAACTATAAATTA
*
39015 TATAATATTATATTATACTATAAAT
1 TATAAT-TTATATTAAACTATAAAT
39040 CAAATATTAT
Statistics
Matches: 23, Mismatches: 1, Indels: 1
0.92 0.04 0.04
Matches are distributed among these distances:
26 6 0.26
27 17 0.74
ACGTcount: A:0.49, C:0.04, G:0.00, T:0.47
Consensus pattern (26 bp):
TATAATTTATATTAAACTATAAATTA
Found at i:39146 original size:13 final size:12
Alignment explanation
Indices: 39123--39191 Score: 59
Period size: 13 Copynumber: 5.6 Consensus size: 12
39113 ATACAACTAT
* *
39123 TATAGTTAATAT
1 TATAATTAATAA
39135 TATCAATTAATAA
1 TAT-AATTAATAA
*
39148 TATTAATTATTAA
1 TA-TAATTAATAA
*
39161 TATTATTAAT-A
1 TATAATTAATAA
*
39172 TTTAAATTAATAA
1 TAT-AATTAATAA
39185 TATAATT
1 TATAATT
39192 TATTTATATT
Statistics
Matches: 45, Mismatches: 8, Indels: 8
0.74 0.13 0.13
Matches are distributed among these distances:
11 3 0.07
12 19 0.42
13 22 0.49
14 1 0.02
ACGTcount: A:0.48, C:0.01, G:0.01, T:0.49
Consensus pattern (12 bp):
TATAATTAATAA
Found at i:39180 original size:15 final size:17
Alignment explanation
Indices: 39140--39188 Score: 59
Period size: 16 Copynumber: 3.1 Consensus size: 17
39130 AATATTATCA
*
39140 ATTAATAATATTAAT-T
1 ATTAATATTATTAATAT
39156 ATTAATATTATTAATAT
1 ATTAATATTATTAATAT
*
39173 -TTAA-ATTAATAATAT
1 ATTAATATTATTAATAT
39188 A
1 A
39189 ATTTATTTAT
Statistics
Matches: 29, Mismatches: 2, Indels: 4
0.83 0.06 0.11
Matches are distributed among these distances:
15 10 0.34
16 18 0.62
17 1 0.03
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (17 bp):
ATTAATATTATTAATAT
Found at i:39187 original size:37 final size:38
Alignment explanation
Indices: 39128--39202 Score: 109
Period size: 37 Copynumber: 2.0 Consensus size: 38
39118 ACTATTATAG
*
39128 TTAATATTATCAATTAATAATATTAA-TTATTAATATTA
1 TTAATATTATAAATTAATAATA-TAATTTATTAATATTA
*
39166 TTAATATT-TAAATTAATAATATAATTTATTTATATTA
1 TTAATATTATAAATTAATAATATAATTTATTAATATTA
39203 CTAGATTTAT
Statistics
Matches: 34, Mismatches: 2, Indels: 3
0.87 0.05 0.08
Matches are distributed among these distances:
36 3 0.09
37 23 0.68
38 8 0.24
ACGTcount: A:0.47, C:0.01, G:0.00, T:0.52
Consensus pattern (38 bp):
TTAATATTATAAATTAATAATATAATTTATTAATATTA
Found at i:39380 original size:19 final size:21
Alignment explanation
Indices: 39344--39383 Score: 66
Period size: 19 Copynumber: 2.0 Consensus size: 21
39334 ATTAGATTAA
39344 ATAATTATAATAATATTTATT
1 ATAATTATAATAATATTTATT
39365 ATAATTAT-AT-ATATTTATT
1 ATAATTATAATAATATTTATT
39384 TATATAATTT
Statistics
Matches: 19, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
19 9 0.47
20 2 0.11
21 8 0.42
ACGTcount: A:0.45, C:0.00, G:0.00, T:0.55
Consensus pattern (21 bp):
ATAATTATAATAATATTTATT
Found at i:40875 original size:18 final size:18
Alignment explanation
Indices: 40852--41007 Score: 60
Period size: 18 Copynumber: 8.5 Consensus size: 18
40842 TCAATTTGGC
40852 TATTATAATTTAATATAT
1 TATTATAATTTAATATAT
40870 TATTATAATTTCAAT-T-T
1 TATTATAATTT-AATATAT
* ***
40887 TA-AACTAATAGCCATATAT
1 TATTA-TAAT-TTAATATAT
40906 TAGTTA-ATATTT-ATAATAT
1 TA-TTATA-ATTTAAT-ATAT
* *
40925 TATTACT-ATTTATTATAA
1 TATTA-TAATTTAATATAT
*
40943 TAAT-TAATTTATATAGTAT
1 TATTATAATTTA-ATA-TAT
* *
40962 CATGTAATAATTTAATAAAT
1 TAT-T-ATAATTTAATATAT
40982 TATTATAA-TTAA-ATAT
1 TATTATAATTTAATATAT
40998 TATTAATAAT
1 TATT-ATAAT
41008 ATTTTATGAA
Statistics
Matches: 101, Mismatches: 17, Indels: 40
0.64 0.11 0.25
Matches are distributed among these distances:
16 9 0.09
17 22 0.22
18 34 0.34
19 18 0.18
20 7 0.07
21 4 0.04
22 7 0.07
ACGTcount: A:0.44, C:0.04, G:0.03, T:0.49
Consensus pattern (18 bp):
TATTATAATTTAATATAT
Found at i:41047 original size:13 final size:13
Alignment explanation
Indices: 41028--41060 Score: 50
Period size: 13 Copynumber: 2.5 Consensus size: 13
41018 TTATATTAAT
41028 TATTATAATATGTA
1 TATTATAAT-TGTA
41042 -ATTATAATTGTA
1 TATTATAATTGTA
41054 TATTATA
1 TATTATA
41061 TATTATATAA
Statistics
Matches: 18, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
12 4 0.22
13 14 0.78
ACGTcount: A:0.42, C:0.00, G:0.06, T:0.52
Consensus pattern (13 bp):
TATTATAATTGTA
Found at i:41063 original size:25 final size:25
Alignment explanation
Indices: 41028--41087 Score: 68
Period size: 25 Copynumber: 2.4 Consensus size: 25
41018 TTATATTAAT
* *
41028 TATTATAATATGTA-ATTATAATTGTA
1 TATTAT-ATAT-TATATAATAATTATA
*
41054 TATTATATATTATATAATAATTATT
1 TATTATATATTATATAATAATTATA
41079 TATTATATA
1 TATTATATA
41088 ATTTAATTGG
Statistics
Matches: 30, Mismatches: 3, Indels: 3
0.83 0.08 0.08
Matches are distributed among these distances:
24 2 0.07
25 22 0.73
26 6 0.20
ACGTcount: A:0.43, C:0.00, G:0.03, T:0.53
Consensus pattern (25 bp):
TATTATATATTATATAATAATTATA
Found at i:41082 original size:18 final size:18
Alignment explanation
Indices: 41055--41089 Score: 61
Period size: 18 Copynumber: 1.9 Consensus size: 18
41045 ATAATTGTAT
41055 ATTATATATTATATAATA
1 ATTATATATTATATAATA
*
41073 ATTATTTATTATATAAT
1 ATTATATATTATATAAT
41090 TTAATTGGAC
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
18 16 1.00
ACGTcount: A:0.46, C:0.00, G:0.00, T:0.54
Consensus pattern (18 bp):
ATTATATATTATATAATA
Done.