Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: NW_019168036.1 Durio zibethinus cultivar Musang King isolate D1 unplaced genomic scaffold, Duzib1.0 scaffold_289, 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: 38659
ACGTcount: A:0.43, C:0.07, G:0.07, T:0.43
Found at i:773 original size:25 final size:25
Alignment explanation
Indices: 745--818 Score: 60
Period size: 25 Copynumber: 2.8 Consensus size: 25
735 GAATATAACA
* *
745 TTTAAAATTATATTCTATTTATAAT
1 TTTAAAATTATATTATAATTATAAT
**
770 TTTATTATTATATTATAATTATATTAT
1 TTTAAAATTATATTATAATTATA--AT
*
797 ATTT-AATTTATATATATAATTA
1 -TTTAAAATTATAT-TATAATTA
819 ACAATTAAAT
Statistics
Matches: 38, Mismatches: 7, Indels: 5
0.76 0.14 0.10
Matches are distributed among these distances:
25 19 0.50
27 8 0.21
28 11 0.29
ACGTcount: A:0.41, C:0.01, G:0.00, T:0.58
Consensus pattern (25 bp):
TTTAAAATTATATTATAATTATAAT
Found at i:1166 original size:182 final size:178
Alignment explanation
Indices: 919--2112 Score: 541
Period size: 182 Copynumber: 6.6 Consensus size: 178
909 ACTAGTTCAA
*
919 TAAACTGATTTATTTTTTAAA-T-GT-CTTATTAATTCTTAAAATATTAATAAATTGGTATTATT
1 TAAACTGATTTATTTTTTAAATTAGTACTTATTAATT-TTAAAATATTAATAAATTAGTATTATT
***
981 TTATTTCAACTAAGCTTGTATGTTGAAAAACAATTGTTTTATGACAAAACAAAAGGTAATAAAAA
65 TTATTTCAA-TAAGCTTGTATGAACAAAAACAATTGTTTTATGACAAAACAAAAGGTAATAAAAA
* * * ** * **
1046 TTTGAAATAGATAGTTGTTTAAATGGCTATAATTATTTTAAC-TGATTGTG
129 TTTGAAATAAATAATTGTTCAAATAACCATAATTATTCAAACTTGATTG-G
* *
1096 TAAACTGATTTATTCTTTTAAATTAGTTACTTATTAATTTTCAAAATATTACTAAAGTAGTATTA
1 TAAACTGATTTATT-TTTTAAATTAG-TACTTATTAATTTT-AAAATATTAATAAATTAGTATTA
** * * * * * *
1161 TTTTATTTTGGATAAACTTTTATGAACTAAAACAATTGTTTTATGACAAAACAAATGGTCATAAT
63 TTTTA-TTTCAATAAGCTTGTATGAACAAAAACAATTGTTTTATGACAAAACAAAAGGTAATAAA
* * *
1226 TATTTTAAATAAATAATTGTTCAAATAACCATAATTATTCAAACTTGTTTGG
127 AATTTGAAATAAATAATTGTTCAAATAACCATAATTATTCAAACTTGATTGG
* ** *
1278 TAAACAGATTTATTTTTTTAAATCTCAAG-A-TTATTAATTTTTGAATGTTAATAAATTAGTATT
1 TAAACTGATTTA-TTTTTTAAAT-T--AGTACTTATTAATTTTAAAATATTAATAAATTAGTATT
* *** * * ** * * * * * *
1341 ATTTTTTTTTCAAATAAGCTTGTATGAATTGAAGCAATTATTACACGACTAAAGAAAATGTCAGA
62 A-TTTTATTTC-AATAAGCTTGTATGAACAAAAACAATTGTTTTATGACAAAACAAAAGGTAATA
** ** * * ** * * ** * **
1406 ATGATTTGAAATTGATAATTATTCTAATAGTCTTAACTATTTGAAC-TGGTTCAA
125 AAAATTTGAAATAAATAATTGTTCAAATAACCATAATTATTCAAACTTGATT-GG
* * * * * *
1460 TAAA-TACATTTATTTTTTGAA-T-CT-CTTATTAATTTTTGAAATATTATTAAATTAGTAATAT
1 TAAACT-GATTTATTTTTTAAATTAGTACTTATTAA-TTTTAAAATATTAATAAATTAGTATTA-
* * * * * * *
1521 TTTTATCTAAATAAGCTTGTAT-AATCAGAAATAATTATTTTATGAGAAAAC-AAAGATCAA-AA
63 TTTTATTTCAATAAGCTTGTATGAA-CAAAAACAATTGTTTTATGACAAAACAAAAGGT-AATAA
* * ** * * * **
1583 CAATTTGAGATTGATATTTATTCAAATAGCCATAATTATTTGAAC-TGATTTGG
126 AAATTTGAAATAAATAATTGTTCAAATAACCATAATTATTCAAACTTGA-TTGG
* * * *
1636 AAAAC-AATTTTAGTTTTTAAAAATCTTGT--TTATTAATTTTTAAAATATTAATAAATTAGTAT
1 TAAACTGA-TTTA-TTTTT-TAAAT-TAGTACTTATTAA-TTTTAAAATATTAATAAATTAGTAT
** * * ** * *
1698 TATTTTATTTCAAATAAATTTTTATAAACTGAAACAATTGTTTTATGACAAAATAAAAGGTCATA
61 TATTTTATTTC-AATAAGCTTGTATGAACAAAAACAATTGTTTTATGACAAAACAAAAGGTAATA
* * * * * ** * *
1763 ACGACTTT-AAATAGATAATTGTTTAAATAATCA-AATCTATTTTAA-TTTATTCGA
125 A-AAATTTGAAATAAATAATTGTTCAAATAACCATAAT-TATTCAAACTTGATT-GG
* * ** * *
1817 TAAACGGATTTATTTTTTTAAATCTCA-TGCTTATTAATTTTTCGAATGTGAATAAATTAGTATT
1 TAAACTGATTTA-TTTTTTAAAT-T-AGTACTTATTAA-TTTTAAAATATTAATAAATTAGTATT
* * * * * *** * * *
1881 AATTTGTTCTAAATAAGCTTATATGGATTGAAATAATTGTTTTGTGACTAAACAAAAGGTCAA-A
62 ATTTTATT-TCAATAAGCTTGTATGAACAAAAACAATTGTTTTATGACAAAACAAAAGGT-AATA
** * * * * * ** * * ** * *
1945 ATGATATGAAATAGATAATTATCCTAATAGTCTTAACTATTTGAAC-TG-TCCGA
125 AAAATTTGAAATAAATAATTGTTCAAATAACCATAATTATTCAAACTTGAT-TGG
* ** ** * ** *
1998 CAAACACATTTATTTTTTAAATCTCTTACTTACTAATTTTTGGAATATTATTAAATTAGTATTAT
1 TAAACTGATTTATTTTTTAAAT-TAGTACTTATTAA-TTTTAAAATATTAATAAATTAGTATTAT
* * *
2063 TTTAATATGAATAAGCTTATATGAA-AAGAAACAATTGTTTTATGACAAAA
64 TTT-ATTTCAATAAGCTTGTATGAACAA-AAACAATTGTTTTATGACAAAA
2113 TAATATAATT
Statistics
Matches: 779, Mismatches: 188, Indels: 97
0.73 0.18 0.09
Matches are distributed among these distances:
175 1 0.00
176 54 0.07
177 58 0.07
178 38 0.05
179 9 0.01
180 160 0.21
181 102 0.13
182 338 0.43
183 17 0.02
185 2 0.00
ACGTcount: A:0.40, C:0.08, G:0.10, T:0.43
Consensus pattern (178 bp):
TAAACTGATTTATTTTTTAAATTAGTACTTATTAATTTTAAAATATTAATAAATTAGTATTATTT
TATTTCAATAAGCTTGTATGAACAAAAACAATTGTTTTATGACAAAACAAAAGGTAATAAAAATT
TGAAATAAATAATTGTTCAAATAACCATAATTATTCAAACTTGATTGG
Found at i:1932 original size:539 final size:540
Alignment explanation
Indices: 873--2112 Score: 1433
Period size: 539 Copynumber: 2.3 Consensus size: 540
863 TAACAATTTA
* * * * *
873 AAATAGAAAATTGTCCAAATAGTCATAACTATTTGAACTAGTTCAATAAACT-GATTTATTTTTT
1 AAATAGATAATTATCCTAATAGTCTTAACTATTTGAACT-GTTCAATAAA-TACATTTATTTTTT
* * * * * * *
937 AAATGTCTTATTAATTCTTAAAATATTAATAAATTGGTATTA-TTTTATTTCAACTAAGCTTGTA
64 AAATCTCTTATTAATTTTTGAAATATTATTAAATTAGTATTATTTTTATAT-AAATAAGCTTGTA
** * *
1001 TGTTGAA-AAACAATTGTTTTATGACAAAACAAAAGGTAATAAAAATTTGAAATAGATAGTTGTT
128 TAAT-AAGAAACAATTGTTTTATGACAAAACAAAAGATAATAAAAATTTGAAATAGATAGTTATT
* * * * * * * * *
1065 TAAATGGCTATAATTATTTTAACTGATTGTGTAAACTGATTTATTCTTTTAAATTAGTTACTTAT
192 CAAATAGCCATAATTATTTGAACTGATTGTGAAAACTAATTTATTCTTTAAAAATACTTACTTAT
* *** *
1130 TAATTTTCAAAATATTACTAAAGTAGTATTATTTTATTTTGGATAAACTTTTATGAACTAAAACA
257 TAATTTTCAAAATATTAATAAAGTAGTATTATTTTATTTCAAATAAACTTTTATAAACTAAAACA
* ** *
1195 ATTGTTTTATGACAAAACAAATGGTCATAATTATTTTAAATAAATAATTGTTCAAATAACCATAA
322 ATTGTTTTATGACAAAACAAAAGGTCATAACGACTTTAAATAAATAATTGTTCAAATAACCATAA
* * *
1260 TTATTCAAACTTGTTTGGTAAACAGATTTATTTTTTTAAATCTCAAGATTATTAATTTTTGAATG
387 TTATTCAAACTTATTCGATAAACAGATTTATTTTTTTAAATCTCAAGATTATTAATTTTTGAATG
* * * * * *
1325 TTAATAAATTAGTATTATTTTTTTTTCAAATAAGCTTGTATGAATTGAAGCAATTATTACACGAC
452 TGAATAAATTAGTATTAATTTGTTCTCAAATAAGCTTATATGAATTGAAACAATTATTACACGAC
* * * *
1390 TAAAGAAAATGTCAGAATGATTTG
517 TAAACAAAAGGTCAAAATGATATG
* * *
1414 AAATTGATAATTATTCTAATAGTCTTAACTATTTGAACTGGTTCAATAAATACATTTATTTTTTG
1 AAATAGATAATTATCCTAATAGTCTTAACTATTTGAACT-GTTCAATAAATACATTTATTTTTTA
* *
1479 AATCTCTTATTAATTTTTGAAATATTATTAAATTAGTAATATTTTTATCTAAATAAGCTTGTATA
65 AATCTCTTATTAATTTTTGAAATATTATTAAATTAGTATTATTTTTATATAAATAAGCTTGTATA
* * * * * * * *
1544 ATCAGAAATAATTATTTTATGAGAAAAC-AAAGATCAA-AACAATTTGAGATTGATATTTATTCA
130 ATAAGAAACAATTGTTTTATGACAAAACAAAAGAT-AATAAAAATTTGAAATAGATAGTTATTCA
**
1607 AATAGCCATAATTATTTGAACTGATT-TGGAAAAC-AATTTTAGTT-TTTAAAAAT-CTTGTTTA
194 AATAGCCATAATTATTTGAACTGATTGT-GAAAACTAA-TTTA-TTCTTTAAAAATACTTACTTA
* * * *
1668 TTAATTTTTAAAATATTAATAAATTAGTATTATTTTATTTCAAATAAATTTTTATAAACTGAAAC
256 TTAATTTTCAAAATATTAATAAAGTAGTATTATTTTATTTCAAATAAACTTTTATAAACTAAAAC
* * * *
1733 AATTGTTTTATGACAAAATAAAAGGTCATAACGACTTTAAATAGATAATTGTTTAAATAATCA-A
321 AATTGTTTTATGACAAAACAAAAGGTCATAACGACTTTAAATAAATAATTGTTCAAATAACCATA
** * * * *
1797 ATCTATTTTAATTTATTCGATAAACGGATTTATTTTTTTAAATCTCATGCTTATTAATTTTTCGA
386 AT-TATTCAAACTTATTCGATAAACAGATTTATTTTTTTAAATCTCAAGATTATTAATTTTT-GA
* * * ****
1862 ATGTGAATAAATTAGTATTAATTTGTTCT-AAATAAGCTTATATGGATTGAAATAATTGTTTTGT
449 ATGTGAATAAATTAGTATTAATTTGTTCTCAAATAAGCTTATATGAATTGAAACAATTATTACAC
1926 GACTAAACAAAAGGTCAAAATGATATG
514 GACTAAACAAAAGGTCAAAATGATATG
* * * *
1953 AAATAGATAATTATCCTAATAGTCTTAACTATTTGAACTGTCCGACAAACACATTTATTTTTTAA
1 AAATAGATAATTATCCTAATAGTCTTAACTATTTGAACTGTTCAATAAATACATTTATTTTTTAA
* * * *
2018 ATCTCTTACTTACTAATTTTTGGAATATTATTAAATTAGTATTATTTTAATATGAATAAGCTTAT
66 ATCTCTTA--T--TAATTTTTGAAATATTATTAAATTAGTATTATTTTTATATAAATAAGCTTGT
2083 ATGAA-AAGAAACAATTGTTTTATGACAAAA
127 AT-AATAAGAAACAATTGTTTTATGACAAAA
2113 TAATATAATT
Statistics
Matches: 585, Mismatches: 100, Indels: 27
0.82 0.14 0.04
Matches are distributed among these distances:
538 32 0.05
539 254 0.43
540 94 0.16
541 127 0.22
542 76 0.13
543 2 0.00
ACGTcount: A:0.40, C:0.08, G:0.10, T:0.42
Consensus pattern (540 bp):
AAATAGATAATTATCCTAATAGTCTTAACTATTTGAACTGTTCAATAAATACATTTATTTTTTAA
ATCTCTTATTAATTTTTGAAATATTATTAAATTAGTATTATTTTTATATAAATAAGCTTGTATAA
TAAGAAACAATTGTTTTATGACAAAACAAAAGATAATAAAAATTTGAAATAGATAGTTATTCAAA
TAGCCATAATTATTTGAACTGATTGTGAAAACTAATTTATTCTTTAAAAATACTTACTTATTAAT
TTTCAAAATATTAATAAAGTAGTATTATTTTATTTCAAATAAACTTTTATAAACTAAAACAATTG
TTTTATGACAAAACAAAAGGTCATAACGACTTTAAATAAATAATTGTTCAAATAACCATAATTAT
TCAAACTTATTCGATAAACAGATTTATTTTTTTAAATCTCAAGATTATTAATTTTTGAATGTGAA
TAAATTAGTATTAATTTGTTCTCAAATAAGCTTATATGAATTGAAACAATTATTACACGACTAAA
CAAAAGGTCAAAATGATATG
Found at i:2379 original size:17 final size:17
Alignment explanation
Indices: 2350--2406 Score: 53
Period size: 17 Copynumber: 3.2 Consensus size: 17
2340 ATATTCGGAT
*
2350 ATAATTGTATAAATAAA
1 ATAATTATATAAATAAA
*
2367 ATAATTATTTAAAACTAATA
1 ATAATTATAT-AAA-TAA-A
*
2387 AT-ATTATATAAATAAT
1 ATAATTATATAAATAAA
2403 ATAA
1 ATAA
2407 CAATTATTTA
Statistics
Matches: 32, Mismatches: 4, Indels: 8
0.73 0.09 0.18
Matches are distributed among these distances:
16 2 0.06
17 12 0.38
18 6 0.19
19 9 0.28
20 3 0.09
ACGTcount: A:0.58, C:0.02, G:0.02, T:0.39
Consensus pattern (17 bp):
ATAATTATATAAATAAA
Found at i:2447 original size:28 final size:28
Alignment explanation
Indices: 2416--2480 Score: 71
Period size: 28 Copynumber: 2.3 Consensus size: 28
2406 ACAATTATTT
* *
2416 ATAAATATATTAA-ACATATAATAAGACA
1 ATAAATATAGTAATAAATATAATAA-ACA
*
2444 AT-AATAGTAGTAATAAATATATTAAACA
1 ATAAATA-TAGTAATAAATATAATAAACA
2472 ATAAATATA
1 ATAAATATA
2481 ATATTATATT
Statistics
Matches: 31, Mismatches: 3, Indels: 6
0.77 0.08 0.15
Matches are distributed among these distances:
27 4 0.13
28 14 0.45
29 13 0.42
ACGTcount: A:0.60, C:0.05, G:0.05, T:0.31
Consensus pattern (28 bp):
ATAAATATAGTAATAAATATAATAAACA
Found at i:2690 original size:13 final size:13
Alignment explanation
Indices: 2660--2684 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
2650 TATAATTCAA
2660 ATAATTATTATTT
1 ATAATTATTATTT
2673 ATAATTATTATT
1 ATAATTATTATT
2685 ATTAATCTAT
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.40, C:0.00, G:0.00, T:0.60
Consensus pattern (13 bp):
ATAATTATTATTT
Found at i:2928 original size:19 final size:19
Alignment explanation
Indices: 2904--2940 Score: 58
Period size: 19 Copynumber: 1.9 Consensus size: 19
2894 ATTAAAGAAT
2904 ATTAT-ATAATAAGTTATTC
1 ATTATAATAATAA-TTATTC
2923 ATTATAATAATAATTATT
1 ATTATAATAATAATTATT
2941 AATATTAAAA
Statistics
Matches: 17, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
19 10 0.59
20 7 0.41
ACGTcount: A:0.46, C:0.03, G:0.03, T:0.49
Consensus pattern (19 bp):
ATTATAATAATAATTATTC
Found at i:3288 original size:32 final size:31
Alignment explanation
Indices: 3229--3290 Score: 90
Period size: 32 Copynumber: 2.0 Consensus size: 31
3219 TATTACAATG
3229 TGAAATATAATAATTATTATATTAAAATTAA
1 TGAAATATAATAATTATTATATTAAAATTAA
*
3260 TGAAATATTAAT-GTTATTAATATTAAAATTA
1 TGAAATA-TAATAATTATT-ATATTAAAATTA
3291 TATAAATTAT
Statistics
Matches: 28, Mismatches: 1, Indels: 3
0.88 0.03 0.09
Matches are distributed among these distances:
31 12 0.43
32 16 0.57
ACGTcount: A:0.52, C:0.00, G:0.05, T:0.44
Consensus pattern (31 bp):
TGAAATATAATAATTATTATATTAAAATTAA
Found at i:3291 original size:15 final size:15
Alignment explanation
Indices: 3240--3291 Score: 52
Period size: 15 Copynumber: 3.4 Consensus size: 15
3230 GAAATATAAT
3240 AATTATT-ATATTAA
1 AATTATTAATATTAA
*
3254 AATTAATGAAATATTAA
1 AATT-AT-TAATATTAA
**
3271 TGTTATTAATATTAA
1 AATTATTAATATTAA
3286 AATTAT
1 AATTAT
3292 ATAAATTATT
Statistics
Matches: 29, Mismatches: 6, Indels: 5
0.73 0.15 0.12
Matches are distributed among these distances:
14 4 0.14
15 14 0.48
16 2 0.07
17 9 0.31
ACGTcount: A:0.50, C:0.00, G:0.04, T:0.46
Consensus pattern (15 bp):
AATTATTAATATTAA
Found at i:3536 original size:21 final size:21
Alignment explanation
Indices: 3489--3537 Score: 55
Period size: 21 Copynumber: 2.3 Consensus size: 21
3479 TCAAAATAAA
* *
3489 ATAACTATTTTATTATAATATT
1 ATAA-TATATTATTATAATAGT
3511 ATAATATATTATTATAAT-GT
1 ATAATATATTATTATAATAGT
3531 ACTAATA
1 A-TAATA
3538 AATATTTATA
Statistics
Matches: 24, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
20 2 0.08
21 18 0.75
22 4 0.17
ACGTcount: A:0.45, C:0.04, G:0.02, T:0.49
Consensus pattern (21 bp):
ATAATATATTATTATAATAGT
Found at i:4098 original size:23 final size:24
Alignment explanation
Indices: 4072--4130 Score: 68
Period size: 26 Copynumber: 2.5 Consensus size: 24
4062 ATTTTTATTT
*
4072 TTATTATTATAAT-TTATAACAAA
1 TTATTATTATAATATAATAACAAA
*
4095 TTATTATATATAATAATAATAATAAA
1 TTATTAT-TATAAT-ATAATAACAAA
4121 TTA-TATTATA
1 TTATTATTATA
4131 CTTATTATTT
Statistics
Matches: 31, Mismatches: 2, Indels: 5
0.82 0.05 0.13
Matches are distributed among these distances:
23 7 0.23
24 10 0.32
25 3 0.10
26 11 0.35
ACGTcount: A:0.51, C:0.02, G:0.00, T:0.47
Consensus pattern (24 bp):
TTATTATTATAATATAATAACAAA
Found at i:4169 original size:26 final size:27
Alignment explanation
Indices: 4072--4170 Score: 75
Period size: 31 Copynumber: 3.7 Consensus size: 27
4062 ATTTTTATTT
*
4072 TTATTAT-TATAAT-TTATAAC--AAA
1 TTATTATATATAATAATATAACTAAAA
*
4095 TTATTATATATAATAATAATAA-TAAAT
1 TTATTATATATAATAAT-ATAACTAAAA
*
4122 TATATTATACTTATTATTTAATATAACTAAAA
1 T-TATTATA--TA-TA-ATAATATAACTAAAA
4154 TTATTA-ATATAATAATA
1 TTATTATATATAATAATA
4171 AATATAATAA
Statistics
Matches: 60, Mismatches: 5, Indels: 19
0.71 0.06 0.23
Matches are distributed among these distances:
23 7 0.12
24 6 0.10
25 1 0.02
26 9 0.15
27 5 0.08
28 9 0.15
30 3 0.05
31 11 0.18
32 9 0.15
ACGTcount: A:0.51, C:0.03, G:0.00, T:0.46
Consensus pattern (27 bp):
TTATTATATATAATAATATAACTAAAA
Found at i:4322 original size:21 final size:21
Alignment explanation
Indices: 4275--4327 Score: 56
Period size: 21 Copynumber: 2.5 Consensus size: 21
4265 TCAATAAATA
* *
4275 ATTA-TATTAATATAATTTAT
1 ATTATTATTATTATAATTAAT
4295 -TTAATTATTATTATAATTAAT
1 ATT-ATTATTATTATAATTAAT
4316 ATTATTAATTAT
1 ATTATT-ATTAT
4328 CTTAGATTCC
Statistics
Matches: 27, Mismatches: 2, Indels: 6
0.77 0.06 0.17
Matches are distributed among these distances:
19 2 0.07
20 1 0.04
21 17 0.63
22 7 0.26
ACGTcount: A:0.43, C:0.00, G:0.00, T:0.57
Consensus pattern (21 bp):
ATTATTATTATTATAATTAAT
Found at i:4696 original size:20 final size:19
Alignment explanation
Indices: 4673--4711 Score: 51
Period size: 20 Copynumber: 2.0 Consensus size: 19
4663 TTTATATTAC
4673 TTATTAATAATAAATATTTA
1 TTATTAATAATAAAT-TTTA
* *
4693 TTATTTATTATAAATTTTA
1 TTATTAATAATAAATTTTA
4712 ATTTATCATA
Statistics
Matches: 17, Mismatches: 2, Indels: 1
0.85 0.10 0.05
Matches are distributed among these distances:
19 4 0.24
20 13 0.76
ACGTcount: A:0.44, C:0.00, G:0.00, T:0.56
Consensus pattern (19 bp):
TTATTAATAATAAATTTTA
Found at i:4717 original size:17 final size:17
Alignment explanation
Indices: 4695--4753 Score: 55
Period size: 17 Copynumber: 3.3 Consensus size: 17
4685 AATATTTATT
4695 ATTTATTATAAATTTTA
1 ATTTATTATAAATTTTA
* *
4712 ATTTATCATAAATATTA
1 ATTTATTATAAATTTTA
* *
4729 ATAATTACTATTAATATTTA
1 AT--TTATTATAAAT-TTTA
4749 ATTTA
1 ATTTA
4754 ATTAATATTT
Statistics
Matches: 33, Mismatches: 6, Indels: 5
0.75 0.14 0.11
Matches are distributed among these distances:
17 17 0.52
18 3 0.09
19 8 0.24
20 5 0.15
ACGTcount: A:0.44, C:0.03, G:0.00, T:0.53
Consensus pattern (17 bp):
ATTTATTATAAATTTTA
Found at i:4723 original size:37 final size:36
Alignment explanation
Indices: 4680--4768 Score: 101
Period size: 36 Copynumber: 2.5 Consensus size: 36
4670 TACTTATTAA
* *
4680 TAATAAATATTTATTATTTATTATAAAT-TTTAATT
1 TAATAAATATTTATTAATTACTATAAATATTTAATT
* *
4715 TATCATAAATA-TTAATAATTACTATTAATATTTAATT
1 TA--ATAAATATTTATTAATTACTATAAATATTTAATT
*
4752 TAATTAATATTTATTAA
1 TAATAAATATTTATTAA
4769 ACAATTAATT
Statistics
Matches: 44, Mismatches: 6, Indels: 7
0.77 0.11 0.12
Matches are distributed among these distances:
35 8 0.18
36 20 0.45
37 16 0.36
ACGTcount: A:0.45, C:0.02, G:0.00, T:0.53
Consensus pattern (36 bp):
TAATAAATATTTATTAATTACTATAAATATTTAATT
Found at i:4923 original size:10 final size:10
Alignment explanation
Indices: 4890--4997 Score: 55
Period size: 10 Copynumber: 10.4 Consensus size: 10
4880 CCCTTTTATT
4890 TTAATAATTTA
1 TTAATAA-TTA
*
4901 TTAATAGTTA
1 TTAATAATTA
*
4911 TTAATAATGA
1 TTAATAATTA
*
4921 TTATTAGA-TA
1 TTAATA-ATTA
4931 -TAATAATTAA
1 TTAATAATT-A
* *
4941 TTAATTATAA
1 TTAATAATTA
4951 TT-A-AATATA
1 TTAATAAT-TA
4960 TTAATAATTA
1 TTAATAATTA
4970 TAACCTAATAAGTTA
1 T----TAATAA-TTA
4985 -TAATAATTA
1 TTAATAATTA
4994 TTAA
1 TTAA
4998 AATACAATAT
Statistics
Matches: 74, Mismatches: 10, Indels: 27
0.67 0.09 0.24
Matches are distributed among these distances:
8 3 0.04
9 12 0.16
10 34 0.46
11 16 0.22
14 6 0.08
15 3 0.04
ACGTcount: A:0.49, C:0.02, G:0.04, T:0.45
Consensus pattern (10 bp):
TTAATAATTA
Found at i:4953 original size:27 final size:27
Alignment explanation
Indices: 4910--4969 Score: 70
Period size: 27 Copynumber: 2.3 Consensus size: 27
4900 ATTAATAGTT
* *
4910 ATTAA-TAATGATTATTAGATATAATA
1 ATTAATTAATGATAATTAAATATAATA
* *
4936 ATTAATTAATTATAATTAAATATATTA
1 ATTAATTAATGATAATTAAATATAATA
4963 A-TAATTA
1 ATTAATTA
4970 TAACCTAATA
Statistics
Matches: 29, Mismatches: 4, Indels: 2
0.83 0.11 0.06
Matches are distributed among these distances:
26 11 0.38
27 18 0.62
ACGTcount: A:0.52, C:0.00, G:0.03, T:0.45
Consensus pattern (27 bp):
ATTAATTAATGATAATTAAATATAATA
Found at i:4979 original size:22 final size:21
Alignment explanation
Indices: 4931--4994 Score: 58
Period size: 22 Copynumber: 2.9 Consensus size: 21
4921 TTATTAGATA
*
4931 TAATAATTAATTAATTATAAT
1 TAATAATTAATTAATTATAAC
4952 TAAATATATTAA-TAATTATAACC
1 T-AATA-ATTAATTAATTATAA-C
*
4975 TAATAAGTTATAATAATTAT
1 TAATAA-TTA-ATTAATTAT
4995 TAAAATACAA
Statistics
Matches: 36, Mismatches: 1, Indels: 9
0.78 0.02 0.20
Matches are distributed among these distances:
21 2 0.06
22 20 0.56
23 7 0.19
24 7 0.19
ACGTcount: A:0.52, C:0.03, G:0.02, T:0.44
Consensus pattern (21 bp):
TAATAATTAATTAATTATAAC
Found at i:5706 original size:23 final size:21
Alignment explanation
Indices: 5647--5706 Score: 59
Period size: 23 Copynumber: 2.7 Consensus size: 21
5637 ATTAACTTAA
5647 AAATTAGATTATAATTTATAGT
1 AAATTA-ATTATAATTTATAGT
*
5669 ATAA-TAATATCTAATTTATTAGTT
1 A-AATTAAT-TATAATTTA-TAG-T
5693 AAATTAATTATAAT
1 AAATTAATTATAAT
5707 AATTATTTAT
Statistics
Matches: 31, Mismatches: 2, Indels: 9
0.74 0.05 0.21
Matches are distributed among these distances:
21 2 0.06
22 11 0.35
23 12 0.39
24 6 0.19
ACGTcount: A:0.47, C:0.02, G:0.05, T:0.47
Consensus pattern (21 bp):
AAATTAATTATAATTTATAGT
Found at i:7568 original size:20 final size:18
Alignment explanation
Indices: 7543--7580 Score: 58
Period size: 20 Copynumber: 2.0 Consensus size: 18
7533 ATAATGTTAT
7543 ATAATTTATCTAATCTATTA
1 ATAATTTAT-TAAT-TATTA
7563 ATAATTTATTAATTATTA
1 ATAATTTATTAATTATTA
7581 TTCTTAATAG
Statistics
Matches: 18, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
18 5 0.28
19 4 0.22
20 9 0.50
ACGTcount: A:0.42, C:0.05, G:0.00, T:0.53
Consensus pattern (18 bp):
ATAATTTATTAATTATTA
Found at i:7608 original size:21 final size:21
Alignment explanation
Indices: 7570--7609 Score: 55
Period size: 21 Copynumber: 1.9 Consensus size: 21
7560 TTAATAATTT
*
7570 ATTAATTATTATTCTTAATAG
1 ATTAATTATTATTATTAATAG
7591 ATTAATT-TTATTAATTAAT
1 ATTAATTATTATT-ATTAAT
7610 CTAATTATTA
Statistics
Matches: 17, Mismatches: 1, Indels: 2
0.85 0.05 0.10
Matches are distributed among these distances:
20 5 0.29
21 12 0.71
ACGTcount: A:0.40, C:0.03, G:0.03, T:0.55
Consensus pattern (21 bp):
ATTAATTATTATTATTAATAG
Found at i:8414 original size:11 final size:11
Alignment explanation
Indices: 8376--8432 Score: 53
Period size: 11 Copynumber: 5.0 Consensus size: 11
8366 TGCTAATAAC
8376 AATTATAGTATT
1 AATTATA-TATT
* *
8388 AAATATTTGA-T
1 AATTATAT-ATT
8399 AATTATATATT
1 AATTATATATT
*
8410 AATTATAAATT
1 AATTATATATT
8421 AATTATTATATT
1 AATTA-TATATT
8433 TTTTAATTAT
Statistics
Matches: 36, Mismatches: 6, Indels: 6
0.75 0.12 0.12
Matches are distributed among these distances:
10 1 0.03
11 24 0.67
12 11 0.31
ACGTcount: A:0.46, C:0.00, G:0.04, T:0.51
Consensus pattern (11 bp):
AATTATATATT
Found at i:8534 original size:19 final size:18
Alignment explanation
Indices: 8506--8544 Score: 51
Period size: 18 Copynumber: 2.1 Consensus size: 18
8496 AATATTACTT
* *
8506 AATATTTATATATTTTATA
1 AATATATATA-ATTTAATA
8525 AATATATATAATTTAATA
1 AATATATATAATTTAATA
8543 AA
1 AA
8545 CAATAAATAT
Statistics
Matches: 18, Mismatches: 2, Indels: 1
0.86 0.10 0.05
Matches are distributed among these distances:
18 9 0.50
19 9 0.50
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (18 bp):
AATATATATAATTTAATA
Found at i:8612 original size:13 final size:15
Alignment explanation
Indices: 8581--8623 Score: 52
Period size: 15 Copynumber: 2.8 Consensus size: 15
8571 ATTATAAAAT
8581 ATTTATAATAATTACA
1 ATTTATAATAATTA-A
8597 ATTTATAAT-ATTAA
1 ATTTATAATAATTAA
*
8611 TTATTATAATAAT
1 AT-TTATAATAAT
8624 ATAATAATAG
Statistics
Matches: 24, Mismatches: 1, Indels: 4
0.83 0.03 0.14
Matches are distributed among these distances:
14 2 0.08
15 11 0.46
16 11 0.46
ACGTcount: A:0.49, C:0.02, G:0.00, T:0.49
Consensus pattern (15 bp):
ATTTATAATAATTAA
Found at i:8790 original size:20 final size:20
Alignment explanation
Indices: 8757--8805 Score: 59
Period size: 18 Copynumber: 2.6 Consensus size: 20
8747 ATTATAATAC
*
8757 TAATT-TATAATTTAT-TAA
1 TAATTATATAATTTTTATAA
*
8775 TAA-TATATAATTTTTATAT
1 TAATTATATAATTTTTATAA
8794 TAATTATATAAT
1 TAATTATATAAT
8806 AAATTAATAT
Statistics
Matches: 26, Mismatches: 2, Indels: 4
0.81 0.06 0.12
Matches are distributed among these distances:
17 1 0.04
18 12 0.46
19 5 0.19
20 8 0.31
ACGTcount: A:0.45, C:0.00, G:0.00, T:0.55
Consensus pattern (20 bp):
TAATTATATAATTTTTATAA
Found at i:8800 original size:9 final size:9
Alignment explanation
Indices: 8788--8868 Score: 50
Period size: 9 Copynumber: 9.2 Consensus size: 9
8778 TATATAATTT
8788 TTATATTAA
1 TTATATTAA
8797 TTATATAATAAA
1 TTATAT--T-AA
8809 TTAATATT-A
1 TT-ATATTAA
8818 TTAGTA-TAA
1 TTA-TATTAA
8827 TTATATTAA
1 TTATATTAA
*
8836 TTA-ATTTA
1 TTATATTAA
8844 TTA-A-TAA
1 TTATATTAA
8851 -T-TATTAA
1 TTATATTAA
*
8858 GTATATTAA
1 TTATATTAA
8867 TT
1 TT
8869 GTATAATTCA
Statistics
Matches: 58, Mismatches: 3, Indels: 22
0.70 0.04 0.27
Matches are distributed among these distances:
6 2 0.03
7 5 0.09
8 13 0.22
9 28 0.48
11 2 0.03
12 4 0.07
13 4 0.07
ACGTcount: A:0.46, C:0.00, G:0.02, T:0.52
Consensus pattern (9 bp):
TTATATTAA
Found at i:8806 original size:30 final size:30
Alignment explanation
Indices: 8794--8867 Score: 81
Period size: 27 Copynumber: 2.7 Consensus size: 30
8784 ATTTTTATAT
8794 TAATTATATAATAAATTAATATTATTAGTA
1 TAATTATATAATAAATTAATATTATTAGTA
8824 TAATTATAT--T-AATTAAT-TTATTA--A
1 TAATTATATAATAAATTAATATTATTAGTA
*
8848 TAATTAT-TAAGTATATTAAT
1 TAATTATATAA-TAAATTAAT
8868 TGTATAATTC
Statistics
Matches: 39, Mismatches: 1, Indels: 11
0.76 0.02 0.22
Matches are distributed among these distances:
23 1 0.03
24 8 0.21
26 7 0.18
27 13 0.33
28 1 0.03
30 9 0.23
ACGTcount: A:0.47, C:0.00, G:0.03, T:0.50
Consensus pattern (30 bp):
TAATTATATAATAAATTAATATTATTAGTA
Found at i:9129 original size:40 final size:40
Alignment explanation
Indices: 9085--9175 Score: 103
Period size: 40 Copynumber: 2.3 Consensus size: 40
9075 AATTATACAT
*
9085 ATATTTATTATATATTATGATTAAAAATAGATTAA-AATTA
1 ATATTTATTATA-ATTATGATTAAAAATAGAATAATAATTA
* * ** *
9125 ATATTTATAATAATTATTATTAACTATATAATAATAATTA
1 ATATTTATTATAATTATGATTAAAAATAGAATAATAATTA
*
9165 ATTTTTATTAT
1 ATATTTATTAT
9176 TCATTATTAA
Statistics
Matches: 42, Mismatches: 8, Indels: 2
0.81 0.15 0.04
Matches are distributed among these distances:
39 17 0.40
40 25 0.60
ACGTcount: A:0.47, C:0.01, G:0.02, T:0.49
Consensus pattern (40 bp):
ATATTTATTATAATTATGATTAAAAATAGAATAATAATTA
Found at i:9711 original size:6 final size:6
Alignment explanation
Indices: 9677--9748 Score: 55
Period size: 6 Copynumber: 12.7 Consensus size: 6
9667 TTTTAAAAGG
* * * *
9677 TATAAT TATTAT AATAATT TATAAG TATAAT TATAAT TAT-AT T-CAA-
1 TATAAT TATAAT TATAA-T TATAAT TATAAT TATAAT TATAAT TATAAT
*
9723 TATAAT TATAAT TA-AAG T-TAAT TATA
1 TATAAT TATAAT TATAAT TATAAT TATA
9749 TTAATTTAAG
Statistics
Matches: 50, Mismatches: 10, Indels: 12
0.69 0.14 0.17
Matches are distributed among these distances:
4 1 0.02
5 12 0.24
6 32 0.64
7 5 0.10
ACGTcount: A:0.49, C:0.01, G:0.03, T:0.47
Consensus pattern (6 bp):
TATAAT
Found at i:9728 original size:15 final size:16
Alignment explanation
Indices: 9708--9752 Score: 58
Period size: 15 Copynumber: 2.9 Consensus size: 16
9698 TAAGTATAAT
*
9708 TATAATTATATTCAA-
1 TATAATTATATTAAAG
9723 TATAATTATAATTAAAG
1 TATAATTAT-ATTAAAG
9740 T-TAATTATATTAA
1 TATAATTATATTAA
9753 TTTAAGTTAA
Statistics
Matches: 27, Mismatches: 1, Indels: 4
0.84 0.03 0.12
Matches are distributed among these distances:
15 14 0.52
16 12 0.44
17 1 0.04
ACGTcount: A:0.49, C:0.02, G:0.02, T:0.47
Consensus pattern (16 bp):
TATAATTATATTAAAG
Found at i:10079 original size:15 final size:18
Alignment explanation
Indices: 10043--10087 Score: 60
Period size: 15 Copynumber: 2.6 Consensus size: 18
10033 AGATTAACCG
10043 TATATTATAATAATTAAT
1 TATATTATAATAATTAAT
10061 TATATTAT-AT-ATT-AT
1 TATATTATAATAATTAAT
10076 TATATTAATAAT
1 TATATT-ATAAT
10088 TTAATTTAAT
Statistics
Matches: 25, Mismatches: 0, Indels: 5
0.83 0.00 0.17
Matches are distributed among these distances:
15 8 0.32
16 5 0.20
17 4 0.16
18 8 0.32
ACGTcount: A:0.47, C:0.00, G:0.00, T:0.53
Consensus pattern (18 bp):
TATATTATAATAATTAAT
Found at i:10776 original size:7 final size:7
Alignment explanation
Indices: 10766--10803 Score: 51
Period size: 7 Copynumber: 5.4 Consensus size: 7
10756 AATATATAAA
10766 TAATTAT
1 TAATTAT
10773 TAATTAT
1 TAATTAT
10780 TAA-TAT
1 TAATTAT
10786 ATAATTAT
1 -TAATTAT
*
10794 TAAATAT
1 TAATTAT
10801 TAA
1 TAA
10804 ATAGTAAATA
Statistics
Matches: 28, Mismatches: 1, Indels: 4
0.85 0.03 0.12
Matches are distributed among these distances:
6 3 0.11
7 22 0.79
8 3 0.11
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (7 bp):
TAATTAT
Found at i:10778 original size:40 final size:39
Alignment explanation
Indices: 10731--10806 Score: 118
Period size: 40 Copynumber: 1.9 Consensus size: 39
10721 TTGTAAGATC
*
10731 ATTAATTATTAATATAT-ATTGTTATAATATATAAATAATT
1 ATTAATTATTAATATATAATTATTA-AATAT-TAAATAATT
10771 ATTAATTATTAATATATAATTATTAAATATTAAATA
1 ATTAATTATTAATATATAATTATTAAATATTAAATA
10807 GTAAATAAAT
Statistics
Matches: 34, Mismatches: 1, Indels: 3
0.89 0.03 0.08
Matches are distributed among these distances:
39 6 0.18
40 22 0.65
41 6 0.18
ACGTcount: A:0.50, C:0.00, G:0.01, T:0.49
Consensus pattern (39 bp):
ATTAATTATTAATATATAATTATTAAATATTAAATAATT
Found at i:10791 original size:21 final size:21
Alignment explanation
Indices: 10731--10803 Score: 80
Period size: 21 Copynumber: 3.6 Consensus size: 21
10721 TTGTAAGATC
10731 ATTAATTATTAATATAT-ATT
1 ATTAATTATTAATATATAATT
* * *
10751 GTT-A-TAATATATAAATAATT
1 ATTAATTATTA-ATATATAATT
10771 ATTAATTATTAATATATAATT
1 ATTAATTATTAATATATAATT
*
10792 ATTAAATATTAA
1 ATTAATTATTAA
10804 ATAGTAAATA
Statistics
Matches: 42, Mismatches: 7, Indels: 7
0.75 0.12 0.12
Matches are distributed among these distances:
18 4 0.10
19 6 0.14
20 7 0.17
21 21 0.50
22 4 0.10
ACGTcount: A:0.49, C:0.00, G:0.01, T:0.49
Consensus pattern (21 bp):
ATTAATTATTAATATATAATT
Found at i:11112 original size:13 final size:13
Alignment explanation
Indices: 11094--11139 Score: 51
Period size: 12 Copynumber: 3.6 Consensus size: 13
11084 TATTTATGAT
11094 TATATTATAATAA
1 TATATTATAATAA
*
11107 TATATTA-ATTAA
1 TATATTATAATAA
*
11119 AATA-TATAATAA
1 TATATTATAATAA
11131 CTATATTAT
1 -TATATTAT
11140 TATTAAATAC
Statistics
Matches: 26, Mismatches: 4, Indels: 5
0.74 0.11 0.14
Matches are distributed among these distances:
11 2 0.08
12 11 0.42
13 10 0.38
14 3 0.12
ACGTcount: A:0.52, C:0.02, G:0.00, T:0.46
Consensus pattern (13 bp):
TATATTATAATAA
Found at i:11471 original size:27 final size:27
Alignment explanation
Indices: 11441--11499 Score: 77
Period size: 27 Copynumber: 2.2 Consensus size: 27
11431 AAATTTAATA
*
11441 TTATTAATTAT-TTGGATAAATTAAAGG
1 TTATTAA-TATCTTGAATAAATTAAAGG
*
11468 TTATTAATATCTTTAATAAATTAAAGG
1 TTATTAATATCTTGAATAAATTAAAGG
11495 -TATTA
1 TTATTA
11500 TCTTAATTAA
Statistics
Matches: 29, Mismatches: 2, Indels: 3
0.85 0.06 0.09
Matches are distributed among these distances:
26 8 0.28
27 21 0.72
ACGTcount: A:0.42, C:0.02, G:0.10, T:0.46
Consensus pattern (27 bp):
TTATTAATATCTTGAATAAATTAAAGG
Found at i:12498 original size:13 final size:12
Alignment explanation
Indices: 12459--12510 Score: 61
Period size: 13 Copynumber: 4.2 Consensus size: 12
12449 CACTTTATAA
12459 ATAATAAATATT
1 ATAATAAATATT
**
12471 AGTTTTAAATATT
1 A-TAATAAATATT
12484 ATAATAAATATTT
1 ATAATAAATA-TT
12497 ATAATAAAT-TT
1 ATAATAAATATT
12508 ATA
1 ATA
12511 CAATATGTAA
Statistics
Matches: 34, Mismatches: 4, Indels: 5
0.79 0.09 0.12
Matches are distributed among these distances:
11 5 0.15
12 8 0.24
13 21 0.62
ACGTcount: A:0.52, C:0.00, G:0.02, T:0.46
Consensus pattern (12 bp):
ATAATAAATATT
Found at i:12504 original size:25 final size:24
Alignment explanation
Indices: 12459--12510 Score: 61
Period size: 25 Copynumber: 2.1 Consensus size: 24
12449 CACTTTATAA
**
12459 ATAATAAATATTAGTTTTAAATATT
1 ATAATAAATATTAGTAATAAAT-TT
12484 ATAATAAATATTTA-TAATAAATTT
1 ATAATAAATA-TTAGTAATAAATTT
12508 ATA
1 ATA
12511 CAATATGTAA
Statistics
Matches: 24, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
24 5 0.21
25 16 0.67
26 3 0.12
ACGTcount: A:0.52, C:0.00, G:0.02, T:0.46
Consensus pattern (24 bp):
ATAATAAATATTAGTAATAAATTT
Found at i:12667 original size:14 final size:14
Alignment explanation
Indices: 12648--12684 Score: 58
Period size: 14 Copynumber: 2.7 Consensus size: 14
12638 TCATTATGAC
12648 TTTAATAATATTAA
1 TTTAATAATATTAA
*
12662 TTTAATAATATTTA
1 TTTAATAATATTAA
12676 TTT-ATAATA
1 TTTAATAATA
12685 GACTTGTTCG
Statistics
Matches: 22, Mismatches: 1, Indels: 1
0.92 0.04 0.04
Matches are distributed among these distances:
13 6 0.27
14 16 0.73
ACGTcount: A:0.46, C:0.00, G:0.00, T:0.54
Consensus pattern (14 bp):
TTTAATAATATTAA
Found at i:12810 original size:23 final size:23
Alignment explanation
Indices: 12784--12838 Score: 101
Period size: 23 Copynumber: 2.4 Consensus size: 23
12774 AGGATAAGAA
12784 TGGATATGATTTTAAATTTTTAT
1 TGGATATGATTTTAAATTTTTAT
12807 TGGATATGATTTTAAATTTTTAT
1 TGGATATGATTTTAAATTTTTAT
*
12830 TTGATATGA
1 TGGATATGA
12839 AAATGGAGAT
Statistics
Matches: 31, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
23 31 1.00
ACGTcount: A:0.31, C:0.00, G:0.15, T:0.55
Consensus pattern (23 bp):
TGGATATGATTTTAAATTTTTAT
Found at i:13360 original size:18 final size:19
Alignment explanation
Indices: 13326--13424 Score: 57
Period size: 18 Copynumber: 5.3 Consensus size: 19
13316 TAATAGTCAT
13326 ATATTAGTTAATATTTATA
1 ATATTAGTTAATATTTATA
* *
13345 ATATTA-TTACTATTTATT
1 ATATTAGTTAATATTTATA
* *
13363 ATAATAATTAAT-TTATATA
1 ATATTAGTTAATATT-TATA
* *
13382 GTATCATGTT-ATAATTTAATA
1 ATATTA-GTTAAT-ATTT-ATA
*
13403 A-ATTA-TTAATAATTA-A
1 ATATTAGTTAATATTTATA
13419 ATATTA
1 ATATTA
13425 TTACTAATAT
Statistics
Matches: 60, Mismatches: 12, Indels: 18
0.67 0.13 0.20
Matches are distributed among these distances:
16 2 0.03
17 5 0.08
18 22 0.37
19 20 0.33
20 6 0.10
21 5 0.08
ACGTcount: A:0.44, C:0.02, G:0.03, T:0.51
Consensus pattern (19 bp):
ATATTAGTTAATATTTATA
Found at i:13472 original size:13 final size:13
Alignment explanation
Indices: 13453--13485 Score: 50
Period size: 13 Copynumber: 2.5 Consensus size: 13
13443 TTATATTAAT
13453 TATTATAATATGTA
1 TATTATAAT-TGTA
13467 -ATTATAATTGTA
1 TATTATAATTGTA
13479 TATTATA
1 TATTATA
13486 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:13482 original size:47 final size:44
Alignment explanation
Indices: 13442--13536 Score: 111
Period size: 46 Copynumber: 2.1 Consensus size: 44
13432 TATTTTATGA
*
13442 ATTATAT-TAATTATTATAATATGTAATTATAATTGTATATTATAT
1 ATTATATATAATTATT-TAATATATAATT-TAATTGTATATTATAT
* * *
13487 ATTATATAATAATTATTTATTATATAATTTAATTGGACATATATAT
1 ATTATAT-ATAATTATTTAATATATAATTTAATTGTATAT-TATAT
13533 ATTA
1 ATTA
13537 ATAATTAAAG
Statistics
Matches: 43, Mismatches: 4, Indels: 5
0.83 0.08 0.10
Matches are distributed among these distances:
45 16 0.37
46 19 0.44
47 8 0.19
ACGTcount: A:0.43, C:0.01, G:0.04, T:0.52
Consensus pattern (44 bp):
ATTATATATAATTATTTAATATATAATTTAATTGTATATTATAT
Found at i:13488 original size:25 final size:25
Alignment explanation
Indices: 13453--13512 Score: 68
Period size: 25 Copynumber: 2.4 Consensus size: 25
13443 TTATATTAAT
* *
13453 TATTATAATATGTA-ATTATAATTGTA
1 TATTAT-ATAT-TATATAATAATTATA
*
13479 TATTATATATTATATAATAATTATT
1 TATTATATATTATATAATAATTATA
13504 TATTATATA
1 TATTATATA
13513 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:13507 original size:18 final size:18
Alignment explanation
Indices: 13480--13514 Score: 61
Period size: 18 Copynumber: 1.9 Consensus size: 18
13470 ATAATTGTAT
13480 ATTATATATTATATAATA
1 ATTATATATTATATAATA
*
13498 ATTATTTATTATATAAT
1 ATTATATATTATATAAT
13515 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
Found at i:13948 original size:13 final size:14
Alignment explanation
Indices: 13929--13967 Score: 62
Period size: 13 Copynumber: 2.8 Consensus size: 14
13919 ATATATTAGT
13929 TTTAATATTTAAAA
1 TTTAATATTTAAAA
13943 -TTAATATTTAAAA
1 TTTAATATTTAAAA
13956 TTTAAATATTTA
1 TTT-AATATTTA
13968 TATTATATTT
Statistics
Matches: 23, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
13 13 0.57
14 2 0.09
15 8 0.35
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (14 bp):
TTTAATATTTAAAA
Found at i:13979 original size:20 final size:22
Alignment explanation
Indices: 13956--13996 Score: 59
Period size: 22 Copynumber: 2.0 Consensus size: 22
13946 ATATTTAAAA
13956 TTTAAAT-ATT-TATATTATAT
1 TTTAAATAATTATATATTATAT
*
13976 TTTAATTAATTATATATTATA
1 TTTAAATAATTATATATTATA
13997 ATAAAATTAG
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
20 6 0.33
21 3 0.17
22 9 0.50
ACGTcount: A:0.41, C:0.00, G:0.00, T:0.59
Consensus pattern (22 bp):
TTTAAATAATTATATATTATAT
Found at i:14524 original size:30 final size:31
Alignment explanation
Indices: 14477--14539 Score: 85
Period size: 30 Copynumber: 2.0 Consensus size: 31
14467 TAATAATTTT
14477 AATAAAAATATTATAATTA-TTAAAATTATC
1 AATAAAAATATTATAATTATTTAAAATTATC
*
14507 AATAATAAT-TTATTAATTATTTTAAAATTATC
1 AATAAAAATATTA-TAATTA-TTTAAAATTATC
14539 A
1 A
14540 TTTTAAATTA
Statistics
Matches: 29, Mismatches: 1, Indels: 4
0.85 0.03 0.12
Matches are distributed among these distances:
29 3 0.10
30 14 0.48
32 12 0.41
ACGTcount: A:0.52, C:0.03, G:0.00, T:0.44
Consensus pattern (31 bp):
AATAAAAATATTATAATTATTTAAAATTATC
Found at i:15367 original size:14 final size:14
Alignment explanation
Indices: 15348--15378 Score: 53
Period size: 14 Copynumber: 2.2 Consensus size: 14
15338 TTTAAACTTT
15348 AATAAATTAATTTA
1 AATAAATTAATTTA
*
15362 AATAAATTTATTTA
1 AATAAATTAATTTA
15376 AAT
1 AAT
15379 TTAAAAAAAT
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
14 16 1.00
ACGTcount: A:0.55, C:0.00, G:0.00, T:0.45
Consensus pattern (14 bp):
AATAAATTAATTTA
Found at i:15697 original size:10 final size:9
Alignment explanation
Indices: 15659--15716 Score: 50
Period size: 10 Copynumber: 6.4 Consensus size: 9
15649 TATATTTAAC
15659 TAATATATAT
1 TAATA-ATAT
15669 TAAT--TAT
1 TAATAATAT
15676 TAA-AATAT
1 TAATAATAT
15684 TAATAATAAT
1 TAATAAT-AT
*
15694 TAATACTAAT
1 TAATAAT-AT
*
15704 TTATAATAT
1 TAATAATAT
15713 TAAT
1 TAAT
15717 TGAATTATAA
Statistics
Matches: 40, Mismatches: 4, Indels: 9
0.75 0.08 0.17
Matches are distributed among these distances:
7 6 0.15
8 6 0.15
9 8 0.20
10 20 0.50
ACGTcount: A:0.52, C:0.02, G:0.00, T:0.47
Consensus pattern (9 bp):
TAATAATAT
Found at i:15732 original size:24 final size:23
Alignment explanation
Indices: 15684--15736 Score: 72
Period size: 24 Copynumber: 2.3 Consensus size: 23
15674 ATTAAAATAT
*
15684 TAATAATAATTAATACTAATTTA
1 TAATATTAATTAATACTAATTTA
15707 TAATATTAATTGAATTA-TAATTTA
1 TAATATTAATT-AA-TACTAATTTA
15731 TAATAT
1 TAATAT
15737 AATAATGTGA
Statistics
Matches: 27, Mismatches: 1, Indels: 3
0.87 0.03 0.10
Matches are distributed among these distances:
23 10 0.37
24 15 0.56
25 2 0.07
ACGTcount: A:0.49, C:0.02, G:0.02, T:0.47
Consensus pattern (23 bp):
TAATATTAATTAATACTAATTTA
Found at i:16146 original size:15 final size:15
Alignment explanation
Indices: 16126--16191 Score: 73
Period size: 15 Copynumber: 4.3 Consensus size: 15
16116 CTTTATTAAC
16126 AATATATAAATAATT
1 AATATATAAATAATT
*
16141 AATATAGTAAATATTAT
1 AATATA-TAAATAAT-T
*
16158 AATAT-TATATAATT
1 AATATATAAATAATT
16172 -ATAATATAAATAATT
1 AAT-ATATAAATAATT
16187 AATAT
1 AATAT
16192 TATTATTAAT
Statistics
Matches: 42, Mismatches: 4, Indels: 10
0.75 0.07 0.18
Matches are distributed among these distances:
13 2 0.05
14 3 0.07
15 22 0.52
16 9 0.21
17 6 0.14
ACGTcount: A:0.56, C:0.00, G:0.02, T:0.42
Consensus pattern (15 bp):
AATATATAAATAATT
Found at i:16179 original size:21 final size:24
Alignment explanation
Indices: 16129--16206 Score: 72
Period size: 24 Copynumber: 3.3 Consensus size: 24
16119 TATTAACAAT
* * *
16129 ATATAAATAATTAATATAGTAAATA
1 ATAT-AATAATTAATATAATTATTA
*
16154 TTATAAT-ATT-ATATAATTA-TA
1 ATATAATAATTAATATAATTATTA
*
16175 ATATAAATAATTAATATTATTATTA
1 ATAT-AATAATTAATATAATTATTA
16200 ATATAAT
1 ATATAAT
16207 TGTTATACAA
Statistics
Matches: 44, Mismatches: 5, Indels: 9
0.76 0.09 0.16
Matches are distributed among these distances:
21 5 0.11
22 10 0.23
23 6 0.14
24 14 0.32
25 9 0.20
ACGTcount: A:0.54, C:0.00, G:0.01, T:0.45
Consensus pattern (24 bp):
ATATAATAATTAATATAATTATTA
Found at i:16201 original size:25 final size:24
Alignment explanation
Indices: 16046--16205 Score: 91
Period size: 23 Copynumber: 6.5 Consensus size: 24
16036 AAGATTTTAA
*
16046 ATTATAATA-AATATGATTAATATT
1 ATTATAATATAA-ATAATTAATATT
* * *
16070 ATTAT-ATAAAAATAAATATTATT
1 ATTATAATATAAATAATTAATATT
* *
16093 AGTATAAATTTAACATAA-TAATACTTT
1 ATTAT-AATATAA-ATAATTAATA--TT
*
16120 ATTAACAATATATAAATAATTAATA-T
1 ATT-A-TA-ATATAAATAATTAATATT
* *
16146 AGTA-AATATTATAAT-ATT-ATATA
1 ATTATAATA-TA-AATAATTAATATT
16169 ATTATAATATAAATAATTAATATT
1 ATTATAATATAAATAATTAATATT
16193 ATTATTAATATAA
1 ATTA-TAATATAA
16206 TTGTTATACA
Statistics
Matches: 105, Mismatches: 14, Indels: 33
0.69 0.09 0.22
Matches are distributed among these distances:
22 9 0.09
23 30 0.29
24 22 0.21
25 17 0.16
26 7 0.07
27 4 0.04
28 6 0.06
29 10 0.10
ACGTcount: A:0.53, C:0.02, G:0.02, T:0.43
Consensus pattern (24 bp):
ATTATAATATAAATAATTAATATT
Found at i:16321 original size:25 final size:25
Alignment explanation
Indices: 16293--16347 Score: 76
Period size: 25 Copynumber: 2.2 Consensus size: 25
16283 ATTTGACATG
*
16293 TATATTAT-ATTATATTTAAATATAA
1 TATATTATAATTATAATTAAA-ATAA
*
16318 TATATTTTAATTATAATTAAAATAA
1 TATATTATAATTATAATTAAAATAA
16343 TATAT
1 TATAT
16348 ATTATTACTA
Statistics
Matches: 27, Mismatches: 2, Indels: 2
0.87 0.06 0.06
Matches are distributed among these distances:
25 16 0.59
26 11 0.41
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (25 bp):
TATATTATAATTATAATTAAAATAA
Found at i:16332 original size:16 final size:15
Alignment explanation
Indices: 16296--16334 Score: 51
Period size: 16 Copynumber: 2.5 Consensus size: 15
16286 TGACATGTAT
*
16296 ATTATATTATATTTA
1 ATTATAATATATTTA
*
16311 AATATAATATATTTTA
1 ATTATAATATA-TTTA
16327 ATTATAAT
1 ATTATAAT
16335 TAAAATAATA
Statistics
Matches: 20, Mismatches: 3, Indels: 1
0.83 0.12 0.04
Matches are distributed among these distances:
15 9 0.45
16 11 0.55
ACGTcount: A:0.46, C:0.00, G:0.00, T:0.54
Consensus pattern (15 bp):
ATTATAATATATTTA
Found at i:16348 original size:27 final size:25
Alignment explanation
Indices: 16293--16352 Score: 68
Period size: 27 Copynumber: 2.3 Consensus size: 25
16283 ATTTGACATG
*
16293 TATATTATATTATATTTAAATATAA
1 TATATTATATTATATTAAAATATAA
*
16318 TATATTTTAATTATAATTAAAATA-ATA
1 TATATTAT-ATTAT-ATTAAAATATA-A
16345 TATATTAT
1 TATATTAT
16353 TACTATAATT
Statistics
Matches: 29, Mismatches: 3, Indels: 4
0.81 0.08 0.11
Matches are distributed among these distances:
25 7 0.24
26 6 0.21
27 16 0.55
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (25 bp):
TATATTATATTATATTAAAATATAA
Found at i:16359 original size:27 final size:28
Alignment explanation
Indices: 16293--16362 Score: 85
Period size: 26 Copynumber: 2.6 Consensus size: 28
16283 ATTTGACATG
*
16293 TATATTA-TATTATATTTAAATATAATA
1 TATATTATTATTATAATTAAATATAATA
*
16320 TAT-TT-TAATTATAATTAAA-ATAATA
1 TATATTATTATTATAATTAAATATAATA
*
16345 TATATTATTACTATAATT
1 TATATTATTATTATAATT
16363 TTTTAATTCT
Statistics
Matches: 36, Mismatches: 4, Indels: 6
0.78 0.09 0.13
Matches are distributed among these distances:
25 9 0.25
26 15 0.42
27 12 0.33
ACGTcount: A:0.47, C:0.01, G:0.00, T:0.51
Consensus pattern (28 bp):
TATATTATTATTATAATTAAATATAATA
Found at i:16477 original size:19 final size:19
Alignment explanation
Indices: 16455--16521 Score: 66
Period size: 19 Copynumber: 3.6 Consensus size: 19
16445 ATATAATATG
* *
16455 TTATTAATTGTATTATTAA
1 TTATTAATTATATTATAAA
16474 TTA-TAATTATATTTATAAA
1 TTATTAATTATA-TTATAAA
* *
16493 CTATTAATTATATTATCAA
1 TTATTAATTATATTATAAA
*
16512 TAATT-ATTAT
1 TTATTAATTAT
16522 TAATACTATA
Statistics
Matches: 40, Mismatches: 6, Indels: 5
0.78 0.12 0.10
Matches are distributed among these distances:
18 12 0.30
19 20 0.50
20 8 0.20
ACGTcount: A:0.42, C:0.03, G:0.01, T:0.54
Consensus pattern (19 bp):
TTATTAATTATATTATAAA
Found at i:16763 original size:12 final size:12
Alignment explanation
Indices: 16746--16770 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
16736 TTATTATAGC
16746 TTATTTAAATTA
1 TTATTTAAATTA
16758 TTATTTAAATTA
1 TTATTTAAATTA
16770 T
1 T
16771 ATTATAATAT
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 13 1.00
ACGTcount: A:0.40, C:0.00, G:0.00, T:0.60
Consensus pattern (12 bp):
TTATTTAAATTA
Found at i:18707 original size:181 final size:177
Alignment explanation
Indices: 18148--18710 Score: 549
Period size: 181 Copynumber: 3.1 Consensus size: 177
18138 TTTACACCCC
* ** * *
18148 TAGTCATAATTATTTGAACTGGTTAGGTAAATAAAATTATTTTTTAATTCTCTTACTTATTAATT
1 TAGTCATAACTATTTGAACTGGTTTCGTAAAT-AATTTATTTTTTAAATCTCTTACTTATTAATT
* * * *
18213 TTTGAAATTTTAATAAATTTA-TTTTATTTTATTCTAAATAAGCTAGTATGAATTGAAAATATTT
65 TTTGAAATATTAATAAA-TTAGTTTTATTTTATTTTAAATAAGCTTGTATGAA-T-AAAAAATTT
* * ** *
18277 TTTGATGACAAAACAAAATGTTATAATGATTTGAAATAGATAATTATTCATA
127 TTT-ATGACCAAACAAAAGGTTATAACAATTTGAAATAGATAATTATTCAAA
** * * *
18329 TAGTTTTAACTATTTGAACTAG-TTCGATAAACAATTTTATTTTTTAAATCTCTTAGTTATTAA-
1 TAGTCATAACTATTTGAACTGGTTTCG-TAAATAA-TTTATTTTTTAAATCTCTTACTTATTAAT
* * * * *
18392 TTTTCAGAATATTATTAGATTAGTTTTATTTTATTTCAAATAAGCTTTTATGAATAGAAATAATT
64 TTTTGA-AATATTAATAAATTAGTTTTATTTTATTTTAAATAAGCTTGTATGAATA-AAA-AATT
* * * ** *
18457 ATTTTATGA-CACAACAAAAGGTTATAACAATTTGAAGTATACAATTGCTCTAA
126 -TTTTATGACCA-AACAAAAGGTTATAACAATTTGAAATAGATAATTATTCAAA
* *
18510 TAGTCATAACTATTTGAATTGGTTTTGTAAATAGATTTATTTTTTAAATCTCTTACTTATTAATT
1 TAGTCATAACTATTTGAACTGGTTTCGTAAATA-ATTTATTTTTTAAATCTCTTACTTATTAATT
* * * *
18575 TTTGAAAGATTAATAAATTAGTATTATTTTATTTTGAATAAGCTTGTATGATATAAAACAATTGC
65 TTTGAAATATTAATAAATTAGTTTTATTTTATTTTAAATAAGCTTGTATGA-ATAAAA-AATT-T
** * * * *
18640 CATATTACCAAACAAAAGGTAAGAACAATTTGAAATAGATAATTATTGAAA
127 TTTATGACCAAACAAAAGGTTATAACAATTTGAAATAGATAATTATTCAAA
* * *
18691 TGGCCATAATTATTTGAACT
1 TAGTCATAACTATTTGAACT
18711 AATTTGATCA
Statistics
Matches: 305, Mismatches: 64, Indels: 26
0.77 0.16 0.07
Matches are distributed among these distances:
179 1 0.00
180 17 0.06
181 269 0.88
182 18 0.06
ACGTcount: A:0.39, C:0.07, G:0.10, T:0.44
Consensus pattern (177 bp):
TAGTCATAACTATTTGAACTGGTTTCGTAAATAATTTATTTTTTAAATCTCTTACTTATTAATTT
TTGAAATATTAATAAATTAGTTTTATTTTATTTTAAATAAGCTTGTATGAATAAAAAATTTTTTA
TGACCAAACAAAAGGTTATAACAATTTGAAATAGATAATTATTCAAA
Found at i:18933 original size:225 final size:224
Alignment explanation
Indices: 18520--18939 Score: 504
Period size: 225 Copynumber: 1.9 Consensus size: 224
18510 TAGTCATAAC
** * * * * **
18520 TATTTGAATTGGTTTTGTAAATAGATTTATTTTTTAAATCTCTTACTTATTAATTTTTGAAAGAT
1 TATTTGAATTGGTTCGGTAAACAGATTTATTTTTTAAATCTATTACATATTAAATTTCCAAAGAT
* * *
18585 TAATAAATTAGTATTATTTTATTTTGAATAAGCTTGTATGATATAAAACAATTGCCATATTACCA
66 TAATAAATTAGTATTAATTTATTCTGAATAAGCTTGTATGATATAAAACAATTGCCATATGACCA
* * * ** **
18650 AACAAAAGGTAAGAACAATTTGAAATAGATAATTATTGAAATGGCCATAATTATTTGAACTAATT
131 AACAAAAGATAAGAACAATATGAAATAGATAATTATTCAAATAACCATAACAATTTGAACTAATT
18715 TGATCAACATATTCACTTTTTAAATCACT
196 TGATCAACATATTCACTTTTTAAATCACT
* *
18744 TATTTGAATTTGTTCGGTAAACAGATTTATTTTTTTAAATCTATTTCATATTAAATTTCCAAATG
1 TATTTGAATTGGTTCGGTAAACAGATTTA-TTTTTTAAATCTATTACATATTAAATTTCCAAA-G
* ***
18809 -TTAATAAATTAGTATTAATTTATTCTGAATAAGCTTGTATGA-ACTGAAACAATTGTTTTATGA
64 ATTAATAAATTAGTATTAATTTATTCTGAATAAGCTTGTATGATA-TAAAACAATTGCCATATGA
* ** * ***
18872 CTAAACAAAAGATCAA-AATGATATGAAATAGATAATTATTCTAATAATTTTAACAATTTGAACT
128 CCAAACAAAAGAT-AAGAACAATATGAAATAGATAATTATTCAAATAACCATAACAATTTGAACT
18936 AATT
192 AATT
18940 CAGTAATCAA
Statistics
Matches: 161, Mismatches: 31, Indels: 7
0.81 0.16 0.04
Matches are distributed among these distances:
224 26 0.16
225 132 0.82
226 3 0.02
ACGTcount: A:0.40, C:0.09, G:0.10, T:0.42
Consensus pattern (224 bp):
TATTTGAATTGGTTCGGTAAACAGATTTATTTTTTAAATCTATTACATATTAAATTTCCAAAGAT
TAATAAATTAGTATTAATTTATTCTGAATAAGCTTGTATGATATAAAACAATTGCCATATGACCA
AACAAAAGATAAGAACAATATGAAATAGATAATTATTCAAATAACCATAACAATTTGAACTAATT
TGATCAACATATTCACTTTTTAAATCACT
Found at i:19081 original size:176 final size:179
Alignment explanation
Indices: 18792--19268 Score: 509
Period size: 176 Copynumber: 2.7 Consensus size: 179
18782 ATCTATTTCA
* * * * * * *
18792 TATTAAATTTCCAAATGTTAATAAATTAGTATTAATTTATTCTGAATAAGCTTGTATGAACTGAA
1 TATTAAGTTTCAAAATATTATTAAATTAGTATTATTTTATTCTAAATAAGCTTGTATGAAC-AAA
* * *
18857 ACAATTGTTTTATGACT-AAACAAAAGATCAAAATGATATGAAATAGATAATTATTCTA-ATAA-
65 ACAATTGTTTTATGA-TAAAACAAAAGGTCATAATGATTTGAAATAGATAATTATT-TATA-AAG
* *
18919 TTTTAACAATTTGAACTAATTC-AGTAATCAAATTTATTTTTTAA-ATC-T-CT
127 TCTTAACAATTTGAACTAATTCGA-CAATCAAATTTATTTTTTAATATCTTGCT
* * * * *
18969 TATTAATTTTTAAAATATTATTAAATTAGTATTATTTTAATCCAAATAAGCTTGTACGAACAAAA
1 TATTAAGTTTCAAAATATTATTAAATTAGTATTATTTTATTCTAAATAAGCTTGTATGAACAAAA
* * * ** *
19034 CAATTGTTTTACGTTAAAAGAAAAGGTCATAACAATTTGAAATAGATAATCATTTATAAAGTCTT
66 CAATTGTTTTATGATAAAACAAAAGGTCATAATGATTTGAAATAGATAATTATTTATAAAGTCTT
* * * * * *
19099 AACTATTTGAACTAGTTCGACAATTAGATTTATTTTTTAATTTTCTTGGT
131 AACAATTTGAACTAATTCGACAATCAAATTTATTTTTTAA-TATCTTGCT
** *
19149 TATTAAGTTTCAAAATATTATTAAATTAGTATTATTTTATTCTAAATAAAATAGTATGAACAGAA
1 TATTAAGTTTCAAAATATTATTAAATTAGTATTATTTTATTCTAAATAAGCTTGTATGAACA-AA
* * * * *
19214 CCAATTGTTTGATGATAAAATAAAAGGTTATAATGATTTGAAATAAATAATTATT
65 ACAATTGTTTTATGATAAAACAAAAGGTCATAATGATTTGAAATAGATAATTATT
19269 GAAATGTTCA
Statistics
Matches: 245, Mismatches: 46, Indels: 14
0.80 0.15 0.05
Matches are distributed among these distances:
175 5 0.02
176 83 0.34
177 52 0.21
178 2 0.01
179 1 0.00
180 55 0.22
181 47 0.19
ACGTcount: A:0.42, C:0.08, G:0.09, T:0.41
Consensus pattern (179 bp):
TATTAAGTTTCAAAATATTATTAAATTAGTATTATTTTATTCTAAATAAGCTTGTATGAACAAAA
CAATTGTTTTATGATAAAACAAAAGGTCATAATGATTTGAAATAGATAATTATTTATAAAGTCTT
AACAATTTGAACTAATTCGACAATCAAATTTATTTTTTAATATCTTGCT
Found at i:19318 original size:582 final size:584
Alignment explanation
Indices: 18217--19327 Score: 1253
Period size: 582 Copynumber: 1.9 Consensus size: 584
18207 TTAATTTTTG
* * * *
18217 AAATTTTAATAAATTTATTTTATTTTATTCTAAATAAGCTAGTATGAATTGAAAATATTTTTTGA
1 AAATGTTAATAAATTTATATTAATTTATTCTAAATAAGCTAGTATGAACTGAAAATATTTTTTGA
* * * * *
18282 TGACAAAACAAAATGTTATAATGATTTGAAATAGATAATTATTCATATAGTTTTAACTATTTGAA
66 TGACAAAACAAAATGTCAAAATGATATGAAATAGATAATTATTCATATAATTTTAACAATTTGAA
* * * *
18347 CTAGTTCGATAAACAATTTTATTTTTTAAATCTCTTAGTTATTAATTTTCAGAATATTATTAGAT
131 CTAATTCGATAAACAAATTTATTTTTTAAATCTC-T--TTATTAATTTTCAAAATATTATTAAAT
* * * * * * * * *
18412 TAGTTTTATTTTATTTCAAATAAGCTTTTATGAATAGAAATAATTATTTTATGACACAACAAAAG
193 TAGTATTATTTTAATCCAAATAAGCTTGTACGAACAGAAACAATTATTTTACGACAAAACAAAAG
* * * * * * *
18477 GTTATAACAATTTGAAGTATACAATTGCTCTAATAGTCATAACTATTTGAATTGGTTTTGTAAAT
258 GTCATAACAATTTGAAATAGACAATTGCTCTAAAAGTCATAACTATTTGAACTAGTTTCGTAAAT
* **
18542 AGATTTATTTTTTAAATCTCTTACTTATTAATTTTTGAAAGATTAATAAATTAGTATTATTTTAT
323 AGATTTATTTTTTAAATCTCTTACTTATTAAGTTTCAAAAGATTAATAAATTAGTATTATTTTAT
* * ** * * * *
18607 TTTGAATAAGCTTGTATGATATAAAACAATTGCCATATTACCAAACAAAAGGTAAGAACAATTTG
388 TCTAAATAAAATAGTATGATACAAAACAATTGCCATATGACAAAACAAAAGGTAAGAACAATTTG
* * * * *
18672 AAATAGATAATTATTGAAATGGCCATAATTATTTGAACTAATTTGATCAACATATTCACTTTTTA
453 AAATAAATAATTATTGAAATGGCCAAAACTATTTGAAATAATTTGATCAACAGATTCACTTTTTA
18737 AATCACTTATTTGAATTTGTTCGGTAAACAGATTTATTTTTTTAAATCTATTTCATATTAAATTT
518 AATCACTTATTTGAATTTGTTCGGTAAACAGATTTATTTTTTTAAATCTATTTCATATTAAATTT
18802 CC
583 CC
* *
18804 AAATGTTAATAAA-TTAGTATTAATTTATTCTGAATAAGCTTGTATGAACTGAAACA-ATTGTTT
1 AAATGTTAATAAATTTA-TATTAATTTATTCTAAATAAGCTAGTATGAACTGAAA-ATATT-TTT
*
18867 T-ATGACTAAACAAAA-GATCAAAATGATATGAAATAGATAATTATTC-TAATAATTTTAACAAT
63 TGATGACAAAACAAAATG-TCAAAATGATATGAAATAGATAATTATTCAT-ATAATTTTAACAAT
* *
18929 TTGAACTAATTC-AGTAATCAAATTTATTTTTTAAATCTC-TTATTAATTTTTAAAATATTATTA
126 TTGAACTAATTCGA-TAAACAAATTTATTTTTTAAATCTCTTTATTAATTTTCAAAATATTATTA
* ** *
18992 AATTAGTATTATTTTAATCCAAATAAGCTTGTACGAACA-AAACAATTGTTTTACGTTAAAAGAA
190 AATTAGTATTATTTTAATCCAAATAAGCTTGTACGAACAGAAACAATTATTTTACGACAAAACAA
* * *
19056 AAGGTCATAACAATTTGAAATAGATAA-T-CATTTATAAAGTCTTAACTATTTGAACTAG-TTCG
255 AAGGTCATAACAATTTGAAATAGACAATTGC-TCTA-AAAGTCATAACTATTTGAACTAGTTTCG
* * ** * *
19118 -ACAATTAGATTTATTTTTTAATTTTCTTGGTTATTAAGTTTCAAAATATTATTAAATTAGTATT
318 TA-AA-TAGATTTATTTTTTAAATCTCTTACTTATTAAGTTTCAAAAGATTAATAAATTAGTATT
* ** * * * *
19182 ATTTTATTCTAAATAAAATAGTATGA-ACAGAACCAATTG-TTTGATGATAAAATAAAAGGTTAT
381 ATTTTATTCTAAATAAAATAGTATGATACA-AAACAATTGCCAT-ATGACAAAACAAAAGGTAAG
** ** ** *
19245 AATGATTTGAAATAAATAATTATTGAAATGTTCAAAACTATTTGAAATGGTTTGGT-AAGCAGAT
444 AACAATTTGAAATAAATAATTATTGAAATGGCCAAAACTATTTGAAATAATTTGATCAA-CAGAT
** *
19309 TTTCTTTTTAAATCTCTTA
508 TCACTTTTTAAATCACTTA
19328 CAGATTTATT
Statistics
Matches: 431, Mismatches: 80, Indels: 31
0.80 0.15 0.06
Matches are distributed among these distances:
580 2 0.00
581 14 0.03
582 218 0.51
583 54 0.13
586 6 0.01
587 132 0.31
588 5 0.01
ACGTcount: A:0.40, C:0.08, G:0.10, T:0.42
Consensus pattern (584 bp):
AAATGTTAATAAATTTATATTAATTTATTCTAAATAAGCTAGTATGAACTGAAAATATTTTTTGA
TGACAAAACAAAATGTCAAAATGATATGAAATAGATAATTATTCATATAATTTTAACAATTTGAA
CTAATTCGATAAACAAATTTATTTTTTAAATCTCTTTATTAATTTTCAAAATATTATTAAATTAG
TATTATTTTAATCCAAATAAGCTTGTACGAACAGAAACAATTATTTTACGACAAAACAAAAGGTC
ATAACAATTTGAAATAGACAATTGCTCTAAAAGTCATAACTATTTGAACTAGTTTCGTAAATAGA
TTTATTTTTTAAATCTCTTACTTATTAAGTTTCAAAAGATTAATAAATTAGTATTATTTTATTCT
AAATAAAATAGTATGATACAAAACAATTGCCATATGACAAAACAAAAGGTAAGAACAATTTGAAA
TAAATAATTATTGAAATGGCCAAAACTATTTGAAATAATTTGATCAACAGATTCACTTTTTAAAT
CACTTATTTGAATTTGTTCGGTAAACAGATTTATTTTTTTAAATCTATTTCATATTAAATTTCC
Found at i:19348 original size:181 final size:180
Alignment explanation
Indices: 18744--19454 Score: 598
Period size: 181 Copynumber: 4.0 Consensus size: 180
18734 TTAAATCACT
* * * * * * *
18744 TATTTGAATTTGTTCGGTAAACAGATTTATTTTTTTAAATCTATTTCATATTAAATTTCCAAATG
1 TATTTGAACTAGTTCGGTAATCAGATTTA-TTTTTTAAATCT-CTTCATATTAATTTTCTAAATA
* * * * *
18809 TTAATAAATTAGTATTAATTTATTCTGAATAAGCTTGTATGAACTGAAACAATTGTTTTATGACT
64 TTAATAAATTAGTATTATTTTATTCTAAATAAACTAGTATGAACAGAAACAATTGTTTTATGA-T
* * * * *
18874 -AAACAAAAGATCAAAATGATATGAAATAGATAATTATTCTAATAATT-TTAAC
128 AAAACAAAAGGTCATAATGATTTGAAATAGATAATTATTCAAAT-GTTCTTAAC
* * * *
18926 AATTTGAACTAATTCAGTAATCAAATTTATTTTTTAAATCTC-T--TATTAATTTT-TAAAATAT
1 TATTTGAACTAGTTCGGTAATCAGATTTATTTTTTAAATCTCTTCATATTAATTTTCT-AAATAT
* * * * * * * *
18987 TATTAAATTAGTATTATTTTAATCCAAATAAGCTTGTACGAACA-AAACAATTGTTTTACGTTAA
65 TAATAAATTAGTATTATTTTATTCTAAATAAACTAGTATGAACAGAAACAATTGTTTTATGATAA
* ** * * *
19051 AAGAAAAGGTCATAACAATTTGAAATAGATAATCATTTATAAAG-TCTTAAC
130 AACAAAAGGTCATAATGATTTGAAATAGATAATTATTCA-AATGTTCTTAAC
** * * * ** * *
19102 TATTTGAACTAGTTCGACAATTAGATTTATTTTTTAATTTTCTTGGTTATTAAGTTTCAAAATAT
1 TATTTGAACTAGTTCGGTAATCAGATTTATTTTTTAAATCTCTT-CATATTAATTTTCTAAATAT
* * * *
19167 TATTAAATTAGTATTATTTTATTCTAAATAAAATAGTATGAACAGAACCAATTGTTTGATGATAA
65 TAATAAATTAGTATTATTTTATTCTAAATAAACTAGTATGAACAGAAACAATTGTTTTATGATAA
* * * * **
19232 AATAAAAGGTTATAATGATTTGAAATAAATAATTATTGAAATGTTCAAAAC
130 AACAAAAGGTCATAATGATTTGAAATAGATAATTATTCAAATGTTCTTAAC
* * * * * *
19283 TATTTGAAATGGTTTGGTAAGCAGATTT-TCTTTTTAAATCTCTTACAGATTTATTTTCTAAATA
1 TATTTGAACTAGTTCGGTAATCAGATTTAT-TTTTTAAATCTCTT-CATATTAATTTTCTAAATA
** * * * * *
19347 TTAATAAAACAATATTATTTTATT-TCAAACAAACTTA-CATTAACAAAAACAATTGTTTTATGA
64 TTAATAAATTAGTATTATTTTATTCT-AAATAAAC-TAGTATGAACAGAAACAATTGTTTTATGA
* * * * *
19410 CAAAACAAAAAGTAATAATGATTTAAAATAGATAATTGTTCAAAT
127 TAAAACAAAAGGTCATAATGATTTGAAATAGATAATTATTCAAAT
19455 AGTTATAATT
Statistics
Matches: 418, Mismatches: 97, Indels: 29
0.77 0.18 0.05
Matches are distributed among these distances:
175 2 0.00
176 84 0.20
177 54 0.13
179 1 0.00
180 58 0.14
181 195 0.47
182 24 0.06
ACGTcount: A:0.42, C:0.08, G:0.09, T:0.41
Consensus pattern (180 bp):
TATTTGAACTAGTTCGGTAATCAGATTTATTTTTTAAATCTCTTCATATTAATTTTCTAAATATT
AATAAATTAGTATTATTTTATTCTAAATAAACTAGTATGAACAGAAACAATTGTTTTATGATAAA
ACAAAAGGTCATAATGATTTGAAATAGATAATTATTCAAATGTTCTTAAC
Found at i:20045 original size:11 final size:10
Alignment explanation
Indices: 20011--20060 Score: 50
Period size: 11 Copynumber: 4.9 Consensus size: 10
20001 TTTATTAATA
20011 ATAATTA-AT
1 ATAATTATAT
*
20020 ATTAATTGTATT
1 A-TAATTATA-T
20032 ATAATTATTAT
1 ATAATTA-TAT
20043 ATAATTA-AT
1 ATAATTATAT
20052 ATAATTATA
1 ATAATTATA
20061 ATTGTATAGT
Statistics
Matches: 34, Mismatches: 2, Indels: 9
0.76 0.04 0.20
Matches are distributed among these distances:
9 10 0.29
10 6 0.18
11 14 0.41
12 4 0.12
ACGTcount: A:0.48, C:0.00, G:0.02, T:0.50
Consensus pattern (10 bp):
ATAATTATAT
Found at i:20537 original size:181 final size:180
Alignment explanation
Indices: 20233--21641 Score: 1215
Period size: 181 Copynumber: 7.8 Consensus size: 180
20223 GTAAACAGAT
* * * * *
20233 AATCTCCTACTTATTAATTTTTAAAATATTAATAAATTAGTGTTATTTTATTCT-AATTAGGCTT
1 AATCTCTTACTTATTAATTTTTGAAATATTAATAAATTAGTATTATTTTATTTTGAA-TAAGCTT
* * * *
20297 GTATG--ATGAAAAACAATTGTTTTATGACAAAACAAAAGTTTAAAATGATTTGAAATAGATAAT
65 TTATGAAATG--AAACAATTGTTTTATGACAAAACAAAAGGTCATAATGATTTGAAATAGATAAT
* * * * *
20360 TGTTCAAATGGCCATAACTATTTGAACTGACTCAATAAAATGATTTATGTTTTA
128 TATTCAAATAGTCATAACTATTTGAACTG-TTCAATAAAATGATTTATTTTTTA
** * * * * * *
20414 AATCTCCAACTTCTTAATTTTTGAAATATTAATAAAGTAATATTATTTTTTTTTGGATAATCTTT
1 AATCTCTTACTTATTAATTTTTGAAATATTAATAAATTAGTATTATTTTATTTTGAATAAGCTTT
* * *
20479 TATGAAATGAAACAATTATTTTATGACTAAACAAAAGGTCATAATGATTTAAAATAGATAATTAT
66 TATGAAATGAAACAATTGTTTTATGACAAAACAAAAGGTCATAATGATTTGAAATAGATAATTAT
* * *
20544 T-ATAATAGTCTTAACTATTTGAACTAGTTCAA-CAAATACATTTATTTTTTA
131 TCA-AATAGTCATAACTATTTGAACT-GTTCAATAAAAT-GATTTATTTTTTA
* * * ** * * *
20595 AATTTCTTACTTATT-ATTTTTTAGAATATTATTAGTTTAGTAATATTTTACTCTGAATAAG-TT
1 AATCTCTTACTTATTAATTTTTGA-AATATTAATAAATTAGTATTATTTTATTTTGAATAAGCTT
* * * *
20658 TCTATG-GATAGAAACAATTGTTTTATGACAAAAC-AAAGATCATACTGATTTGAGATAGATAAT
65 T-TATGAAAT-GAAACAATTGTTTTATGACAAAACAAAAGGTCATAATGATTTGAAATAGATAAT
* * * * *
20721 TATTCAAATAGTCATAACTATTTGAATTGGTCTGATAAACA-GATATAGTTTTTA
128 TATTCAAATAGTCATAACTATTTGAACTGTTC-AATAAA-ATGATTTATTTTTTA
* ** *
20775 AA--TC-T-CTTATTGATTTTCAAAATATTAATAAATTAGTATTATTTTATTTTGAATAA-TTTT
1 AATCTCTTACTTATTAATTTTTGAAATATTAATAAATTAGTATTATTTTATTTTGAATAAGCTTT
* * * * * *
20835 GTATG-AATAGAAACAATTATTTTATTACAAAAC-AATGGATCATAATAATTTGAAATAAATTAT
66 -TATGAAAT-GAAACAATTGTTTTATGACAAAACAAAAGG-TCATAATGATTTGAAATAGATAAT
* * ** *
20898 TATTTAAATAGTCATAATTATTTGAACTCACTCAATAAACA-AATTTATTTTTTA
128 TATTCAAATAGTCATAACTATTTGAACT-GTTCAATAAA-ATGATTTATTTTTTA
* * * * * *
20952 AATATTTTACTTATTAGTTTTTGAAATTTTAATAAATTGGTATTATTTTATTTCGAATAAGCTTT
1 AATCTCTTACTTATTAATTTTTGAAATATTAATAAATTAGTATTATTTTATTTTGAATAAGCTTT
* * *
21017 TATG-AATAGAAACAATTGGTTTATGACAAAACAAAAGGTCATATTGATTTGAAATAGATAATTG
66 TATGAAAT-GAAACAATTGTTTTATGACAAAACAAAAGGTCATAATGATTTGAAATAGATAATTA
* * *
21081 TTCAAATAGTCATAATTATTTCGAACATGTTCAA-AAAA-AATTTTATTTTATA
130 TTCAAATAGTCATAACTATTT-GAAC-TGTTCAATAAAATGA-TTTATTTTTTA
* * * * *
21133 TAT-TTTTACTTATTAATCTTTGGAATATTAGTAAATTTA-TATTATTTTA-TTTGAAATAAGCT
1 AATCTCTTACTTATTAATTTTTGAAATATTAATAAA-TTAGTATTATTTTATTTTG-AATAAGCT
** * * **
21195 TGCATGAAGA-GAAACAATTGTTTTATGGCAAAACAATAGGTCATAACAATTTGAAATAGATAAT
64 TTTATGAA-ATGAAACAATTGTTTTATGACAAAACAAAAGGTCATAATGATTTGAAATAGATAAT
* * *** *
21259 TGTTCAAGTAGTCATAACTATTTGAACTTGTTTGGT-AAATAGATTCATTTTTTA
128 TATTCAAATAGTCATAACTATTTGAAC-TGTTCAATAAAAT-GATTTATTTTTTA
* * * * * * *
21313 AATCTCTTACTCATTAATTTTTGGAATAGTT-A-AAGTTAGTGTTATTCTATTTCGAATAAGCCT
1 AATCTCTTACTTATTAATTTTTGAAATA-TTAATAAATTAGTATTATTTTATTTTGAATAAGCTT
* * * * * * *
21376 ATATGAATTGATATAATTGTTTTATGGCGAAACAAAAGATCATAATGATTTGAAATAGATAATTA
65 TTATGAAATGAAACAATTGTTTTATGACAAAACAAAAGGTCATAATGATTTGAAATAGATAATTA
* * * *
21441 TTCAGATAGTTATTACTATTTGAACTTGTT-AGGTAAACAT-ATTTATTTTTTA
130 TTCAAATAGTCATAACTATTTGAAC-TGTTCA-ATAAA-ATGATTTATTTTTTA
* * * * *** **
21493 AATCTTTTACTTATTAATTGTTGAAATATTAATAAATTAATATTATTTTAATCCAAATAAGCTAA
1 AATCTCTTACTTATTAATTTTTGAAATATTAATAAATTAGTATTATTTTATTTTGAATAAGCTTT
* * * * * *
21558 TATGAACA-AAAATAATTGTTTTATGACAAAACAAAGGGTCATAATAATTTGAAATAAATAATTG
66 TATGAA-ATGAAACAATTGTTTTATGACAAAACAAAAGGTCATAATGATTTGAAATAGATAATTA
*
21622 TTCCAATAGTCATAACTATT
130 TTCAAATAGTCATAACTATT
21642 CAAAATTATT
Statistics
Matches: 998, Mismatches: 186, Indels: 88
0.78 0.15 0.07
Matches are distributed among these distances:
176 71 0.07
177 70 0.07
178 4 0.00
179 23 0.02
180 347 0.35
181 456 0.46
182 23 0.02
183 4 0.00
ACGTcount: A:0.39, C:0.08, G:0.10, T:0.42
Consensus pattern (180 bp):
AATCTCTTACTTATTAATTTTTGAAATATTAATAAATTAGTATTATTTTATTTTGAATAAGCTTT
TATGAAATGAAACAATTGTTTTATGACAAAACAAAAGGTCATAATGATTTGAAATAGATAATTAT
TCAAATAGTCATAACTATTTGAACTGTTCAATAAAATGATTTATTTTTTA
Found at i:21658 original size:361 final size:357
Alignment explanation
Indices: 20240--21651 Score: 1317
Period size: 361 Copynumber: 3.9 Consensus size: 357
20230 GATAATCTCC
** * * * * *
20240 TACTTATTAATTTTTAAAATATTAATAAATTAGTGTTATTTTA-TTCTAATTAGGCTTGTATG-A
1 TACTTATTAATTTTTGGAATATT-ATAAGTTAGTATTATTTTATTTCGAA-TAAGCTTATATGAA
* * * * *
20303 TGAAAAACAATTGTTTTATGACAAAACAAAAGTTTAAAATGATTTGAAATAGATAATTGTTCAAA
64 T-AGAAACAATTGTTTTATGACAAAACAAAAGATCATAATGATTTGAAATAGATAATTATTCAAA
* * * * *** *
20368 TGGCCATAACTATTTGAAC-TGACTCAATAAA-ATGATTTATGTTTTAAATCTCCAACTTCTTAA
128 TAGTCATAACTATTTGAACTTG--TTAATAAACAT-ATTTATTTTTTAAATCTTTTACTTATTAA
* * ** * *
20431 TTTTTGAAATATTAATAAAGTAATATTATTTTTTTTTGGATAATCTTTTATGAAATGAAACAATT
190 -TTTTGAAATATTAATAAATTAATATTATTTTATTTTAAATAAGCTTGTATGAAA-GAAACAATT
* * * * * * *
20496 ATTTTATGACTAAACAAAAGGTCATAATGATTTAAAATAGATAATTATTATAATAGTCTTAACTA
253 ATTTTATGACAAAACAAAGGGTCATAATAATTTGAAATAAATAATTATT-CAATAGTCATAACTA
* * * *
20561 TTTG-AACTAGTTCAACAAATACATTTATTTTTTAAATTTCT
317 TTTGAAATTA-TTCAATAAATAAATTTATTTTTTAAATATCT
* * * * * * * *
20602 TACTTATTATTTTTTAGAATATTATTAGTTTAGTAATATTTTA-CTCTGAATAAGTTTCTATGGA
1 TACTTATTAATTTTTGGAATATTATAAG-TTAGTATTATTTTATTTC-GAATAAGCTTATATGAA
* *
20666 TAGAAACAATTGTTTTATGACAAAAC-AAAGATCATACTGATTTGAGATAGATAATTATTCAAAT
64 TAGAAACAATTGTTTTATGACAAAACAAAAGATCATAATGATTTGAAATAGATAATTATTCAAAT
* * * * *
20730 AGTCATAACTATTTGAA-TTGGTCTGATAAACAGATATAGTTTTTAAATC---T-CTTATTGATT
129 AGTCATAACTATTTGAACTT-GT-TAATAAACATATTTATTTTTTAAATCTTTTACTTATTAATT
* * * **
20790 TTCAAAATATTAATAAATTAGTATTATTTTATTTTGAATAATTTTGTATGAATAGAAACAATTAT
192 TT-GAAATATTAATAAATTAATATTATTTTATTTTAAATAAGCTTGTATGAA-AGAAACAATTAT
* * * * * *
20855 TTTATTACAAAACAATGGATCATAATAATTTGAAATAAATTATTATTTAAATAGTCATAATTATT
255 TTTATGACAAAACAAAGGGTCATAATAATTTGAAATAAATAATTA-TTCAATAGTCATAACTATT
* * * * *
20920 TGAACTCACTCAATAAACAAATTTATTTTTTAAATATTT
319 TGAAATTATTCAATAAATAAATTTATTTTTTAAATATCT
* * * * * *
20959 TACTTATTAGTTTTTGAAATTTTAATAAATTGGTATTATTTTATTTCGAATAAGCTTTTATGAAT
1 TACTTATTAATTTTTGGAATATT-ATAAGTTAGTATTATTTTATTTCGAATAAGCTTATATGAAT
* * * *
21024 AGAAACAATTGGTTTATGACAAAACAAAAGGTCATATTGATTTGAAATAGATAATTGTTCAAATA
65 AGAAACAATTGTTTTATGACAAAACAAAAGATCATAATGATTTGAAATAGATAATTATTCAAATA
* * * * * *
21089 GTCATAATTATTTCGAACATGTTCAAAAAAAAT-TTTATTTTATATAT-TTTTACTTATTAATCT
130 GTCATAACTATTT-GAACTTGTT-AATAAACATATTTATTTTTTAAATCTTTTACTTATTAAT-T
* * * * * *
21152 TTGGAATATTAGTAAATTTATATTATTTTATTTGAAATAAGCTTGCATGAAGAGAAACAATTGTT
192 TTGAAATATTAATAAATTAATATTATTTTATTTTAAATAAGCTTGTATGAA-AGAAACAATTATT
* * * *
21217 TTATGGCAAAACAATA-GGTCATAACAATTTGAAATAGATAATTGTTCAAGTAGTCATAACTATT
256 TTATGACAAAACAA-AGGGTCATAATAATTTGAAATAAATAATTATTCAA-TAGTCATAACTATT
* * *** * * *
21281 TGAACTTGTTTGGTAAATAGATTCATTTTTTAAATCTCT
319 TGAAATTATTCAATAAATAAATTTATTTTTTAAATATCT
* * * *
21320 TACTCATTAATTTTTGGAATAGTTA-AAGTTAGTGTTATTCTATTTCGAATAAGCCTATATGAAT
1 TACTTATTAATTTTTGGAATA-TTATAAGTTAGTATTATTTTATTTCGAATAAGCTTATATGAAT
* * * * * *
21384 TGATATAATTGTTTTATGGCGAAACAAAAGATCATAATGATTTGAAATAGATAATTATTCAGATA
65 AGAAACAATTGTTTTATGACAAAACAAAAGATCATAATGATTTGAAATAGATAATTATTCAAATA
* * *
21449 GTTATTACTATTTGAACTTGTTAGGTAAACATATTTATTTTTTAAATCTTTTACTTATTAATTGT
130 GTCATAACTATTTGAACTTGTTA-ATAAACATATTTATTTTTTAAATCTTTTACTTATTAATT-T
* ** ** * * *
21514 TGAAATATTAATAAATTAATATTATTTTAATCCAAATAAGCTAATATGAACAAAAATAATTGTTT
193 TGAAATATTAATAAATTAATATTATTTTATTTTAAATAAGCTTGTATGAA-AGAAACAATTATTT
* **
21579 TATGACAAAACAAAGGGTCATAATAATTTGAAATAAATAATTGTTCCAATAGTCATAACTATTCA
257 TATGACAAAACAAAGGGTCATAATAATTTGAAATAAATAATTATT-CAATAGTCATAACTATTTG
21644 AAATTATT
321 AAATTATT
21652 TGGTAAACAA
Statistics
Matches: 853, Mismatches: 166, Indels: 63
0.79 0.15 0.06
Matches are distributed among these distances:
356 4 0.00
357 206 0.24
358 69 0.08
359 23 0.03
360 119 0.14
361 350 0.41
362 78 0.09
363 4 0.00
ACGTcount: A:0.40, C:0.08, G:0.10, T:0.42
Consensus pattern (357 bp):
TACTTATTAATTTTTGGAATATTATAAGTTAGTATTATTTTATTTCGAATAAGCTTATATGAATA
GAAACAATTGTTTTATGACAAAACAAAAGATCATAATGATTTGAAATAGATAATTATTCAAATAG
TCATAACTATTTGAACTTGTTAATAAACATATTTATTTTTTAAATCTTTTACTTATTAATTTTGA
AATATTAATAAATTAATATTATTTTATTTTAAATAAGCTTGTATGAAAGAAACAATTATTTTATG
ACAAAACAAAGGGTCATAATAATTTGAAATAAATAATTATTCAATAGTCATAACTATTTGAAATT
ATTCAATAAATAAATTTATTTTTTAAATATCT
Found at i:22004 original size:181 final size:181
Alignment explanation
Indices: 21817--22277 Score: 523
Period size: 181 Copynumber: 2.5 Consensus size: 181
21807 TTAATATTTG
* * *
21817 AAATATTAATAAATTAGAATTATGTTATTCTGAATAAGCTTTTATGAACAAAAACAATTGTTTTG
1 AAATATTAATAAATTAGAATTATTTTATTCTGAATAAGCTTATATGAACAAAAACAATTGTTTTA
* * * * * ** *
21882 TGAGAAAACAAAAGGCCATAATGATTTGAAATAGATAATTGATCAAATAGTCATAATTGTTTGCA
66 TGAAAAAACAAAAGGTCATAACGATTTGAAATAGATAATTGATCAAATAGTCAAAACTAATTGAA
*
21947 CTAGTCAAGCCAAA-AGATACATTTTCTAAATCCATTACCTATTAATTTTCA
131 CTAGT-AAGCCAAACAAATACATTTTCTAAATCCATTACCTATTAATTTTCA
* * * *
21998 AAATATTAATAAATTAGCATTATTTTATTCTGAATAAGATTATATGAACAGAAATAATTGTTTTA
1 AAATATTAATAAATTAGAATTATTTTATTCTGAATAAGCTTATATGAACAAAAACAATTGTTTTA
* * * *
22063 TGAAAAAACAAATA-GTCATAACGATTTGAAATAAATATTTGGTCAAATAGTTAAAACTAATTGA
66 TGAAAAAACAAA-AGGTCATAACGATTTGAAATAGATAATTGATCAAATAGTCAAAACTAATTGA
* * * ** * ** * **
22127 ACTGGTATGGCAAACAAATTTATTTTTTAAATCTTTTACGTATTAATTTTTG
130 ACTAGTAAGCCAAACAAATACATTTTCTAAATCCATTACCTATTAATTTTCA
** * * *
22179 AAATATTAATAAATTA-ATATTATTTTATTCCAAACAAACTTATATGAACAAAAACATTTGTTTT
1 AAATATTAATAAATTAGA-ATTATTTTATTCTGAATAAGCTTATATGAACAAAAACAATTGTTTT
* * *
22243 ATGACAAAACAAAAGGTAATAACAATTTGAAATAG
65 ATGAAAAAACAAAAGGTCATAACGATTTGAAATAG
22278 TTTTGTAAAC
Statistics
Matches: 232, Mismatches: 44, Indels: 8
0.82 0.15 0.03
Matches are distributed among these distances:
180 7 0.03
181 224 0.97
182 1 0.00
ACGTcount: A:0.44, C:0.09, G:0.10, T:0.36
Consensus pattern (181 bp):
AAATATTAATAAATTAGAATTATTTTATTCTGAATAAGCTTATATGAACAAAAACAATTGTTTTA
TGAAAAAACAAAAGGTCATAACGATTTGAAATAGATAATTGATCAAATAGTCAAAACTAATTGAA
CTAGTAAGCCAAACAAATACATTTTCTAAATCCATTACCTATTAATTTTCA
Found at i:22092 original size:482 final size:481
Alignment explanation
Indices: 21181--22113 Score: 1101
Period size: 482 Copynumber: 1.9 Consensus size: 481
21171 ATATTATTTT
* * *
21181 ATTTGAAATAAGCTTGCATGAAGAGAAACAATTGTTTTATGGCAAAACAATAGGTCATAACAATT
1 ATTTGAAATAAGCTTGCATGAAGAGAAACAATTATTTTATGACAAAACAAAAGGTCATAACAATT
* * * * *
21246 TGAAATAGATAATTGTTCAAGTAGTCATAACTATTTGAACTTGTTTGGTAAATAGATTCATTTTT
66 TGAAATAGATAATTATTCAAGTAGCCATAACTATTTGAACTTGTTCGATAAACAGATTCATTTTT
* * * * * **
21311 TAAATCTCTTACTCATTAATTTTTGGAATAGTTAAAGTTAGTGTTATTCTATTTCGAATAAGCCT
131 GAAATCTCTCACTCATTAATATTTGAAATAGTTAAAATTAGAATTATTCTATTTCGAATAAGCCT
*** * * * *
21376 ATATGAATTGATATAATTGTTTTATGGCGAAACAAAAGATCATAATGATTTGAAATAGATAATTA
196 ATATGAACAAAAACAATTGTTTTATGGCAAAACAAAAGACCATAATGATTTGAAATAGATAATTA
* * * * * ** * ** * ** *
21441 TTCAGATAGTTATTACTATTTGAACTTGTTAGGTAAACATATTTATTTTTTAAATCTTTTACTTA
261 TTCAAATAGTCATAACTATTTGAACTAGTAAGCCAAACAGATACATTTTCTAAATCCATTACCTA
* * *
21506 TTAATTGTTGAAATATTAATAAATTAATATTATTTTAATCCAAATAAGCTAATATGAACAAAAAT
326 TTAATTGTTAAAATATTAATAAATTAACATTATTTTAATCCAAATAAGATAATATGAACAAAAAT
* * * * *
21571 AATTGTTTTATGACAAAACAAAGGGTCATAATAATTTGAAATAAATAATTGTTCCAATAGTCATA
391 AATTGTTTTATGAAAAAACAAAGAGTCATAACAATTTGAAATAAATAATTGGTCAAATAGTCATA
21636 ACTATTCAAAATTATTTGGTAAACAA
456 ACTATTCAAAATTATTTGGTAAACAA
* * * * *
21662 ATTTGAAATAAGCTTGTATGAATAGAAA-AAGTTATTTTATGACAATACAAAAGGTTATAGCAAT
1 ATTTGAAATAAGCTTGCATGAAGAGAAACAA-TTATTTTATGACAAAACAAAAGGTCATAACAAT
* *
21726 TTGAACTAGATAATTATTCACA-TAGCCATAATTATTTGAACTTGTTCGATAAACAGATTCATTT
65 TTGAAATAGATAATTATTCA-AGTAGCCATAACTATTTGAACTTGTTCGATAAACAGATTCATTT
*
21790 TTGAAATCTCTCACTTATTAATATTTGAAATA-TTAATAAATTAGAATTATGT-TA-TTCTGAAT
129 TTGAAATCTCTCACTCATTAATATTTGAAATAGTT-A-AAATTAGAATTAT-TCTATTTC-GAAT
* * * *
21852 AAGCTTTTATGAACAAAAACAATTGTTTTGTGAG-AAAACAAAAGGCCATAATGATTTGAAATAG
190 AAGCCTATATGAACAAAAACAATTGTTTTATG-GCAAAACAAAAGACCATAATGATTTGAAATAG
* * *
21916 ATAATTGA-TCAAATAGTCATAATTGTTTGCACTAGTCAAGCCAAA-AGATACATTTTCTAAATC
254 ATAATT-ATTCAAATAGTCATAACTATTTGAACTAGT-AAGCCAAACAGATACATTTTCTAAATC
* * ** *
21979 CATTACCTATTAATT-TTCAAAATATTAATAAATTAGCATTATTTTATTCTGAATAAGATTATAT
317 CATTACCTATTAATTGTT-AAAATATTAATAAATTAACATTATTTTAATCCAAATAAGATAATAT
* * * *
22043 GAACAGAAATAATTGTTTTATGAAAAAACAAATAGTCATAACGATTTGAAATAAATATTTGGTCA
381 GAACAAAAATAATTGTTTTATGAAAAAACAAAGAGTCATAACAATTTGAAATAAATAATTGGTCA
22108 AATAGT
446 AATAGT
22114 TAAAACTAAT
Statistics
Matches: 374, Mismatches: 68, Indels: 19
0.81 0.15 0.04
Matches are distributed among these distances:
480 4 0.01
481 141 0.38
482 221 0.59
483 8 0.02
ACGTcount: A:0.41, C:0.09, G:0.12, T:0.38
Consensus pattern (481 bp):
ATTTGAAATAAGCTTGCATGAAGAGAAACAATTATTTTATGACAAAACAAAAGGTCATAACAATT
TGAAATAGATAATTATTCAAGTAGCCATAACTATTTGAACTTGTTCGATAAACAGATTCATTTTT
GAAATCTCTCACTCATTAATATTTGAAATAGTTAAAATTAGAATTATTCTATTTCGAATAAGCCT
ATATGAACAAAAACAATTGTTTTATGGCAAAACAAAAGACCATAATGATTTGAAATAGATAATTA
TTCAAATAGTCATAACTATTTGAACTAGTAAGCCAAACAGATACATTTTCTAAATCCATTACCTA
TTAATTGTTAAAATATTAATAAATTAACATTATTTTAATCCAAATAAGATAATATGAACAAAAAT
AATTGTTTTATGAAAAAACAAAGAGTCATAACAATTTGAAATAAATAATTGGTCAAATAGTCATA
ACTATTCAAAATTATTTGGTAAACAA
Found at i:22527 original size:181 final size:178
Alignment explanation
Indices: 22294--23195 Score: 776
Period size: 181 Copynumber: 5.0 Consensus size: 178
22284 AAACAGAATT
* * * * * * *
22294 ATTATGACTTTTTTTTTGTAATAAAACAATTGTTTCTGTTCATACAAGCTTATTCGGATTAAAAT
1 ATTATGACCTTTGTTTTGTCATAAAACAATTGTTTCTATTCACACAAGCTTATTTGGAATAAAAT
* * *
22359 AATATTAATTTATTAATATTTTGACAAGTAATAAGTGAAAGATTTAAAAAATAAATATGTTTACC
66 AATATTAATTTATTAATATTCT-AAAATTAATAAGT-AAAGATTTAAAAAATAAATATGTTTACC
* * * *
22424 AAACAAGTTCAAATCGTCAAGACTATTTAAATAATTATCTATTTCAAATA
129 AAACAAGTTCAAATAGTTATGACTATTTAAACAATTATCTATTTCAAATA
* * * * * * * *
22474 ATTGTGACCTTCTATTTTATAATAAAATAATTGTTT-TACTTAACATAAGCTTATTTGAAATAAA
1 ATTATGACCTT-TGTTTTGTCATAAAACAATTGTTTCTA-TTCACACAAGCTTATTTGGAATAAA
* * * * * * * *
22538 ATAGCT-CTAATTTATTAATATACCTAAAATTAATGAGTAAGAGAATTAAAAAAATGAATCTATT
64 ATA-ATATTAATTTATTAATAT-TCTAAAATTAATAAGTAA-AG-ATTTAAAAAATAAATATGTT
* * * *
22602 TACCGAACAAGTTCAAATAGTTGTGACTATCTAAATAATTATCTATTTCAAA-A
125 TACCAAACAAGTTCAAATAGTTATGACTATTTAAACAATTATCTATTTCAAATA
* * * * ** *
22655 CATTATAACCATTTGTTTTGTTATAAAATAATTAG-TTCTGTTCATGCAAGCTTATTTTGAATAA
1 -ATTATGACC-TTTGTTTTGTCATAAAACAATT-GTTTCTATTCACACAAGCTTATTTGGAATAA
* * * * * *
22719 AATAATATAAAATTATTAAAACTCCAAAAATTAATAAATAAA-ATTTAAAAAATAAATATGTTTT
63 AATAATATTAATTTATTAATA-TTCTAAAATTAATAAGTAAAGATTTAAAAAATAAATATG-TTT
**** * * *
22783 TTTTAACACA-TTC-AATAGTTATGACTATTTGAACAATTTTCTATTTCAAATC
126 ACCAAACA-AGTTCAAATAGTTATGACTATTTAAACAATTATCTATTTCAAATA
* * * * * * *
22835 ATTATGACAATTTGTTTTGTCGTAAACCAATTATTTCTATTCATACAAGCTTATTCGAAATAAAA
1 ATTATGAC-CTTTGTTTTGTCATAAAACAATTGTTTCTATTCACACAAGCTTATTTGGAATAAAA
* * *
22900 TAATATTAATTTATTAATATTTCTAAAATTAATAAGTAAAAGATTTAAATAATAAATTTGTTTAT
65 TAATATTAATTTATTAATA-TTCTAAAATTAATAAGT-AAAGATTTAAAAAATAAATATGTTTAC
* * * * * *
22965 CGAGCAAGTTCAAATAGTTATTACTATTTGAACAATTATATATTTCAAATC
128 CAAACAAGTTCAAATAGTTATGACTATTTAAACAATTATCTATTTCAAATA
* * *
23016 TTTATGATCTTTTGTTTTGTCATAAAACAATTGTTTCTATTCACACAAGTTTATTTGGAATAAAA
1 ATTATGA-CCTTTGTTTTGTCATAAAACAATTGTTTCTATTCACACAAGCTTATTTGGAATAAAA
* * * * * *
23081 TAATATTACTTTCTTATTATTCTAAAAATTAATAAGTTAGAGATTTAAAAAATAAATCTATTTAC
65 TAATATTAATTTATTAATATTCT-AAAATTAATAAG-TAAAGATTTAAAAAATAAATATGTTTAC
* * * * * ** *
23146 TAAACACGTTTAAATA-TTCATGTCCATTTAAACTGTTATTTATTTCAAAT
128 CAAACAAGTTCAAATAGTT-ATGACTATTTAAACAATTATCTATTTCAAAT
23196 CGTTATTATA
Statistics
Matches: 577, Mismatches: 120, Indels: 49
0.77 0.16 0.07
Matches are distributed among these distances:
179 128 0.22
180 41 0.07
181 264 0.46
182 139 0.24
183 5 0.01
ACGTcount: A:0.41, C:0.10, G:0.08, T:0.41
Consensus pattern (178 bp):
ATTATGACCTTTGTTTTGTCATAAAACAATTGTTTCTATTCACACAAGCTTATTTGGAATAAAAT
AATATTAATTTATTAATATTCTAAAATTAATAAGTAAAGATTTAAAAAATAAATATGTTTACCAA
ACAAGTTCAAATAGTTATGACTATTTAAACAATTATCTATTTCAAATA
Found at i:24346 original size:181 final size:181
Alignment explanation
Indices: 23516--24918 Score: 1261
Period size: 180 Copynumber: 7.8 Consensus size: 181
23506 GATAATCTCC
* * * * *
23516 TACTTATTAATTTTTAAAATATTAATAAATTAGTGTTATTTTA-TTCTAATTAGGCTTGTATG-A
1 TACTTATTAATTTTTGAAATATTAATAAATTAGTATTATTTTATTTCGAA-TAAGCTTTTATGAA
* * * * * *
23579 TGAAAAATAATTGTTTTATGACAAAACAAAAGTTCAAAATGATTTGAAATAGATAATTGTTCAAA
65 T-AGAAACAATTGTTTTATGACAAAACAAAAGGTCATAACGATTTGAAATAGATAATTATTCAAA
* * * * * * **
23644 TGGCCATAACTATTTGAAC-TGACTCAATAAA-ATGATTTCTGTTTTAAATCTCC
129 TAGTCATAACTATTTGAACTTG-TTCAATAAACA-GATTTATTTTTTAAATATTT
* * * * * * * *
23697 AACTTCTTAATTTTTGAAATATTAATAAAGTAATATTATTTTTTTTTTGGATAATCTTTTATGAA
1 TACTTATTAATTTTTGAAATATTAATAAATTAGTATTA-TTTTATTTCGAATAAGCTTTTATGAA
* * * *
23762 -ATGAAACAATTATTTTATGACTAAACAAAAGGTCATAATGATTTAAAATAGATAATTATT-ATA
65 TA-GAAACAATTGTTTTATGACAAAACAAAAGGTCATAACGATTTGAAATAGATAATTATTCA-A
* * * * *
23825 ATAGTCTTAACTATTTGAACTGGTTCAACAAATACATTTATTTTTTAAAT-TTCT
128 ATAGTCATAACTATTTGAACTTGTTCAATAAACAGATTTATTTTTTAAATATT-T
* * * ** * * *
23879 TACTTATTATTTTTTAAAATATTATTAGTTTAGTAATATTTTA-CTCTGAATAAG-TTTCTATGG
1 TACTTATTAATTTTTGAAATATTAATAAATTAGTATTATTTTATTTC-GAATAAGCTTT-TATGA
* *
23942 ATAGAAACAATTGTTTTATGACAAAAC-AAAGATCAT-ACTGATTTGAGATAGATAATTATTCAA
64 ATAGAAACAATTGTTTTATGACAAAACAAAAGGTCATAAC-GATTTGAAATAGATAATTATTCAA
* * * * *
24005 ATAGTCATAACTATTTGAA-TTGGTCTGATAAACAGATATAGTTTTT-AA-A-TC
128 ATAGTCATAACTATTTGAACTTGTTC-AATAAACAGATTTATTTTTTAAATATTT
* * * * *
24056 T-CTTATTGATTTTTAAAATGTTAATAAATTAGTATTATTTTATTTTGAATAA-TTTTGTATGAA
1 TACTTATTAATTTTTGAAATATTAATAAATTAGTATTATTTTATTTCGAATAAGCTTT-TATGAA
* * * ** * *
24119 TAGAAACAATTATTTTATTACAAAAC-AATGGATCATAATAATTTGAAATAAATAATTATTTAAA
65 TAGAAACAATTGTTTTATGACAAAACAAAAGG-TCATAACGATTTGAAATAGATAATTATTCAAA
* *** *
24183 TAGTCATAATTATTTGAACTCACTCAATAAACAAATTTATTTTTTAAATATTT
129 TAGTCATAACTATTTGAACTTGTTCAATAAACAGATTTATTTTTTAAATATTT
* * *
24236 TACTTATTAGTTTTTGAAATTTTAATAAATTGGTATTATTTTATTTCGAATAAGCTTTTATGAAT
1 TACTTATTAATTTTTGAAATATTAATAAATTAGTATTATTTTATTTCGAATAAGCTTTTATGAAT
* *
24301 AGAAACAATTGGTTTATGACAAAACAAAAGGTCATAACGATTTGAAATAGATAATTGTTCAAATA
66 AGAAACAATTGTTTTATGACAAAACAAAAGGTCATAACGATTTGAAATAGATAATTATTCAAATA
* * * * * *
24366 GTCATAATTATTTCGAACGTGTTCAA-AAAAAGTTTTATTTTATATAT-TTT
131 GTCATAACTATTT-GAACTTGTTCAATAAACAGATTTATTTTTTAAATATTT
* * * **
24416 TACTTATTAATCTTTGGAATATTAGTAAATTTA-TATTATTTTATTT-GAAATAAGCTTGCATGA
1 TACTTATTAATTTTTGAAATATTAATAAA-TTAGTATTATTTTATTTCG-AATAAGCTTTTATGA
* * * * * *
24479 AGAGAAACAATTGTTTTATGGCAAAACAAAAGGTCATAACAATTTGAAACAGATAATTGTTCAAG
64 ATAGAAACAATTGTTTTATGACAAAACAAAAGGTCATAACGATTTGAAATAGATAATTATTCAAA
*** * * * *
24544 TAGTCATAACTATTTGAACTTGTTTGGTAAATAGATTCATTTTTTAAATCTCT
129 TAGTCATAACTATTTGAACTTGTTCAATAAACAGATTTATTTTTTAAATATTT
* * * * * * *
24597 TACTCATTAATTTTTGGAATAGTT-A-AAGTTAGTGTTATTCTATTTCGAATAAGCCTATATGAA
1 TACTTATTAATTTTTGAAATA-TTAATAAATTAGTATTATTTTATTTCGAATAAGCTTTTATGAA
* * * * * * *
24660 TTGATATAATTATTTTATGGCGAAACAAAAGGTCATAACGATTTGAAATAGATAATTATTCAGAT
65 TAGAAACAATTGTTTTATGACAAAACAAAAGGTCATAACGATTTGAAATAGATAATTATTCAAAT
* * * *** * *
24725 AGTTATTACTATTTAAACTTGTTTGGTAAACATATTTATTTTTTAAATCTTT
130 AGTCATAACTATTTGAACTTGTTCAATAAACAGATTTATTTTTTAAATATTT
* * * * * ** *
24777 TACTTATTAATTGTTGAAATATTAATAAATTAATATTATTTTAATCCAAATAAGCTAATATGAAC
1 TACTTATTAATTTTTGAAATATTAATAAATTAGTATTATTTTATTTCGAATAAGCTTTTATGAAT
* * *** * * *
24842 AAAAATAATTGTTTTATGACAAAACAAAAGGTCATATTAATTTGAAATAAATAATTGTTCCAATA
66 AGAAACAATTGTTTTATGACAAAACAAAAGGTCATAACGATTTGAAATAGATAATTATTCAAATA
24907 GTCATAACTATT
131 GTCATAACTATT
24919 CAAAATTATT
Statistics
Matches: 988, Mismatches: 198, Indels: 72
0.79 0.16 0.06
Matches are distributed among these distances:
176 75 0.08
177 60 0.06
178 7 0.01
179 22 0.02
180 352 0.36
181 319 0.32
182 147 0.15
183 6 0.01
ACGTcount: A:0.39, C:0.08, G:0.11, T:0.42
Consensus pattern (181 bp):
TACTTATTAATTTTTGAAATATTAATAAATTAGTATTATTTTATTTCGAATAAGCTTTTATGAAT
AGAAACAATTGTTTTATGACAAAACAAAAGGTCATAACGATTTGAAATAGATAATTATTCAAATA
GTCATAACTATTTGAACTTGTTCAATAAACAGATTTATTTTTTAAATATTT
Found at i:24588 original size:361 final size:357
Alignment explanation
Indices: 23516--24918 Score: 1276
Period size: 361 Copynumber: 3.9 Consensus size: 357
23506 GATAATCTCC
* * * *
23516 TACTTATTAATTTTTAAAATATTAATAAATTAGTGTTATTTTATTCTAATTAGGCTTGTATG-AT
1 TACTTATTAATTTTTAAAATATTAATAAATTAGTATTATTTTATTCGAA-TAAGCTTTTATGAAT
* * * * * *
23580 GAAAAATAATTGTTTTATGACAAAACAAAAGTTCAAAATGATTTGAAATAGATAATTGTTCAAAT
65 -AGAAACAATTGTTTTATGACAAAACAAAAGGTCATAACGATTTGAAATAGATAATTATTCAAAT
* * * * * * * *
23645 GGCCATAACTATTTGAAC-TGACTCAATAAAATGATTTCTGTTTTA-AATCTCCAACTTCTTAAT
129 AGTCATAACTATTTGAACTTGATTCAA-AAAAAG-TTT-TATTTTATAATCTTCTACTTATTAAT
* * * * *
23708 TTTTGAAATATTAATAAAGTAATATTATTTTTTTTTTGGATAATCTTTTATGAAATGAAACAATT
191 TTTTGAAATATTAATAAATTAATATTA--TTTTATTTGAATAAGCTTGTATGAAA-GAAACAATT
* * * * *
23773 ATTTTATGACTAAACAAAAGGTCATAATGATTTAAAATAGATAATTATT-ATAATAGTCTTAACT
253 ATTTTATGACAAAACAAAAGGTCATAATAATTTGAAATAAATAATTATTCA-AATAGTCATAACT
* * *
23837 ATTTGAACTGGTTCAACAAATACATTTATTTTTTAAATTTCT
317 ATTTGAACTCGTTCAATAAATAAATTTATTTTTTAAATTT-T
* * ** * * *
23879 TACTTATTATTTTTTAAAATATTATTAGTTTAGTAATATTTTACTCTGAATAAG-TTTCTATGGA
1 TACTTATTAATTTTTAAAATATTAATAAATTAGTATTATTTTATTC-GAATAAGCTTT-TATGAA
* *
23943 TAGAAACAATTGTTTTATGACAAAAC-AAAGATCAT-ACTGATTTGAGATAGATAATTATTCAAA
64 TAGAAACAATTGTTTTATGACAAAACAAAAGGTCATAAC-GATTTGAAATAGATAATTATTCAAA
* * * * * * * *
24006 TAGTCATAACTATTTGAA-TTGGTCTGATAAACAGATATAGTTTT-TAA--ATCT-CTTATTGAT
128 TAGTCATAACTATTTGAACTTGAT-TCAAAAAAAGTTTTA-TTTTATAATCTTCTACTTATTAAT
* * * **
24066 TTTTAAAATGTTAATAAATTAGTATTATTTTATTTTGAATAATTTTGTATGAATAGAAACAATTA
191 TTTTGAAATATTAATAAATTAATATTATTTTA-TTTGAATAAGCTTGTATGAA-AGAAACAATTA
* * * *
24131 TTTTATTACAAAAC-AATGGATCATAATAATTTGAAATAAATAATTATTTAAATAGTCATAATTA
254 TTTTATGACAAAACAAAAGG-TCATAATAATTTGAAATAAATAATTATTCAAATAGTCATAACTA
** *
24195 TTTGAACTCACTCAATAAACAAATTTATTTTTTAAATATTT
318 TTTGAACTCGTTCAATAAATAAATTTATTTTTTAAAT-TTT
* * * *
24236 TACTTATTAGTTTTTGAAATTTTAATAAATTGGTATTATTTTATTTCGAATAAGCTTTTATGAAT
1 TACTTATTAATTTTTAAAATATTAATAAATTAGTATTATTTTA-TTCGAATAAGCTTTTATGAAT
* *
24301 AGAAACAATTGGTTTATGACAAAACAAAAGGTCATAACGATTTGAAATAGATAATTGTTCAAATA
65 AGAAACAATTGTTTTATGACAAAACAAAAGGTCATAACGATTTGAAATAGATAATTATTCAAATA
* * * *
24366 GTCATAATTATTTCGAACGTG-TTCAAAAAAAGTTTTATTTTATATAT-TTTTACTTATTAATCT
130 GTCATAACTATTT-GAACTTGATTCAAAAAAAGTTTTATTTTATA-ATCTTCTACTTATTAATTT
* * * * *
24429 TTGGAATATTAGTAAATTTATATTATTTTATTTGAAATAAGCTTGCATGAAGAGAAACAATTGTT
193 TTGAAATATTAATAAATTAATATTATTTTATTTG-AATAAGCTTGTATGAA-AGAAACAATTATT
* * * * * *
24494 TTATGGCAAAACAAAAGGTCATAACAATTTGAAACAGATAATTGTTCAAGTAGTCATAACTATTT
256 TTATGACAAAACAAAAGGTCATAATAATTTGAAATAAATAATTATTCAAATAGTCATAACTATTT
* *** * * *
24559 GAACTTGTTTGGTAAATAGATTCATTTTTTAAATCTCT
321 GAACTCGTTCAATAAATAAATTTATTTTTTAAAT-TTT
* ** * * * * *
24597 TACTCATTAATTTTTGGAATAGTT-A-AAGTTAGTGTTATTCTATTTCGAATAAGCCTATATGAA
1 TACTTATTAATTTTTAAAATA-TTAATAAATTAGTATTATTTTA-TTCGAATAAGCTTTTATGAA
* * * * * * *
24660 TTGATATAATTATTTTATGGCGAAACAAAAGGTCATAACGATTTGAAATAGATAATTATTCAGAT
64 TAGAAACAATTGTTTTATGACAAAACAAAAGGTCATAACGATTTGAAATAGATAATTATTCAAAT
* * * * *** * * *
24725 AGTTATTACTATTTAAACTTGTTTGGTAAACA-TATTTATTTTTTAAATCTTTTACTTATTAATT
129 AGTCATAACTATTTGAACTTGATTCAAAAAAAGT-TTTATTTTAT-AATCTTCTACTTATTAATT
* *** ** * * *
24789 GTTGAAATATTAATAAATTAATATTATTTTAATCCAAATAAGCTAATATGAACAAAAATAATTGT
192 TTTGAAATATTAATAAATTAATATTATTTT-ATTTGAATAAGCTTGTATGAA-AGAAACAATTAT
* * *
24854 TTTATGACAAAACAAAAGGTCATATTAATTTGAAATAAATAATTGTTCCAATAGTCATAACTATT
255 TTTATGACAAAACAAAAGGTCATAATAATTTGAAATAAATAATTATTCAAATAGTCATAACTATT
24919 CAAAATTATT
Statistics
Matches: 847, Mismatches: 162, Indels: 64
0.79 0.15 0.06
Matches are distributed among these distances:
356 8 0.01
357 184 0.22
358 96 0.11
359 14 0.02
360 125 0.15
361 283 0.33
362 62 0.07
363 71 0.08
364 4 0.00
ACGTcount: A:0.39, C:0.08, G:0.11, T:0.42
Consensus pattern (357 bp):
TACTTATTAATTTTTAAAATATTAATAAATTAGTATTATTTTATTCGAATAAGCTTTTATGAATA
GAAACAATTGTTTTATGACAAAACAAAAGGTCATAACGATTTGAAATAGATAATTATTCAAATAG
TCATAACTATTTGAACTTGATTCAAAAAAAGTTTTATTTTATAATCTTCTACTTATTAATTTTTG
AAATATTAATAAATTAATATTATTTTATTTGAATAAGCTTGTATGAAAGAAACAATTATTTTATG
ACAAAACAAAAGGTCATAATAATTTGAAATAAATAATTATTCAAATAGTCATAACTATTTGAACT
CGTTCAATAAATAAATTTATTTTTTAAATTTT
Found at i:25198 original size:300 final size:301
Alignment explanation
Indices: 24669--25213 Score: 736
Period size: 300 Copynumber: 1.8 Consensus size: 301
24659 ATTGATATAA
* * * ** *
24669 TTATTTTATGGCGAAACAAAAGGTCATAACGATTTGAAATAGATAATTATTCAGATAGTTATTAC
1 TTATTTTATGACGAAACAAAAGGTCATAACAATTTGAAATAGATAATTATTCAAATAGCCATAAC
* * * * * *
24734 TATTTAAACTTGTTTGGTAAACATATTTATTTTTTAAATCTTTTACTTATTAATTGTTGAAATAT
66 TATTTAAACTTGTTCGGTAAACAGATTCATTTTTGAAATCTCTCACTTATTAATTGTTGAAATAT
* *
24799 TAATAAATTAATATTATTTTAATCCAAATAAGCTAATATGAACAAAAATAATTGTTTTATGACAA
131 TAATAAATTAATATTATGTTAATCCAAATAAGCTAATATGAACAAAAACAATTGTTTTATGACAA
* * * *
24864 AACAAAAGGTCATATTAATTTGAAATAAATAATTGTTCCAATAGTCATAACTATTCAAAATTATT
196 AACAAAAGGCCATAATAATTTGAAATAAATAATTGATCAAATAGTCATAACTATTCAAAATTATT
24929 TGGTAAACAAATTTGAAATAAGCTTGTATGAATAGAAAAAG
261 TGGTAAACAAATTTGAAATAAGCTTGTATGAATAGAAAAAG
* * *
24970 TTATTTTATGAC-AATACAAAAGGTTATAGCAATTTGAACTAGATAATTATTCAAATAGCCATAA
1 TTATTTTATGACGAA-ACAAAAGGTCATAACAATTTGAAATAGATAATTATTCAAATAGCCATAA
* * * *
25034 TTATTTGAACTTGTTCGGTAAACAGATTCA-TTTTGAAATCTCTCACTTATTTATTTTTGAAATA
65 CTATTTAAACTTGTTCGGTAAACAGATTCATTTTTGAAATCTCTCACTTATTAATTGTTGAAATA
* ** ** * *
25098 TTAATAAATTAGA-ATTATGTTATTCTGAATAAGCTTTTATGAACAAAAACAATTGTTTTGTGAG
130 TTAATAAATTA-ATATTATGTTAATCCAAATAAGCTAATATGAACAAAAACAATTGTTTTATGAC
* * *
25162 AAAACAAAAGGCCATAATGATTTGATATAGATAATTGATCAAATAGTCATAA
194 AAAACAAAAGGCCATAATAATTTGAAATAAATAATTGATCAAATAGTCATAA
25214 TTGTTTGCAC
Statistics
Matches: 207, Mismatches: 35, Indels: 5
0.84 0.14 0.02
Matches are distributed among these distances:
300 129 0.62
301 78 0.38
ACGTcount: A:0.42, C:0.09, G:0.11, T:0.38
Consensus pattern (301 bp):
TTATTTTATGACGAAACAAAAGGTCATAACAATTTGAAATAGATAATTATTCAAATAGCCATAAC
TATTTAAACTTGTTCGGTAAACAGATTCATTTTTGAAATCTCTCACTTATTAATTGTTGAAATAT
TAATAAATTAATATTATGTTAATCCAAATAAGCTAATATGAACAAAAACAATTGTTTTATGACAA
AACAAAAGGCCATAATAATTTGAAATAAATAATTGATCAAATAGTCATAACTATTCAAAATTATT
TGGTAAACAAATTTGAAATAAGCTTGTATGAATAGAAAAAG
Found at i:25322 original size:181 final size:181
Alignment explanation
Indices: 25093--25552 Score: 487
Period size: 181 Copynumber: 2.5 Consensus size: 181
25083 TTTATTTTTG
* * * *
25093 AAATATTAATAAATTAGAATTATGTTATTCTGAATAAGCTTTTATGAACAAAAACAATTGTTTTG
1 AAATATTAATAAATTAGAATTATTTTATTCTGAATAAGATTATATGAACAAAAACAATTGTTTTA
* * * * * * ** *
25158 TGAGAAAACAAAAGGCCATAATGATTTGATATAGATAATTGATCAAATAGTCATAATTGTTTGCA
66 TGAAAAAACAAAAGGCCATAACGATTTGAAATAAATAATTGATCAAATAGTCAAAACTAATTGAA
* * * *
25223 CTAGTCAAGCCAAA-AGATACGTTTTCTAAATCCATTACTTATTAGTTTTCA
131 CTAGT-AAGCCAAACAAATACATTTTCTAAATCCATTACGTATTAATTTTCA
* * *
25274 AAATATTAATAAATTAGCATTATTTTATTCTGAATAAGATTATATGAACAGAAATAATTGTTTTA
1 AAATATTAATAAATTAGAATTATTTTATTCTGAATAAGATTATATGAACAAAAACAATTGTTTTA
* * * *
25339 TGAAAAAACAAATA-GTCATAACGATTTGAAATAAATATTTGGTCAAATAGTTAAAACTAATTGA
66 TGAAAAAACAAA-AGGCCATAACGATTTGAAATAAATAATTGATCAAATAGTCAAAACTAATTGA
* * * ** * ** **
25403 ACTGGTATGGCAAACAAATTTATTTTTTAAATCTTTTACGTATTAATTTTTG
130 ACTAGTAAGCCAAACAAATACATTTTCTAAATCCATTACGTATTAATTTTCA
** *
25455 AAATATTAATAAATTA-ATATTATTTTATTCCAAATAA-ACTTATATGAACAAAAACATTTGTTT
1 AAATATTAATAAATTAGA-ATTATTTTATTCTGAATAAGA-TTATATGAACAAAAACAATTGTTT
* ** *
25518 TATGACAAAACAAAAGGTAATAACAATTTGAAATA
64 TATGAAAAAACAAAAGGCCATAACGATTTGAAATA
25553 GTTTTGTAAA
Statistics
Matches: 231, Mismatches: 43, Indels: 10
0.81 0.15 0.04
Matches are distributed among these distances:
180 8 0.03
181 222 0.96
182 1 0.00
ACGTcount: A:0.43, C:0.09, G:0.11, T:0.37
Consensus pattern (181 bp):
AAATATTAATAAATTAGAATTATTTTATTCTGAATAAGATTATATGAACAAAAACAATTGTTTTA
TGAAAAAACAAAAGGCCATAACGATTTGAAATAAATAATTGATCAAATAGTCAAAACTAATTGAA
CTAGTAAGCCAAACAAATACATTTTCTAAATCCATTACGTATTAATTTTCA
Found at i:25368 original size:481 final size:481
Alignment explanation
Indices: 24458--25389 Score: 1058
Period size: 481 Copynumber: 1.9 Consensus size: 481
24448 ATATTATTTT
* *
24458 ATTTGAAATAAGCTTGCATGAAGAGAAACAATTGTTTTATGGCAAAACAAAAGGTCATAACAATT
1 ATTTGAAATAAGCTTGCATGAAGAGAAACAATTATTTTATGACAAAACAAAAGGTCATAACAATT
* * * * *
24523 TGAAACAGATAATTGTTCAAGTAGTCATAACTATTTGAACTTGTTTGGTAAATAGATTCATTTTT
66 TGAAACAGATAATTATTCAAATAGCCATAACTATTTGAACTTGTTCGGTAAACAGATTCATTTTT
* * * * **
24588 TAAATCTCTTACTCATTAATTTTTGGAATAGTTAAAGTTAGTGTTATTCTATTTCGAATAAGCCT
131 GAAATCTCTCACTCATTAATTTTTGAAATAGTTAAAATTAGAATTATTCTATTTCGAATAAGCCT
*** * * * *
24653 ATATGAATTGATATAATTATTTTATGGCGAAACAAAAGGTCATAACGATTTGAAATAGATAATTA
196 ATATGAACAAAAACAATTATTTTATGGCAAAACAAAAGGCCATAACGATTTGAAATAGATAATTA
* * * * ** ** * ** * **
24718 TTCAGATAGTTATTACTATTTAAACTTGTTTGGTAAACATATTTATTTTTTAAATCTTTTACTTA
261 TTCAAATAGTCATAACTATTTAAACTAGTAAGCCAAACAGATACATTTTCTAAATCCATTACTTA
* * *
24783 TTAATTGTTGAAATATTAATAAATTAATATTATTTTAATCCAAATAAGCTAATATGAACAAAAAT
326 TTAATTGTTAAAATATTAATAAATTAACATTATTTTAATCCAAATAAGATAATATGAACAAAAAT
* ** * *
24848 AATTGTTTTATGACAAAACAAAAGGTCATATTAATTTGAAATAAATAATTGTTCCAATAGTCATA
391 AATTGTTTTATGAAAAAACAAAAGGTCATAACAATTTGAAATAAATAATTGGTCAAATAGTCATA
24913 ACTATTCAAAATTATTTGGTAAACAA
456 ACTATTCAAAATTATTTGGTAAACAA
* * * * *
24939 ATTTGAAATAAGCTTGTATGAATAGAAA-AAGTTATTTTATGACAATACAAAAGGTTATAGCAAT
1 ATTTGAAATAAGCTTGCATGAAGAGAAACAA-TTATTTTATGACAAAACAAAAGGTCATAACAAT
*
25003 TTG-AACTAGATAATTATTCAAATAGCCATAATTATTTGAACTTGTTCGGTAAACAGATTCA-TT
65 TTGAAAC-AGATAATTATTCAAATAGCCATAACTATTTGAACTTGTTCGGTAAACAGATTCATTT
* *
25066 TTGAAATCTCTCACTTATTTATTTTTGAAATA-TTAATAAATTAGAATTATGT-TA-TTCTGAAT
129 TTGAAATCTCTCACTCATTAATTTTTGAAATAGTT-A-AAATTAGAATTAT-TCTATTTC-GAAT
* * * * * *
25128 AAGCTTTTATGAACAAAAACAATTGTTTTGTGAG-AAAACAAAAGGCCATAATGATTTGATATAG
190 AAGCCTATATGAACAAAAACAATTATTTTATG-GCAAAACAAAAGGCCATAACGATTTGAAATAG
* * ** *
25192 ATAATTGA-TCAAATAGTCATAATTGTTTGCACTAGTCAAGCCAAA-AGATACGTTTTCTAAATC
254 ATAATT-ATTCAAATAGTCATAACTATTTAAACTAGT-AAGCCAAACAGATACATTTTCTAAATC
* * * ** *
25255 CATTACTTATTAGTT-TTCAAAATATTAATAAATTAGCATTATTTTATTCTGAATAAGATTATAT
317 CATTACTTATTAATTGTT-AAAATATTAATAAATTAACATTATTTTAATCCAAATAAGATAATAT
* * *
25319 GAACAGAAATAATTGTTTTATGAAAAAACAAATA-GTCATAACGATTTGAAATAAATATTTGGTC
381 GAACAAAAATAATTGTTTTATGAAAAAACAAA-AGGTCATAACAATTTGAAATAAATAATTGGTC
25383 AAATAGT
445 AAATAGT
25390 TAAAACTAAT
Statistics
Matches: 370, Mismatches: 70, Indels: 22
0.80 0.15 0.05
Matches are distributed among these distances:
479 2 0.01
480 40 0.11
481 320 0.86
482 8 0.02
ACGTcount: A:0.41, C:0.09, G:0.12, T:0.38
Consensus pattern (481 bp):
ATTTGAAATAAGCTTGCATGAAGAGAAACAATTATTTTATGACAAAACAAAAGGTCATAACAATT
TGAAACAGATAATTATTCAAATAGCCATAACTATTTGAACTTGTTCGGTAAACAGATTCATTTTT
GAAATCTCTCACTCATTAATTTTTGAAATAGTTAAAATTAGAATTATTCTATTTCGAATAAGCCT
ATATGAACAAAAACAATTATTTTATGGCAAAACAAAAGGCCATAACGATTTGAAATAGATAATTA
TTCAAATAGTCATAACTATTTAAACTAGTAAGCCAAACAGATACATTTTCTAAATCCATTACTTA
TTAATTGTTAAAATATTAATAAATTAACATTATTTTAATCCAAATAAGATAATATGAACAAAAAT
AATTGTTTTATGAAAAAACAAAAGGTCATAACAATTTGAAATAAATAATTGGTCAAATAGTCATA
ACTATTCAAAATTATTTGGTAAACAA
Found at i:25803 original size:181 final size:179
Alignment explanation
Indices: 25570--26851 Score: 981
Period size: 181 Copynumber: 7.1 Consensus size: 179
25560 AAATAGAATT
* * * * * * * *
25570 ATTATGACTTTTTTTTTGTAATAAAACAATTGTTTCTGTTCATACAAGCTTATTCGGATTAAAAT
1 ATTATGACCTTTGTTTTGTCATAAAATAATTGTTTCTATTCACACAAGCTTATTTGGAATAAAAT
* * * * *
25635 AATATTAATTTATTAATATTTTGACAAGTAATAAGTGAAAGGTTTAAAAAATAAATATGTTTACC
66 AATATTAATTTATTAATATTCTAAAAATTAATAAGT-AAAGATTTAAAAAATAAATATGTTTACC
* * * * *
25700 AAACAAGTTCAAATCGTCAAGACTATTTAAATAATTATCTATTTCAAATA
130 GAACAAGTTCAAATAGTTATGACTATTTAAATAATTATCTATTTCAAATC
* * * * * * *
25750 ATTGTGACCTTCTATTTTATAATAAAATAATTGTTT-TACTTAACATAAGCTTATTTGAAATAAA
1 ATTATGACCTT-TGTTTTGTCATAAAATAATTGTTTCTA-TTCACACAAGCTTATTTGGAATAAA
* * * * * * * * *
25814 ATAGCT-CTAATTTATTAATATACCAAAAATTAATGAGTAAGAGAATTAAAAAAATGAATCTATT
64 ATA-ATATTAATTTATTAATATTCTAAAAATTAATAAGTAA-AG-ATTTAAAAAATAAATATGTT
* *
25878 TACCGAACAAGTTCAAATAGTTATGACTATCTAAATAATTATCTATTTCAAAAC
126 TACCGAACAAGTTCAAATAGTTATGACTATTTAAATAATTATCTATTTCAAATC
* * * * ** *
25932 ATTATAACCATTTGTTTTGTCATAAAATAATTAG-TTATGTTGATGCAAGCTTATTTTGAATAAA
1 ATTATGACC-TTTGTTTTGTCATAAAATAATT-GTTTCTATTCACACAAGCTTATTTGGAATAAA
* * * * * * * *
25996 ATAATATAAAATTATTAAAACTCCAAAAATTAATAAATAAAAATTTAAAAAATAAATATGTTTTT
64 ATAATATTAATTTATTAATATTCTAAAAATTAATAAGTAAAGATTTAAAAAATAAATATG-TTTA
*** * * *
26061 TTTAACACA-TTC-AATAGTTATGACTATTTGAACAATTTTCTATTTCAAATC
128 CCGAACA-AGTTCAAATAGTTATGACTATTTAAATAATTATCTATTTCAAATC
** ** * * * *
26112 ATTATGATAATTTGTTTTGTCATAAACCAATTATTTCTATTCATACAAGCTTATTCGAAATAAAA
1 ATTATGA-CCTTTGTTTTGTCATAAAATAATTGTTTCTATTCACACAAGCTTATTTGGAATAAAA
* *
26177 TAATATTAATTTATTAATATTTCT-AAAATTAATAAGTAAAAGATTTAAATAATAAATTTGTTTA
65 TAATATTAATTTATTAATA-TTCTAAAAATTAATAAGT-AAAGATTTAAAAAATAAATATGTTTA
* * * * * *
26241 TCGAGCAAGTTCAAATAGTTATTACTATTTGAACAATTATATATTTCAAATC
128 CCGAACAAGTTCAAATAGTTATGACTATTTAAATAATTATCTATTTCAAATC
* * * *
26293 TTTATGATCTTTTGTTTTGTCATAAAACAATTGTTTCTATTCACACAAGTTTATTTGGAATAAAA
1 ATTATGA-CCTTTGTTTTGTCATAAAATAATTGTTTCTATTCACACAAGCTTATTTGGAATAAAA
* * * * *
26358 TAATATTAATTTCTTATTATTCTAAAAATTAATAAGTTAGAGATTTAAAAAATAAATCTATTTAC
65 TAATATTAATTTATTAATATTCTAAAAATTAATAAG-TAAAGATTTAAAAAATAAATATGTTTAC
* * * * *
26423 CGAACAAGTTTAAATA-TTCATGTCCATTTAAACT-GTTATTTATTTCAAATC
129 CGAACAAGTTCAAATAGTT-ATGACTATTTAAA-TAATTATCTATTTCAAATC
* * * * * * ** *
26474 GTTATGACATTTCATTTTATTATAAAATAATTGTTTCTATTCATACAAAATTATTTAGAATAAAA
1 ATTATGACCTTT-GTTTTGTCATAAAATAATTGTTTCTATTCACACAAGCTTATTTGGAATAAAA
** * * * **
26539 TAATACCAATTTATTACTACTTC-GAAAATTAATAAG----GATTT-AAAAATAAATGTGTTTTT
65 TAATATTAATTTATTAATA-TTCTAAAAATTAATAAGTAAAGATTTAAAAAATAAATATGTTTAC
* * * * *
26598 CAAAGCAA-TTCAAATAGTTAAGACTA-TTAGAACAATTATCTATTCCAAATT
129 CGAA-CAAGTTCAAATAGTTATGACTATTTA-AATAATTATCTATTTCAAATC
* ** * * * * * * *
26649 ATTCTGATATTTTGTTTAGTCAAAAAAATAATTGTTTC-AGTTCATACATGCTTATTCGAAATAT
1 ATTATGA-CCTTTGTTTTGTC-ATAAAATAATTGTTTCTA-TTCACACAAGCTTATTTGGAATAA
* * * * * * *
26713 ACTAATACTAACTTATTAAAATT-TAGAAAACTAATAAG--AA-A-TTAAAAAA-AAATCTATTT
63 AATAATATTAATTTATTAATATTCTA-AAAATTAATAAGTAAAGATTTAAAAAATAAATATGTTT
* * * *
26772 ACCGAATAAGTTCAAATAGTTATGACTATTTGAACAATTATCTATTTAAAATC
127 ACCGAACAAGTTCAAATAGTTATGACTATTTAAATAATTATCTATTTCAAATC
* * *
26825 GTTATGACCTTTTATTTTATCATAAAA
1 ATTATGACC-TTTGTTTTGTCATAAAA
26852 CAACTATTTC
Statistics
Matches: 871, Mismatches: 193, Indels: 81
0.76 0.17 0.07
Matches are distributed among these distances:
174 3 0.00
175 62 0.07
176 133 0.15
177 8 0.01
179 1 0.00
180 158 0.18
181 360 0.41
182 142 0.16
183 4 0.00
ACGTcount: A:0.42, C:0.10, G:0.08, T:0.40
Consensus pattern (179 bp):
ATTATGACCTTTGTTTTGTCATAAAATAATTGTTTCTATTCACACAAGCTTATTTGGAATAAAAT
AATATTAATTTATTAATATTCTAAAAATTAATAAGTAAAGATTTAAAAAATAAATATGTTTACCG
AACAAGTTCAAATAGTTATGACTATTTAAATAATTATCTATTTCAAATC
Found at i:27585 original size:182 final size:177
Alignment explanation
Indices: 26938--27617 Score: 584
Period size: 182 Copynumber: 3.8 Consensus size: 177
26928 TATCAAATTA
* * * * *
26938 TTCAAATAATTATGGCCATTTGAATAATTATCTATTTCAAATTGTTGTGAACTTTTGTTTTGTCA
1 TTCAAATAATTATGACTATTTGAACAATTATCTATTTCAAATCGTTATGAACTTTTGTTTTGTCA
* * * * * *
27003 TAAAACAATTGTTTTTCATCATACAAGCCTATTTGGAATAAAATAATACTAATTTACTAATATTT
66 TAAAACAAATGTTTTTTA-CATACAAGCTTATTCGAAATAAAATAATACTAATTTATTAATATTT
* * * *
27068 CAAAAATTAATAA-A-AGATTTAAAAAGTTAATTTGTTTACTGAACCAA
130 C-AAAATTAATAACAGAGATTTAAAAAATAAATTTGTTTACTAAACCAG
* * * * * * *
27115 TTCAAATAGTTATGACTATTTAAACGATTATATATTTCAAATTGTTAT-AACCTTTTGTTATCTC
1 TTCAAATAATTATGACTATTTGAACAATTATCTATTTCAAATCGTTATGAA-CTTTTGTTTTGTC
* * * * * * *
27179 ATAAAACAATTATTTCTATT-CACACAAGTTTACTCGAAATAAAATAATACTAATATAATAATAT
65 ATAAAACAAATGTTT-T-TTACATACAAGCTTATTCGAAATAAAATAATACTAATTTATTAATAT
* *
27243 TATGAAAATTAATAACTAAGAGATTTAAAAAATAAATTTGTTTACTAAACTAG
128 T-TCAAAATTAATAAC--AGAGATTTAAAAAATAAATTTGTTTACTAAACCAG
* * * * * *
27296 TTCAAATATTTAAGGCTATATGAACAATTTTTTTATTTCAAATCGTTATG-ACATTTTGTTTTGT
1 TTCAAATAATTATGACTATTTGAACAA-TTATCTATTTCAAATCGTTATGAAC-TTTTGTTTTGT
** * * * * * * * * *
27360 TGTAGAAC-AATTTTTTCATTTCTTAGTAA-CTTATTCAAAATAAAGTAAAACAAATTTATTAAT
64 CATAAAACAAATGTTTT--TTACATA-CAAGCTTATTCGAAATAAAATAATACTAATTTATTAAT
* * *
27423 ATTTCAAAACTTAATAAGCATGAGATTTAAAAAACAAATTCAGTTTGTCT-AACCAG
126 ATTTCAAAA-TTAATAA-CA-GAGATTTAAAAAATAAATT-TGTTT-ACTAAACCAG
** *
27479 TTCAAATAATTATGACTATTTGAACAATTATCTATTTCAAATCGTTATGTTCTTTTATTTTGTCA
1 TTCAAATAATTATGACTATTTGAACAATTATCTATTTCAAATCGTTATGAACTTTTGTTTTGTCA
* * * * *
27544 TAAAACAAATGTTTTTGTACATATAAGTTTGTTCGAAATAAAACAATATTAATTTATTAATATTT
66 TAAAACAAATGTTTTT-TACATACAAGCTTATTCGAAATAAAATAATACTAATTTATTAATA-TT
*
27609 TGAAAATTA
129 TCAAAATTA
27618 TGTAAGTTAT
Statistics
Matches: 398, Mismatches: 81, Indels: 43
0.76 0.16 0.08
Matches are distributed among these distances:
176 2 0.01
177 113 0.28
178 2 0.01
179 1 0.00
180 2 0.01
181 68 0.17
182 158 0.40
183 50 0.13
184 2 0.01
ACGTcount: A:0.40, C:0.10, G:0.08, T:0.41
Consensus pattern (177 bp):
TTCAAATAATTATGACTATTTGAACAATTATCTATTTCAAATCGTTATGAACTTTTGTTTTGTCA
TAAAACAAATGTTTTTTACATACAAGCTTATTCGAAATAAAATAATACTAATTTATTAATATTTC
AAAATTAATAACAGAGATTTAAAAAATAAATTTGTTTACTAAACCAG
Found at i:28560 original size:178 final size:177
Alignment explanation
Indices: 28360--28732 Score: 453
Period size: 178 Copynumber: 2.1 Consensus size: 177
28350 TTAATTGTCA
* * * *
28360 AAATATTAACAAATTAGTATTATTTTAATCCAAATAAGCTTGTATAAATAGAAACAATTGTTTTA
1 AAATATTAACAAATTAGTATTATTTTAATCCAAATAAACTTATATAAACAAAAACAATTGTTTTA
* * *
28425 TAATAGAACAAAAAGTCATAATGATTTGAAATAAATAATTACTCAAAATAGTCATAACTTTTTAA
66 TAACAAAACAAAAAGTAATAATGATTTGAAATAAATAATTACTC-AAATAGT-ATAACTTTTTAA
* * * *
28490 ACTAG-TTTGATACATAGATTTATTTTTTAAA-TTAGTTATTAATTTTTG
129 A-TAGATTAGATAAACAGAATTATTTTTTAAACTTAGTTATTAATTTTTG
* * * * * *
28538 AAATATTAATAGATTGGTATTATTTTATTCCAAATAAACTTATATGAACAAAAACATTTGTTTTA
1 AAATATTAACAAATTAGTATTATTTTAATCCAAATAAACTTATATAAACAAAAACAATTGTTTTA
* * * * *
28603 TGACAAAACAAAAAGTAATAATGATTTGAAATATATAATTATTCAAATAGTATAATTTTTTGAAT
66 TAACAAAACAAAAAGTAATAATGATTTGAAATAAATAATTACTCAAATAGTATAACTTTTTAAAT
* * *
28668 TGATTAGGTAAACAGAATTATTTTTTAAATCTCTTATTTATTAATTTTTG
131 AGATTAGATAAACAGAATTATTTTTTAAA---CTTAGTTATTAATTTTTG
28718 AAATATTAACAAATT
1 AAATATTAACAAATT
28733 CATTTTATTT
Statistics
Matches: 163, Mismatches: 27, Indels: 8
0.82 0.14 0.04
Matches are distributed among these distances:
175 2 0.01
176 32 0.20
177 7 0.04
178 93 0.57
180 29 0.18
ACGTcount: A:0.44, C:0.07, G:0.08, T:0.41
Consensus pattern (177 bp):
AAATATTAACAAATTAGTATTATTTTAATCCAAATAAACTTATATAAACAAAAACAATTGTTTTA
TAACAAAACAAAAAGTAATAATGATTTGAAATAAATAATTACTCAAATAGTATAACTTTTTAAAT
AGATTAGATAAACAGAATTATTTTTTAAACTTAGTTATTAATTTTTG
Found at i:28784 original size:180 final size:179
Alignment explanation
Indices: 28022--29019 Score: 591
Period size: 180 Copynumber: 5.6 Consensus size: 179
28012 TATAAACATG
** * * * *
28022 TATTATTTTATTCGAAATAAGCTTAG-ATGAATAGACAAAAATTCTTTTATGA-AAAATAAAAGG
1 TATTATTTTATTTTAAATAAGC-TAGTATGAATA-A-GAAAATTATTTTATGACAAAACAAAAAG
* * * * * * * * * *
28085 TTATAGCT-ATTTCAAATAGATAATTATTTAAACAGTCCTAATTATTTAAATTTGTTTA-GAAAA
63 TCATA-ATGATTTGAAATAGATAATTATTCAAATAGTCATAACTATTTGAATTAG-TTAGGTAAA
* * * * * *
28148 CATAGTCATTTTTTAAATCTCTTTA-TTATAAATTTTTGGATTATTAATAAATTA
126 CAGAATTATTTTTTAAATCTC-TTAGTTATTAATTTTTGAAATATTAATAAATTA
* * * * *
28202 GTATTATTTTATTTTGAATAAGTTTA-TATGAATTGAA-ACAATTATTTTATGACAAAGCAAAAG
1 -TATTATTTTATTTTAAATAAG-CTAGTATGAA-T-AAGAAAATTATTTTATGACAAAACAAAAA
* * * *
28265 GTC------A-TTGAAATAGATAATTATTCAAATTGTCGTGATTATTTG-ATCTAGTGT-GGTAA
62 GTCATAATGATTTGAAATAGATAATTATTCAAATAGTCATAACTATTTGAAT-TAGT-TAGGTAA
* * * * * * * ** *
28321 ACATATTTATTTTTTAATTTTTTTACTTATTAATTGTCAAAATATTAACAAATTA
125 ACAGAATTATTTTTTAAATCTCTTAGTTATTAATTTTTGAAATATTAATAAATTA
* ** * * * * * *
28376 GTATTATTTTAATCCAAATAAGCTTGTATAAAT-AGAAACAATTGTTTTATAATAGAACAAAAAG
1 -TATTATTTTATTTTAAATAAGCTAGTATGAATAAG-AA-AATTATTTTATGACAAAACAAAAAG
* * * * * * * * *
28440 TCATAATGATTTGAAATAAATAATTACTCAAAATAGTCATAACTTTTTAAACTAGTTTGATACAT
63 TCATAATGATTTGAAATAGATAATTATTC-AAATAGTCATAACTATTTGAATTAGTTAGGTAAAC
* * *
28505 AGATTTATTTTTTAAA----TTAGTTATTAATTTTTGAAATATTAATAGATTGG
127 AGAATTATTTTTTAAATCTCTTAGTTATTAATTTTTGAAATATTAATAAATT-A
** * * *
28555 TATTATTTTATTCCAAATAAACTTA-TATGAACAA-AAACATTTGTTTTATGACAAAACAAAAAG
1 TATTATTTTATTTTAAATAAGC-TAGTATGAATAAGAAA-A-TTATTTTATGACAAAACAAAAAG
* * * *
28618 TAATAATGATTTGAAATATATAATTATTCAAATAGT-ATAATTTTTTGAATT-GATTAGGTAAAC
63 TCATAATGATTTGAAATAGATAATTATTCAAATAGTCATAACTATTTGAATTAG-TTAGGTAAAC
* *
28681 AGAATTATTTTTTAAATCTCTTATTTATTAATTTTTGAAATATTAACAAATTCA
127 AGAATTATTTTTTAAATCTCTTAGTTATTAATTTTTGAAATATTAATAAATT-A
* * * * *
28735 TTTTATTTTATTTTGAATAAGCTAGTATGAATTAAGAAAATTATTTTATGACAAGAC-GAAGGTC
1 TATTATTTTATTTTAAATAAGCTAGTATGAA-TAAGAAAATTATTTTATGACAAAACAAAAAGTC
* * * * * *
28799 ATAACGATTTGAATTAGATAATTGTTCATATAGTCTTAACTATTTGAATT-GTTTCA-GCAAACA
65 ATAATGATTTGAAATAGATAATTATTCAAATAGTCATAACTATTTGAATTAG-TT-AGGTAAACA
* * * * *
28862 -AATTTATTTTTTAAATCCCTTAGATATTAATTTTTTG-AATATTATTAGATTCG
128 GAA-TTATTTTTTAAATCTCTTAGTTATTAA-TTTTTGAAATATTAATAAATT-A
* * * * * *
28915 TATTGTTTTTTTTTTTAATAAGCTTGTATGAA-CAGAAATAATTATTTTATGACAAAACAAAAGG
1 TATT-ATTTTATTTTAAATAAGCTAGTATGAATAAG-AA-AATTATTTTATGACAAAACAAAAAG
* * * * * *
28979 TTATAATGATATGAAGTATAGAATTGTTCAAATAGTCATAA
63 TCATAATGATTTGAAATAGATAATTATTCAAATAGTCATAA
29020 ATAATTATCT
Statistics
Matches: 640, Mismatches: 133, Indels: 87
0.74 0.15 0.10
Matches are distributed among these distances:
171 1 0.00
173 9 0.01
174 120 0.19
175 2 0.00
176 34 0.05
177 10 0.02
178 97 0.15
179 41 0.06
180 143 0.22
181 104 0.16
182 77 0.12
183 2 0.00
ACGTcount: A:0.40, C:0.07, G:0.10, T:0.43
Consensus pattern (179 bp):
TATTATTTTATTTTAAATAAGCTAGTATGAATAAGAAAATTATTTTATGACAAAACAAAAAGTCA
TAATGATTTGAAATAGATAATTATTCAAATAGTCATAACTATTTGAATTAGTTAGGTAAACAGAA
TTATTTTTTAAATCTCTTAGTTATTAATTTTTGAAATATTAATAAATTA
Found at i:29158 original size:17 final size:16
Alignment explanation
Indices: 29131--29194 Score: 60
Period size: 17 Copynumber: 3.8 Consensus size: 16
29121 GAACAAACAA
*
29131 CTATTTGAATATTATT
1 CTATTTTAATATTATT
29147 CTAATTTTAATAATTATT
1 CT-ATTTTAAT-ATTATT
29165 -T-TTGTTAATTATTATT
1 CTATT-TTAA-TATTATT
29181 CTATTTTAAATATT
1 CTATTTT-AATATT
29195 TATGTTAAAT
Statistics
Matches: 40, Mismatches: 1, Indels: 13
0.74 0.02 0.24
Matches are distributed among these distances:
15 2 0.05
16 12 0.30
17 16 0.40
18 10 0.25
ACGTcount: A:0.33, C:0.05, G:0.03, T:0.59
Consensus pattern (16 bp):
CTATTTTAATATTATT
Found at i:29206 original size:31 final size:34
Alignment explanation
Indices: 29140--29211 Score: 89
Period size: 31 Copynumber: 2.2 Consensus size: 34
29130 ACTATTTGAA
*
29140 TATTATTCTAATTTTAATAATTATTTTTGTTAAT
1 TATTATTCTAATTTTAATAATTATTTATGTTAAT
29174 TATTATTCT-ATTTT-A-AA-TATTTATGTTAAAT
1 TATTATTCTAATTTTAATAATTATTTATGTT-AAT
*
29205 TACTATT
1 TATTATT
29212 TATCATTTTA
Statistics
Matches: 35, Mismatches: 2, Indels: 5
0.83 0.05 0.12
Matches are distributed among these distances:
30 9 0.26
31 11 0.31
32 1 0.03
33 5 0.14
34 9 0.26
ACGTcount: A:0.33, C:0.04, G:0.03, T:0.60
Consensus pattern (34 bp):
TATTATTCTAATTTTAATAATTATTTATGTTAAT
Found at i:30012 original size:29 final size:29
Alignment explanation
Indices: 29957--30012 Score: 76
Period size: 29 Copynumber: 1.9 Consensus size: 29
29947 AAATTAGTTT
* *
29957 TATATTTAATTATAATTAATTATATAAAC
1 TATATTTAATTATAATCAATTAAATAAAC
* *
29986 TATATTTAATTATTATCATTTAAATAA
1 TATATTTAATTATAATCAATTAAATAA
30013 TTAAATGGTA
Statistics
Matches: 23, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
29 23 1.00
ACGTcount: A:0.46, C:0.04, G:0.00, T:0.50
Consensus pattern (29 bp):
TATATTTAATTATAATCAATTAAATAAAC
Found at i:30104 original size:25 final size:27
Alignment explanation
Indices: 30053--30115 Score: 76
Period size: 25 Copynumber: 2.4 Consensus size: 27
30043 TACTAATTAC
* *
30053 TAATAATATTAATTATTATATTGATATT
1 TAATAATA-TAATTATTAGATTAATATT
30081 TAATAATATAA-TATT-GATTAATATT
1 TAATAATATAATTATTAGATTAATATT
*
30106 TAAAAATATA
1 TAATAATATA
30116 TTAATTATAA
Statistics
Matches: 32, Mismatches: 3, Indels: 3
0.84 0.08 0.08
Matches are distributed among these distances:
25 17 0.53
26 4 0.12
27 3 0.09
28 8 0.25
ACGTcount: A:0.49, C:0.00, G:0.03, T:0.48
Consensus pattern (27 bp):
TAATAATATAATTATTAGATTAATATT
Found at i:30467 original size:15 final size:15
Alignment explanation
Indices: 30447--30481 Score: 54
Period size: 15 Copynumber: 2.3 Consensus size: 15
30437 ATTAACAAAT
30447 TAATATTATA-ATATA
1 TAATATTATATA-ATA
30462 TAATATTATATAATA
1 TAATATTATATAATA
30477 TAATA
1 TAATA
30482 ATTGTCATAA
Statistics
Matches: 19, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
15 18 0.95
16 1 0.05
ACGTcount: A:0.54, C:0.00, G:0.00, T:0.46
Consensus pattern (15 bp):
TAATATTATATAATA
Found at i:30520 original size:29 final size:30
Alignment explanation
Indices: 30465--30531 Score: 77
Period size: 29 Copynumber: 2.3 Consensus size: 30
30455 TAATATATAA
30465 TATTATATAATATAATAATTGTCAT-AATT
1 TATTATATAATATAATAATTGTCATAAATT
*
30494 TATTAT-TAATTATAAT-ATTGATTATAAATT
1 TATTATATAA-TATAATAATTG-TCATAAATT
*
30524 TAATATAT
1 TATTATAT
30532 TATTAACTAT
Statistics
Matches: 32, Mismatches: 2, Indels: 6
0.80 0.05 0.15
Matches are distributed among these distances:
28 7 0.22
29 15 0.47
30 9 0.28
31 1 0.03
ACGTcount: A:0.45, C:0.01, G:0.03, T:0.51
Consensus pattern (30 bp):
TATTATATAATATAATAATTGTCATAAATT
Found at i:30536 original size:19 final size:19
Alignment explanation
Indices: 30491--30536 Score: 58
Period size: 19 Copynumber: 2.4 Consensus size: 19
30481 AATTGTCATA
*
30491 ATTTATTATTAATTATAAT
1 ATTTATTATAAATTATAAT
*
30510 ATTGATTATAAATT-TAAT
1 ATTTATTATAAATTATAAT
30528 ATATTATTA
1 AT-TTATTA
30537 ACTATTTATA
Statistics
Matches: 23, Mismatches: 3, Indels: 2
0.82 0.11 0.07
Matches are distributed among these distances:
18 6 0.26
19 17 0.74
ACGTcount: A:0.43, C:0.00, G:0.02, T:0.54
Consensus pattern (19 bp):
ATTTATTATAAATTATAAT
Found at i:30546 original size:16 final size:17
Alignment explanation
Indices: 30527--30558 Score: 57
Period size: 16 Copynumber: 1.9 Consensus size: 17
30517 ATAAATTTAA
30527 TATATTATT-AACTATT
1 TATATTATTAAACTATT
30543 TATATTATTAAACTAT
1 TATATTATTAAACTAT
30559 CATAATAAAA
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
16 9 0.60
17 6 0.40
ACGTcount: A:0.41, C:0.06, G:0.00, T:0.53
Consensus pattern (17 bp):
TATATTATTAAACTATT
Found at i:30984 original size:19 final size:19
Alignment explanation
Indices: 30960--30998 Score: 53
Period size: 19 Copynumber: 2.1 Consensus size: 19
30950 TAATAATCAT
*
30960 TAATTAATAAT-TGTATTAA
1 TAATTAACAATAT-TATTAA
30979 TAATTAACAATATTATTAA
1 TAATTAACAATATTATTAA
30998 T
1 T
30999 GGCTATTAAA
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
19 17 0.94
20 1 0.06
ACGTcount: A:0.49, C:0.03, G:0.03, T:0.46
Consensus pattern (19 bp):
TAATTAACAATATTATTAA
Found at i:31137 original size:23 final size:21
Alignment explanation
Indices: 31111--31162 Score: 54
Period size: 21 Copynumber: 2.4 Consensus size: 21
31101 TTACTATATT
31111 ATAATTATATAATATAATTAAT-G
1 ATAATTAT-TAATA-AA-TAATAG
*
31134 ATAA-TATTAATAAATAATAT
1 ATAATTATTAATAAATAATAG
31154 ATAATTATT
1 ATAATTATT
31163 TGATTATTAG
Statistics
Matches: 26, Mismatches: 1, Indels: 6
0.79 0.03 0.18
Matches are distributed among these distances:
19 4 0.15
20 6 0.23
21 9 0.35
22 3 0.12
23 4 0.15
ACGTcount: A:0.54, C:0.00, G:0.02, T:0.44
Consensus pattern (21 bp):
ATAATTATTAATAAATAATAG
Found at i:31273 original size:14 final size:14
Alignment explanation
Indices: 31254--31280 Score: 54
Period size: 14 Copynumber: 1.9 Consensus size: 14
31244 TAATTGATAT
31254 TTAAATTTAATAAA
1 TTAAATTTAATAAA
31268 TTAAATTTAATAA
1 TTAAATTTAATAA
31281 TTATTTATCT
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 13 1.00
ACGTcount: A:0.56, C:0.00, G:0.00, T:0.44
Consensus pattern (14 bp):
TTAAATTTAATAAA
Found at i:31592 original size:27 final size:27
Alignment explanation
Indices: 31537--31598 Score: 70
Period size: 29 Copynumber: 2.1 Consensus size: 27
31527 ATTATTATAT
*
31537 TATAATTATAATATATTTGAATTAATA
1 TATAATTATAATATAGTTGAATTAATA
*
31564 TATAATTTAATAATATAGTTAATATTATATA
1 TATAA-TT-ATAATATAGTTGA-ATTA-ATA
31595 TATA
1 TATA
31599 TCAATTTTAA
Statistics
Matches: 29, Mismatches: 2, Indels: 4
0.83 0.06 0.11
Matches are distributed among these distances:
27 5 0.17
28 2 0.07
29 11 0.38
30 4 0.14
31 7 0.24
ACGTcount: A:0.48, C:0.00, G:0.03, T:0.48
Consensus pattern (27 bp):
TATAATTATAATATAGTTGAATTAATA
Found at i:31611 original size:23 final size:24
Alignment explanation
Indices: 31582--31640 Score: 68
Period size: 23 Copynumber: 2.5 Consensus size: 24
31572 AATAATATAG
31582 TTAATATTATATA-TATATCAATT
1 TTAATATTATATATTATATCAATT
* *
31605 TTAATATAATA-ATTATATTAATT
1 TTAATATTATATATTATATCAATT
* *
31628 ATATTATTATATA
1 TTAATATTATATA
31641 ATAAATATAA
Statistics
Matches: 29, Mismatches: 5, Indels: 3
0.78 0.14 0.08
Matches are distributed among these distances:
22 1 0.03
23 27 0.93
24 1 0.03
ACGTcount: A:0.46, C:0.02, G:0.00, T:0.53
Consensus pattern (24 bp):
TTAATATTATATATTATATCAATT
Found at i:32469 original size:16 final size:16
Alignment explanation
Indices: 32448--32491 Score: 56
Period size: 16 Copynumber: 2.8 Consensus size: 16
32438 ATTGAAATTA
32448 ATATAAATATTATATT
1 ATATAAATATTATATT
32464 ATATAAATA-TA-ATT
1 ATATAAATATTATATT
*
32478 ATTTATAATATTAT
1 ATATA-AATATTAT
32492 TAATCTCTTT
Statistics
Matches: 24, Mismatches: 1, Indels: 5
0.80 0.03 0.17
Matches are distributed among these distances:
14 7 0.29
15 6 0.25
16 11 0.46
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (16 bp):
ATATAAATATTATATT
Found at i:32472 original size:22 final size:21
Alignment explanation
Indices: 32447--32488 Score: 57
Period size: 22 Copynumber: 2.0 Consensus size: 21
32437 AATTGAAATT
*
32447 AATATAAATATTATATTATATA
1 AATATAAATATT-TATAATATA
*
32469 AATATAATTATTTATAATAT
1 AATATAAATATTTATAATAT
32489 TATTAATCTC
Statistics
Matches: 18, Mismatches: 2, Indels: 1
0.86 0.10 0.05
Matches are distributed among these distances:
21 7 0.39
22 11 0.61
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (21 bp):
AATATAAATATTTATAATATA
Found at i:33023 original size:21 final size:19
Alignment explanation
Indices: 32984--33032 Score: 62
Period size: 21 Copynumber: 2.5 Consensus size: 19
32974 GCTATTTAAA
32984 TTAAATATTATTTAATTAT
1 TTAAATATTATTTAATTAT
*
33003 TTAAATATTCCATTTATTTAT
1 TTAAATATT--ATTTAATTAT
*
33024 TTTAATATT
1 TTAAATATT
33033 TAATATTAAT
Statistics
Matches: 26, Mismatches: 2, Indels: 2
0.87 0.07 0.07
Matches are distributed among these distances:
19 9 0.35
21 17 0.65
ACGTcount: A:0.37, C:0.04, G:0.00, T:0.59
Consensus pattern (19 bp):
TTAAATATTATTTAATTAT
Found at i:33078 original size:27 final size:25
Alignment explanation
Indices: 33038--33087 Score: 73
Period size: 27 Copynumber: 1.9 Consensus size: 25
33028 ATATTTAATA
*
33038 TTAATTAATATAATTATTAATTAAGT
1 TTAATTAATATAATAATT-ATTAAGT
33064 TTAATATAATATAATAATTATTAA
1 TTAAT-TAATATAATAATTATTAA
33088 TAAGATATAA
Statistics
Matches: 22, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
26 10 0.45
27 12 0.55
ACGTcount: A:0.50, C:0.00, G:0.02, T:0.48
Consensus pattern (25 bp):
TTAATTAATATAATAATTATTAAGT
Found at i:33087 original size:20 final size:21
Alignment explanation
Indices: 33033--33100 Score: 72
Period size: 20 Copynumber: 3.3 Consensus size: 21
33023 TTTTAATATT
33033 TAAT-ATTAATTAATATAAT-
1 TAATAATTAATTAATATAATA
*
33052 TATTAATTAAGTTTAATATAATA
1 TAATAATTAA--TTAATATAATA
33075 TAATAATT-ATTAATA-AGATA
1 TAATAATTAATTAATATA-ATA
33095 TAATAA
1 TAATAA
33101 GCATAAATTA
Statistics
Matches: 42, Mismatches: 2, Indels: 9
0.79 0.04 0.17
Matches are distributed among these distances:
19 4 0.10
20 20 0.48
22 11 0.26
23 7 0.17
ACGTcount: A:0.53, C:0.00, G:0.03, T:0.44
Consensus pattern (21 bp):
TAATAATTAATTAATATAATA
Found at i:33494 original size:14 final size:14
Alignment explanation
Indices: 33477--33503 Score: 54
Period size: 14 Copynumber: 1.9 Consensus size: 14
33467 TTAATTACTT
33477 AATAAATATAATAC
1 AATAAATATAATAC
33491 AATAAATATAATA
1 AATAAATATAATA
33504 TATAAATAGA
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 13 1.00
ACGTcount: A:0.67, C:0.04, G:0.00, T:0.30
Consensus pattern (14 bp):
AATAAATATAATAC
Found at i:34014 original size:19 final size:18
Alignment explanation
Indices: 33982--34020 Score: 60
Period size: 19 Copynumber: 2.1 Consensus size: 18
33972 ACGTTATTTT
33982 ATTAAAAATAAATTATTA
1 ATTAAAAATAAATTATTA
*
34000 ATTAAAATATTAATTATTA
1 ATTAAAA-ATAAATTATTA
34019 AT
1 AT
34021 ATTTCAAACA
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
18 7 0.37
19 12 0.63
ACGTcount: A:0.56, C:0.00, G:0.00, T:0.44
Consensus pattern (18 bp):
ATTAAAAATAAATTATTA
Found at i:34371 original size:25 final size:27
Alignment explanation
Indices: 34332--34409 Score: 83
Period size: 25 Copynumber: 3.0 Consensus size: 27
34322 TGGATAACAA
* *
34332 AATTACTAACATTATAAAAATATT-AT
1 AATTAGTAATATTATAAAAATATTAAT
* *
34358 AATTA-TTATATTATAATAATATTAAT
1 AATTAGTAATATTATAAAAATATTAAT
*
34384 TATTAGTAATATTAT--AAATATTAAT
1 AATTAGTAATATTATAAAAATATTAAT
34409 A
1 A
34410 TAATAAATTA
Statistics
Matches: 43, Mismatches: 7, Indels: 5
0.78 0.13 0.09
Matches are distributed among these distances:
25 24 0.56
26 11 0.26
27 8 0.19
ACGTcount: A:0.51, C:0.03, G:0.01, T:0.45
Consensus pattern (27 bp):
AATTAGTAATATTATAAAAATATTAAT
Found at i:34393 original size:16 final size:16
Alignment explanation
Indices: 34352--34399 Score: 62
Period size: 16 Copynumber: 2.9 Consensus size: 16
34342 ATTATAAAAA
34352 TATTATAATTATTATAT
1 TATTATAA-TATTATAT
*
34369 TATAATAATATTA-AT
1 TATTATAATATTATAT
34384 TATTAGTAATATTATA
1 TATTA-TAATATTATA
34400 AATATTAATA
Statistics
Matches: 27, Mismatches: 2, Indels: 4
0.82 0.06 0.12
Matches are distributed among these distances:
15 6 0.22
16 13 0.48
17 8 0.30
ACGTcount: A:0.46, C:0.00, G:0.02, T:0.52
Consensus pattern (16 bp):
TATTATAATATTATAT
Found at i:34405 original size:18 final size:18
Alignment explanation
Indices: 34349--34406 Score: 54
Period size: 18 Copynumber: 3.4 Consensus size: 18
34339 AACATTATAA
34349 AAATATTATAAT--TATT
1 AAATATTATAATAATATT
34365 --ATATTATAATAATATT
1 AAATATTATAATAATATT
* *
34381 AATTATTAGTAATATTA-T
1 AAATATTA-TAATAATATT
34399 AAATATTA
1 AAATATTA
34407 ATATAATAAA
Statistics
Matches: 34, Mismatches: 3, Indels: 8
0.76 0.07 0.18
Matches are distributed among these distances:
14 10 0.29
16 4 0.12
18 13 0.38
19 7 0.21
ACGTcount: A:0.50, C:0.00, G:0.02, T:0.48
Consensus pattern (18 bp):
AAATATTATAATAATATT
Found at i:34523 original size:13 final size:14
Alignment explanation
Indices: 34490--34537 Score: 53
Period size: 16 Copynumber: 3.3 Consensus size: 14
34480 TATTAAACTG
34490 TTAATAATAAATAA
1 TTAATAATAAATAA
34504 TCCTAATAATAAA-AA
1 T--TAATAATAAATAA
*
34519 TTAATCAGTAAATAA
1 TTAAT-AATAAATAA
34534 TTAA
1 TTAA
34538 ATGTTATTAT
Statistics
Matches: 29, Mismatches: 1, Indels: 7
0.78 0.03 0.19
Matches are distributed among these distances:
13 4 0.14
14 6 0.21
15 9 0.31
16 10 0.34
ACGTcount: A:0.58, C:0.06, G:0.02, T:0.33
Consensus pattern (14 bp):
TTAATAATAAATAA
Found at i:35527 original size:6 final size:6
Alignment explanation
Indices: 35526--35559 Score: 52
Period size: 6 Copynumber: 5.8 Consensus size: 6
35516 TAAATATTAA
*
35526 TAATAT TAATA- TAATAT TATTAT TAATAT TAATA
1 TAATAT TAATAT TAATAT TAATAT TAATAT TAATA
35560 ATTTATTTAG
Statistics
Matches: 25, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
5 5 0.20
6 20 0.80
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (6 bp):
TAATAT
Found at i:36040 original size:148 final size:148
Alignment explanation
Indices: 35760--36047 Score: 366
Period size: 148 Copynumber: 1.9 Consensus size: 148
35750 CTATTTGAAC
*
35760 AATTATCTATTTAAAATCATTATGACCTTTTGTTTTATCATAAAATAATTGTTTCAGTTCAATAA
1 AATTATCTATTTAAAATCATTATGACCTTTTGTTTTATCATAAAACAATTGTTTCAG-TCAATAA
* * * * **
35825 AACTTATCAAAATAAAATAATATTACTTTACTACTATTTCAAAAATTGGAAAGTTGGAGATTTAA
65 AACTTATCAAAATAAAATAATATTAATTTACTAATATTTCAAAAATTGAAAACTAAGAGATTTAA
35890 AAAATAAATCAGTTCAAAT
130 AAAATAAATCAGTTCAAAT
* * * * * * *
35909 AATTATTTATTTCAAATCGTTATGACCTTTTGTTTTATTATAAAACAATTTTTTTA-TC-GTACA
1 AATTATCTATTTAAAATCATTATGACCTTTTGTTTTATCATAAAACAATTGTTTCAGTCAATA-A
* * *
35972 AGCTTATTCAAAATAAAATAATATTAATTTATTAATATTTCAAAACTT-AATAACTAAGAGATTT
65 AACTTA-TCAAAATAAAATAATATTAATTTACTAATATTTCAAAAATTGAA-AACTAAGAGATTT
36036 AAAAAATAAATC
128 AAAAAATAAATC
36048 TATTTACCAA
Statistics
Matches: 119, Mismatches: 17, Indels: 7
0.83 0.12 0.05
Matches are distributed among these distances:
146 2 0.02
147 9 0.08
148 59 0.50
149 49 0.41
ACGTcount: A:0.43, C:0.10, G:0.06, T:0.41
Consensus pattern (148 bp):
AATTATCTATTTAAAATCATTATGACCTTTTGTTTTATCATAAAACAATTGTTTCAGTCAATAAA
ACTTATCAAAATAAAATAATATTAATTTACTAATATTTCAAAAATTGAAAACTAAGAGATTTAAA
AAATAAATCAGTTCAAAT
Found at i:36347 original size:23 final size:20
Alignment explanation
Indices: 36321--36367 Score: 58
Period size: 20 Copynumber: 2.2 Consensus size: 20
36311 ATGTTTAAAT
36321 TTATTAACTATAATTAATAATAA
1 TTATT-ACTATAA-T-ATAATAA
*
36344 TTATTATTATAATATAATAA
1 TTATTACTATAATATAATAA
36364 TTAT
1 TTAT
36368 AATTTAACGA
Statistics
Matches: 23, Mismatches: 1, Indels: 3
0.85 0.04 0.11
Matches are distributed among these distances:
20 11 0.48
21 1 0.04
22 6 0.26
23 5 0.22
ACGTcount: A:0.49, C:0.02, G:0.00, T:0.49
Consensus pattern (20 bp):
TTATTACTATAATATAATAA
Found at i:36564 original size:29 final size:29
Alignment explanation
Indices: 36532--36603 Score: 76
Period size: 29 Copynumber: 2.5 Consensus size: 29
36522 TATAACATAT
*
36532 AATAATTAAATAAT-ATTTTTAATGTTACA
1 AATAATTAAATAATAATTATTAAT-TTACA
* * *
36561 AATAATTATATATTAATTATTAATTTATA
1 AATAATTAAATAATAATTATTAATTTACA
36590 AA-AATATAAATAAT
1 AATAAT-TAAATAAT
36604 TTGATATTAA
Statistics
Matches: 35, Mismatches: 6, Indels: 4
0.78 0.13 0.09
Matches are distributed among these distances:
28 3 0.09
29 24 0.69
30 8 0.23
ACGTcount: A:0.53, C:0.01, G:0.01, T:0.44
Consensus pattern (29 bp):
AATAATTAAATAATAATTATTAATTTACA
Found at i:36620 original size:19 final size:18
Alignment explanation
Indices: 36561--36622 Score: 63
Period size: 19 Copynumber: 3.3 Consensus size: 18
36551 TAATGTTACA
36561 AATAATTATATATTAAT-T
1 AATAATT-TATATTAATAT
* **
36579 ATTAATTTATAAAAATAT
1 AATAATTTATATTAATAT
36597 AAATAATTTGATATTAATAT
1 -AATAATTT-ATATTAATAT
36617 AATAAT
1 AATAAT
36623 AATAATAGTA
Statistics
Matches: 35, Mismatches: 6, Indels: 5
0.76 0.13 0.11
Matches are distributed among these distances:
17 7 0.20
18 7 0.20
19 13 0.37
20 8 0.23
ACGTcount: A:0.53, C:0.00, G:0.02, T:0.45
Consensus pattern (18 bp):
AATAATTTATATTAATAT
Found at i:36965 original size:13 final size:14
Alignment explanation
Indices: 36947--36979 Score: 50
Period size: 13 Copynumber: 2.4 Consensus size: 14
36937 ATTTATTTAT
36947 AATTATA-TAGATA
1 AATTATATTAGATA
36960 AATTATATTAGATA
1 AATTATATTAGATA
36974 ATATTA
1 A-ATTA
36980 ATAATATTTC
Statistics
Matches: 18, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
13 7 0.39
14 7 0.39
15 4 0.22
ACGTcount: A:0.52, C:0.00, G:0.06, T:0.42
Consensus pattern (14 bp):
AATTATATTAGATA
Found at i:37462 original size:16 final size:18
Alignment explanation
Indices: 37441--37474 Score: 54
Period size: 16 Copynumber: 2.0 Consensus size: 18
37431 TTTATTATAT
37441 TATTATTT-A-AAATTAA
1 TATTATTTGATAAATTAA
37457 TATTATTTGATAAATTAA
1 TATTATTTGATAAATTAA
37475 ATAATTAAGA
Statistics
Matches: 16, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
16 8 0.50
17 1 0.06
18 7 0.44
ACGTcount: A:0.47, C:0.00, G:0.03, T:0.50
Consensus pattern (18 bp):
TATTATTTGATAAATTAA
Found at i:38158 original size:17 final size:19
Alignment explanation
Indices: 38132--38170 Score: 55
Period size: 19 Copynumber: 2.2 Consensus size: 19
38122 AGAGTAAGAC
38132 ATAGTGCT-AA-ATTAATA
1 ATAGTGCTAAACATTAATA
*
38149 ATAGTTCTAAACATTAATA
1 ATAGTGCTAAACATTAATA
38168 ATA
1 ATA
38171 AGGATTTAAA
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
17 7 0.37
18 2 0.11
19 10 0.53
ACGTcount: A:0.49, C:0.08, G:0.08, T:0.36
Consensus pattern (19 bp):
ATAGTGCTAAACATTAATA
Done.