Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: NW_019168334.1 Durio zibethinus cultivar Musang King isolate D1 unplaced genomic scaffold, Duzib1.0 scaffold_557, 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: 22989
ACGTcount: A:0.43, C:0.07, G:0.07, T:0.43
Found at i:706 original size:22 final size:22
Alignment explanation
Indices: 670--713 Score: 61
Period size: 22 Copynumber: 2.0 Consensus size: 22
660 TTTATTAAAA
**
670 TATAAATATTTATAAACTATAT
1 TATAAATATAGATAAACTATAT
*
692 TATAAATATAGATAATCTATAT
1 TATAAATATAGATAAACTATAT
714 ACAATTAAAT
Statistics
Matches: 19, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
22 19 1.00
ACGTcount: A:0.50, C:0.05, G:0.02, T:0.43
Consensus pattern (22 bp):
TATAAATATAGATAAACTATAT
Found at i:1440 original size:181 final size:180
Alignment explanation
Indices: 775--1899 Score: 841
Period size: 181 Copynumber: 6.3 Consensus size: 180
765 ATTTAACATG
* * **
775 ACTATTTGAACTT-GTTTGGTAAACAAATTCATTTTTTAAATCTCTTAATTATTAATTTTAAAAA
1 ACTATTTGAA-TTAGTTTGGTAAACAGATTTATTTTTTAAATCTCTT-ATTATTAATTTTTGAAA
* * * *
839 TATTAATAACTTAATATTATTTTATT-TCGAATAAGCTTA-TATGAATTG-AAATAATT-TTTTG
64 TATTAATAAATTTATATTATTTTATTCT-AAATAAGC-TAGTATGAATAGAAAAT-ATTGTTTT-
* * * * * *
900 ATGATAGAAGAAAAGGTTATAACGATTTGAAATAGATAACTATTCAAATAGTCATG
125 ATGACAAAACAAAAGGTTATAACAATTTGAAATAGATAATTATTCAAATAGTCATA
* ** * * * * * **
956 ACTGTTT-AATCTAGTTCAGTAAACATATTTAATTTTTTACATTTTTTACTTATTAATTGTCAAA
1 ACTATTTGAAT-TAGTTTGGTAAACAGATTT-ATTTTTTAAATCTCTTA-TTATTAATTTTTGAA
* * * * * * * * * *
1020 ATATTAATAAATTTGTATTATTTTAATCCAAATAAGCTTGAATAAATAGAAACTATTATCTTATA
63 ATATTAATAAATTTATATTATTTTATTCTAAATAAGCTAGTATGAATAGAAAATATTGTTTTATG
* * * ** * * *
1085 ACATAACAAAAAGTCATAATGATTTGAAATAAATAATTGCTT-AAATAGTC-TT
128 ACAAAACAAAAGGTTATAACAATTTGAAATAGATAATT-ATTCAAATAGTCATA
* ** * * *
1137 A--ATTTGTACCAGTTTGATAAATAGATTTATTTTTTAAA-AT-TT-TTATTAATTTTTGAAATA
1 ACTATTTGAATTAGTTTGGTAAACAGATTTATTTTTTAAATCTCTTATTATTAATTTTTGAAATA
* * * * * *
1197 TTAATAGATTAATTTTATTTTATTTCGAACA-AA-CTTA-TATGAACA-AAAACATTAGTTTTAT
66 TTAATAAATTTATATTATTTTA-TTCTAA-ATAAGC-TAGTATGAATAGAAAATATT-GTTTTAT
* *
1258 GACAAAACAAAAGGTCATAACAATTTGAAATAGATAATTGTTCAAATAGTCATA
127 GACAAAACAAAAGGTTATAACAATTTGAAATAGATAATTATTCAAATAGTCATA
* * * * *
1312 ATTATTTGAATTGGTTAGGTAAACAGAATTATTTTTTAATTCTCTTAATTATTAATTTTTGAAAT
1 ACTATTTGAATTAGTTTGGTAAACAGATTTATTTTTTAAATCTCTT-ATTATTAATTTTTGAAAT
* * *
1377 TTTAATAAATTTATTTTATTTTATTCTAAATAAGCTAGTATGAATTGAAAATATTGTTTTATGAC
65 ATTAATAAATTTATATTATTTTATTCTAAATAAGCTAGTATGAATAGAAAATATTGTTTTATGAC
** * * **
1442 AAAACAAAAGGTTATAATGATTTGAAATAGATAATCATTCATATAGTTTTA
130 AAAACAAAAGGTTATAACAATTTGAAATAGATAATTATTCAAATAGTCATA
* *
1493 ACTATTTGAACTAGTTTGGCAAACA-ATTTTATTTTTTAAATCTCTTAGTTATTAATTTTT-AGA
1 ACTATTTGAATTAGTTTGGTAAACAGA-TTTATTTTTTAAATCTCTTA-TTATTAATTTTTGA-A
* * * *
1556 ATATTATTAGA-TTAGTTTTATTTTATT-TCAAATAAGCTTGTATGAATAG-AAATAATTGTTTT
63 ATATTAATAAATTTA-TATTATTTTATTCT-AAATAAGCTAGTATGAATAGAAAAT-ATTGTTTT
* * * ** *
1618 ATGACAAAACAAAAGGTTATAACAATTTGAAGTATACAGCTGTT-ATAATAGTCATA
125 ATGACAAAACAAAAGGTTATAACAATTTGAAATAGATAATTATTCA-AATAGTCATA
* * * * *
1674 ACTATTTGAATTGGTTTTGTAAATAGATTTATTTTTTAAATCTC---TTATTAATTTTGGAAAGA
1 ACTATTTGAATTAGTTTGGTAAACAGATTTATTTTTTAAATCTCTTATTATTAATTTTTGAAATA
* * * * * * * **
1736 TTAATAAA-TTAGTATTATTTTATTTTGAGTAAGCTTGTATG-ATAAAAAACAATAGTCATATGA
66 TTAATAAATTTA-TATTATTTTATTCTAAATAAGCTAGTATGAATAGAAAA-TATTGTTTTATGA
* * * * * * *
1799 CCAAACAAATGGTAAGAACAATTTGAAATAGATAATTATTGAAATGGCCATA
129 CAAAACAAAAGGTTATAACAATTTGAAATAGATAATTATTCAAATAGTCATA
* * * * * *
1851 ATTATTTGAACT-GATTTGGTAAACATATTCAGTTTTTAAATCACTTATT
1 ACTATTTGAATTAG-TTTGGTAAACAGATTTATTTTTTAAATCTCTTATT
1900 TGAATTTGTT
Statistics
Matches: 746, Mismatches: 155, Indels: 87
0.76 0.16 0.09
Matches are distributed among these distances:
173 8 0.01
174 85 0.11
175 9 0.01
176 7 0.01
177 161 0.22
178 13 0.02
179 20 0.03
180 27 0.04
181 295 0.40
182 113 0.15
183 8 0.01
ACGTcount: A:0.40, C:0.07, G:0.10, T:0.42
Consensus pattern (180 bp):
ACTATTTGAATTAGTTTGGTAAACAGATTTATTTTTTAAATCTCTTATTATTAATTTTTGAAATA
TTAATAAATTTATATTATTTTATTCTAAATAAGCTAGTATGAATAGAAAATATTGTTTTATGACA
AAACAAAAGGTTATAACAATTTGAAATAGATAATTATTCAAATAGTCATA
Found at i:2475 original size:181 final size:180
Alignment explanation
Indices: 2030--2484 Score: 484
Period size: 180 Copynumber: 2.5 Consensus size: 180
2020 ATAACTAAAC
* * * * * *
2030 AAAAGATTAAAATGATATGAAATAGATAATTATTCTAATAATTTTAACTATTTGAACTGATTCAG
1 AAAAG-TTATAATGATTTGAAATAGATAATTATTCAAATAATCTAAACTATTTGAACTGGTTCAG
*
2095 TAAACAAATTTATTTTTTAAATCTCTTACTTATTAATTTTTAAAATATTATTAAATTAGTATTAT
65 TAAACAAATTTATTTTTTAAATCTCTTACTTATTAAGTTTTAAAATATTATTAAATTAGTATTAT
** * * *
2160 TTTAATCCAAATAAGCTTGTACGAACAAAGCAATTGTTTTACATTAAAAGA
130 TTTAATCCAAATAAAATAGTACGAACAAACCAATTGTTTGACATTAAAAGA
* * * * * * *
2211 AAAGGTCATAATGATTTGAAATAGATAATCATTCATAGAGTCTTAAA-TATTTGAACTGGTTCAA
1 AAAAGTTATAATGATTTGAAATAGATAATTATTCAAATAATC-TAAACTATTTGAACTGGTTCAG
* ** * * * ** *
2275 CAATTAGATTTATTTTTTAATTTTCTTGGTTATTAAGTTTTGAAATATTATTAAATTAGTATTAT
65 TAAACAAATTTATTTTTTAAATCTCTTACTTATTAAGTTTTAAAATATTATTAAATTAGTATTAT
* * * * *
2340 TTTATTCTAAATAAAATAGTATGAACAGAACCAATTGTTTGATGA-TAAAATA
130 TTTAATCCAAATAAAATAGTACGAACA-AACCAATTGTTTGA-CATTAAAAGA
* * * * **
2392 AAAAGTTATAATGATTTGAAATAAATAATTATTGAAATAATCAAAACTATTTGAAATGGTTTGGT
1 AAAAGTTATAATGATTTGAAATAGATAATTATTCAAATAATCTAAACTATTTGAACTGGTTCAGT
*
2457 AAGCAAATTT-TCTTTTTAAATCTCTTAC
66 AAACAAATTTAT-TTTTTAAATCTCTTAC
2485 AGATTTATTT
Statistics
Matches: 215, Mismatches: 54, Indels: 10
0.77 0.19 0.04
Matches are distributed among these distances:
180 123 0.57
181 91 0.42
182 1 0.00
ACGTcount: A:0.41, C:0.07, G:0.10, T:0.41
Consensus pattern (180 bp):
AAAAGTTATAATGATTTGAAATAGATAATTATTCAAATAATCTAAACTATTTGAACTGGTTCAGT
AAACAAATTTATTTTTTAAATCTCTTACTTATTAAGTTTTAAAATATTATTAAATTAGTATTATT
TTAATCCAAATAAAATAGTACGAACAAACCAATTGTTTGACATTAAAAGA
Found at i:2504 original size:181 final size:180
Alignment explanation
Indices: 1896--2611 Score: 595
Period size: 181 Copynumber: 4.0 Consensus size: 180
1886 TTAAATCACT
* * * * * * *
1896 TATTTGAATTTGTTCGGTAAACAGATTTATTTTTCTAAATCTCTTTCATATTAATTTTCCAAATG
1 TATTTGAACTGGTTCAGTAAACAAATTTATTTTT-TAAATCTCTTACATATTAATTTT-TAAATA
* * * * * * * *
1961 TTAATAAATTAGTATTAATTTATTCTGAATAAGCTTGTGTGAACTGAAATAATTGTTTTATAACT
64 TTAATAAATTAGTATTATTTTATTCTAAATAAACTAGTATGAACAGAAACAATTGTTTTATGACT
* * * * * *
2026 -AAACAAAAGATTAAAATGATATGAAATAGATAATTATTCTAATAATTTTAAC
129 AAAAAAAAAG-TTATAATGATTTGAAATAGATAATTATTCAAATAATCTAAAC
* *
2078 TATTTGAACTGATTCAGTAAACAAATTTATTTTTTAAATCTCTTACTTATTAATTTTTAAAATAT
1 TATTTGAACTGGTTCAGTAAACAAATTTATTTTTTAAATCTCTTACATATTAATTTTT-AAATAT
* * * * * * * * *
2143 TATTAAATTAGTATTATTTTAATCCAAATAAGCTTGTACGAACA-AAGCAATTGTTTTA-CATTA
65 TAATAAATTAGTATTATTTTATTCTAAATAAACTAGTATGAACAGAAACAATTGTTTTATGACTA
* * * * * *
2206 AAAGAAAAGGTCATAATGATTTGAAATAGATAATCATTCATAGAGTCTTAAA-
130 AAA-AAAAAGTTATAATGATTTGAAATAGATAATTATTCAAATAATC-TAAAC
** ** * * * *** *
2258 TATTTGAACTGGTTCAACAATTAGATTTATTTTTTAATTTTCTTGGTTATTAAGTTTTGAAATAT
1 TATTTGAACTGGTTCAGTAAACAAATTTATTTTTTAAATCTCTTACATATTAA-TTTTTAAATAT
* * * *
2323 TATTAAATTAGTATTATTTTATTCTAAATAAAATAGTATGAACAGAACCAATTGTTTGATGA-TA
65 TAATAAATTAGTATTATTTTATTCTAAATAAACTAGTATGAACAGAAACAATTGTTTTATGACTA
* * *
2387 AAATAAAAAGTTATAATGATTTGAAATAAATAATTATTGAAATAATCAAAAC
130 AAA-AAAAAGTTATAATGATTTGAAATAGATAATTATTCAAATAATCTAAAC
* ** * * *
2439 TATTTGAAATGGTTTGGTAAGCAAATTT-TCTTTTTAAATCTCTTACAGATTTATTTTCTAAATA
1 TATTTGAACTGGTTCAGTAAACAAATTTAT-TTTTTAAATCTCTTACATATTAATTTT-TAAATA
** * * * *
2503 TTAATAAAACAATATTATTTTATT-TCAAACAAACTTA-TATCAACAAAAACAATTGTTTTATGA
64 TTAATAAATTAGTATTATTTTATTCT-AAATAAAC-TAGTATGAACAGAAACAATTGTTTTATGA
* * * * *
2566 C-AAAACAAAAAATAATAACGATTTAAAATAGATAATTGTTCAAATA
127 CTAAAA-AAAAAGTTATAATGATTTGAAATAGATAATTATTCAAATA
2612 GTTATAATTA
Statistics
Matches: 424, Mismatches: 97, Indels: 27
0.77 0.18 0.05
Matches are distributed among these distances:
179 2 0.00
180 139 0.33
181 251 0.59
182 32 0.08
ACGTcount: A:0.42, C:0.08, G:0.09, T:0.41
Consensus pattern (180 bp):
TATTTGAACTGGTTCAGTAAACAAATTTATTTTTTAAATCTCTTACATATTAATTTTTAAATATT
AATAAATTAGTATTATTTTATTCTAAATAAACTAGTATGAACAGAAACAATTGTTTTATGACTAA
AAAAAAAGTTATAATGATTTGAAATAGATAATTATTCAAATAATCTAAAC
Found at i:3190 original size:44 final size:40
Alignment explanation
Indices: 3134--3213 Score: 106
Period size: 44 Copynumber: 1.9 Consensus size: 40
3124 TGATATATAA
*
3134 TAATTTATTATAATTAATATACTTTATTAATAATAATTAATAT
1 TAATTTATTATAATTAATATA--TAATTAAT-ATAATTAATAT
*
3177 TAATTGTATTATAATTATTATATAATTAATATAATTA
1 TAATT-TATTATAATTAATATATAATTAATATAATTA
3214 TTATACTATT
Statistics
Matches: 34, Mismatches: 2, Indels: 4
0.85 0.05 0.10
Matches are distributed among these distances:
41 7 0.21
42 7 0.21
43 5 0.15
44 15 0.44
ACGTcount: A:0.46, C:0.01, G:0.01, T:0.51
Consensus pattern (40 bp):
TAATTTATTATAATTAATATATAATTAATATAATTAATAT
Found at i:3200 original size:11 final size:11
Alignment explanation
Indices: 3186--3218 Score: 52
Period size: 11 Copynumber: 3.2 Consensus size: 11
3176 TTAATTGTAT
3186 TATAATTATTA
1 TATAATTATTA
3197 TATAATTA--A
1 TATAATTATTA
3206 TATAATTATTA
1 TATAATTATTA
3217 TA
1 TA
3219 CTATTATGTT
Statistics
Matches: 20, Mismatches: 0, Indels: 4
0.83 0.00 0.17
Matches are distributed among these distances:
9 9 0.45
11 11 0.55
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (11 bp):
TATAATTATTA
Found at i:3224 original size:20 final size:20
Alignment explanation
Indices: 3128--3218 Score: 70
Period size: 20 Copynumber: 4.7 Consensus size: 20
3118 TTAGATTGAT
*
3128 ATATAATAATTTATTATAATTA
1 ATATAATTA-TTA-TATAATTA
*
3150 ATATACTTTATTA-ATAA-TA
1 ATATA-ATTATTATATAATTA
3169 AT-TAA-TATTA-AT--TGTA
1 ATATAATTATTATATAAT-TA
*
3185 TTATAATTATTATATAATTA
1 ATATAATTATTATATAATTA
3205 ATATAATTATTATA
1 ATATAATTATTATA
3219 CTATTATGTT
Statistics
Matches: 56, Mismatches: 5, Indels: 18
0.71 0.06 0.23
Matches are distributed among these distances:
16 10 0.18
17 3 0.05
18 7 0.12
19 6 0.11
20 19 0.34
21 1 0.02
22 8 0.14
23 2 0.04
ACGTcount: A:0.47, C:0.01, G:0.01, T:0.51
Consensus pattern (20 bp):
ATATAATTATTATATAATTA
Found at i:4376 original size:181 final size:181
Alignment explanation
Indices: 3371--4951 Score: 1248
Period size: 181 Copynumber: 8.8 Consensus size: 181
3361 GATAATCTTC
* * * ** *
3371 TACTTATTAATTTTTGAAATATTAATAAACTAGTATTATTTTA-TTCTAATTAGGCTTGTATG-A
1 TACTTATTAATTTTTAAAATATTAATAAATTAGTATTATTTTATTTCGAA-TAAACTTTTATGAA
* * * * * ** * *
3434 TGAAAAACAATTG--TTA-AACAAACCAAAAGTTCAAAATAATTGGAAATAGATAATTGTTCAAA
65 T-AGAAACAATTGTTTTATGACAAAACAAAAGGTCATAACGATTTGAAATAGATAATTATTCAAA
* * * * * *
3496 T-GGCTATAACTATTT-AAATTGATTCGATAAA-ATGATTTATGTTTTAAATCTCC
129 TAGTC-ATAACTATTTGAACTTG-TTCGGTAAACA-GATTTATTTTTTAAATATCT
* * * * * * * * *
3549 AACTTCTTAACTTTTGAAATATTAATAAAGTAATATTATTTTATTTTGGATAAGCTTTTATGAA-
1 TACTTATTAATTTTTAAAATATTAATAAATTAGTATTATTTTATTTCGAATAAACTTTTATGAAT
* * * *
3613 ATGAAACAATTGTTTTATGATAAAACAAAAGGTCATAACGATTTTAAA-ATGATAATTGTTTAAA
66 A-GAAACAATTGTTTTATGACAAAACAAAAGGTCATAACGATTTGAAATA-GATAATTATTCAAA
* *
3677 TAGTCATAACTATTTAAACTTGTTTGGTAAACAGATTTATTTTTT-AAT-TCCT
129 TAGTCATAACTATTTGAACTTGTTCGGTAAACAGATTTATTTTTTAAATAT-CT
** * * ** *
3729 TACTTATTAATTTTTTGAATGTTAATAAAATAGTATTATTTTATTTCGAATAAAGATGTATGAAC
1 TACTTATTAATTTTTAAAATATTAATAAATTAGTATTATTTTATTTCGAATAAACTTTTATGAA-
* * ** *
3794 T-G-AACAATTATTTTATGACTAAACAAAAGGTCGGAATGATTTGAAATAGATAATTATT-ATAA
65 TAGAAACAATTGTTTTATGACAAAACAAAAGGTCATAACGATTTGAAATAGATAATTATTCA-AA
* * *** * * *
3856 TAGTCTTAATTATTTGAA-TTGGTTCAACAAATACATTTATTTTTTAAATCTCT
129 TAGTCATAACTATTTGAACTT-GTTCGGTAAACAGATTTATTTTTTAAATATCT
* * ** * * * * * *
3909 TACTTATTAATTTTTAGAATATTATTAGTTTAGCAATATTTTACTCCGAAT-AAGTTTGTATGGA
1 TACTTATTAATTTTTAAAATATTAATAAATTAGTATTATTTTATTTCGAATAAACTTT-TATGAA
* * * * *
3973 CAGAAATAATTGTTTTATGACAAAAC-AAAGATCAT-ACTGATTGGAGATAGATAATTATTCAAA
65 TAGAAACAATTGTTTTATGACAAAACAAAAGGTCATAAC-GATTTGAAATAGATAATTATTCAAA
* * * *
4036 TAGTCATAACTATTTGAA-TTAGTCCGATAAACAGATATAGTTTTT-AA-ATC-
129 TAGTCATAACTATTTGAACTT-GTTCGGTAAACAGATTTATTTTTTAAATATCT
* *
4086 T-CTTATTAATTTTCAAAATATTAATAAATTAGTATTATTTTATTTTGAA-ATAA-TTATGTATG
1 TACTTATTAATTTTTAAAATATTAATAAATTAGTATTATTTTATTTCGAATA-AACTT-T-TATG
* * * *
4148 AATAGAAACAATTGTTTTATTACAAAAC-AAAGGATCATAACGATTTGAAATAAATATTTATTTA
63 AATAGAAACAATTGTTTTATGACAAAACAAAAGG-TCATAACGATTTGAAATAGATAATTATTCA
* *** * * *
4212 AATAGTCATAATTATTTGAACTCACTCGCTAAACAAATTTATTTTTTAAATATTT
127 AATAGTCATAACTATTTGAACTTGTTCGGTAAACAGATTTATTTTTTAAATATCT
* * *
4267 TTCTTATTAATTTTTAAAATTTTAGTAAATTAGTATTATTTTATTTCGAATAAACTTTTATGAAT
1 TACTTATTAATTTTTAAAATATTAATAAATTAGTATTATTTTATTTCGAATAAACTTTTATGAAT
*
4332 AGAAACAATT-TGTTTATGACAAAACAAAAGGTCATAATGATTTGAAATAGATAATTATTCAAAT
66 AGAAACAATTGT-TTTATGACAAAACAAAAGGTCATAACGATTTGAAATAGATAATTATTCAAAT
* * * *** * * * * * * *
4396 GGTCATAATTATTTTGAACGTGTTCAAAAAACAAATATAATCTATATAT-TTT
130 AGTCATAACTA-TTTGAACTTGTTCGGTAAACAGATTTATTTTTTAAATATCT
* * ** * * * **
4448 TACTTACTAATCTTTGGAATATTAGTAAATTTA-TATTATTTCATTT-GAAATAAGCTTGCATGA
1 TACTTATTAATTTTTAAAATATTAATAAA-TTAGTATTATTTTATTTCG-AATAAACTTTTATGA
* * * * *
4511 ACAGAAACAATTTTTTTATGGCAAAACAAAAGGTCATAACAATTTGAAATAGATAATTGTTCAAA
64 ATAGAAACAATTGTTTTATGACAAAACAAAAGGTCATAACGATTTGAAATAGATAATTATTCAAA
* * * *
4576 TAGTCATAACTATTTGAACTTGTTTGGTAAATAGATTCCA-TTTTTAAATCTCT
129 TAGTCATAACTATTTGAACTTGTTCGGTAAACAGATT-TATTTTTTAAATATCT
** ** * * * * *
4629 TACTCGTTAATTTTTTGAATAGTAATAAGTTAGTATTATTTTATTTCGAATAAGCGTATATGAAT
1 TACTTATTAATTTTTAAAATATTAATAAATTAGTATTATTTTATTTCGAATAAACTTTTATGAAT
* * * *** * *
4694 TGATATAATTGTTTTATGGTGAAACAAAAGGTCATAACGATTTAAAATAGATAATTATTCAGATA
66 AGAAACAATTGTTTTATGACAAAACAAAAGGTCATAACGATTTGAAATAGATAATTATTCAAATA
* * * * * *
4759 CTTATTACTATTTGAACTTGTTCGGTAAACATATTTATTTTTTAAATCTTT
131 GTCATAACTATTTGAACTTGTTCGGTAAACAGATTTATTTTTTAAATATCT
* * * * * * * ** * *
4810 TACTTATTAATTGTTGAAATATTAATAAATTAATATTATTTTAATCCAAATAAGCTAATATGTAC
1 TACTTATTAATTTTTAAAATATTAATAAATTAGTATTATTTTATTTCGAATAAACTTTTATGAAT
* * * * * *
4875 AAAAATAATTGTTTTATGACAAAACAAAAGGTCATAATGATTTAAAATAAATAATTGTTTC-AAT
66 AGAAACAATTGTTTTATGACAAAACAAAAGGTCATAACGATTTGAAATAGATAATT-ATTCAAAT
4939 AGTCATAACTATT
130 AGTCATAACTATT
4952 CAAAATTATT
Statistics
Matches: 1123, Mismatches: 233, Indels: 91
0.78 0.16 0.06
Matches are distributed among these distances:
176 40 0.04
177 38 0.03
178 120 0.11
179 98 0.09
180 205 0.18
181 526 0.47
182 93 0.08
183 3 0.00
ACGTcount: A:0.40, C:0.08, G:0.10, T:0.41
Consensus pattern (181 bp):
TACTTATTAATTTTTAAAATATTAATAAATTAGTATTATTTTATTTCGAATAAACTTTTATGAAT
AGAAACAATTGTTTTATGACAAAACAAAAGGTCATAACGATTTGAAATAGATAATTATTCAAATA
GTCATAACTATTTGAACTTGTTCGGTAAACAGATTTATTTTTTAAATATCT
Found at i:4592 original size:362 final size:360
Alignment explanation
Indices: 3371--4951 Score: 1384
Period size: 362 Copynumber: 4.4 Consensus size: 360
3361 GATAATCTTC
* * * *
3371 TACTTATTAATTTTTGAAATATTAATAAACTAGTATTATTTTATTCT-AATTAGGCTTGTATGAT
1 TACTTATTAA-TTTTGAAATATTAATAAATTAGTATTATTTTATT-TGAAATAAGCTTGTATGAA
* * * * * * * *
3435 GAAAAACAATTG--TTA-AACAAACCAAAAGTTCAAAATAATTGGAAATAGATAATTGTTCAAAT
64 CAGAAACAATTGTTTTATGACAAAACAAAAGGTCATAATGATTTGAAATAGATAATTGTTCAAAT
* * * * * ** * *
3497 -GGCTATAACTATTTAAATTGATTCGATAAA-ATGATTTATGTTTTAAATCTCCAACTTCTTAAC
129 AGTC-ATAACTATTTGAACTGATTCGCTAAATA-GATTTATTTTTTAAATCTCTTACTTATTAAT
* * * * * *
3560 TTTTGAAATATTAATAAAGTAATATTATTTTATTTTGGATAAGCTTTTATGAA-ATGAAACAATT
192 TTTTAAAATATTAATAAATTAGTATTATTTTATTTCGAATAAACTTTTATGAATA-GAAACAATT
* * * *
3624 GTTTTATGATAAAACAAAAGGTCATAACGATTTTAAA-ATGATAATTGTTTAAATAGTCATAACT
256 GTTTTATGACAAAACAAAAGGTCATAACGATTTGAAATA-GATAATTATTCAAATAGTCATAACT
* * * * *
3688 ATTTAAACTTGTTTGGTAAACAGATTTATTTTTTA-ATTCCT
320 ATTTGAACTTGTTCGATAAACAGATATATTTTTTATATT-TT
* * *
3729 TACTTATTAATTTTTTG-AATGTTAATAAAATAGTATTATTTTATTTCG-AATAAAG-ATGTATG
1 TACTTATTAA--TTTTGAAATATTAATAAATTAGTATTATTTTATTT-GAAAT-AAGCTTGTATG
* * * ** *
3791 AACTG-AACAATTATTTTATGACTAAACAAAAGGTCGGAATGATTTGAAATAGATAATTATT-AT
62 AACAGAAACAATTGTTTTATGACAAAACAAAAGGTCATAATGATTTGAAATAGATAATTGTTCA-
* * * * * *
3854 AATAGTCTTAATTATTTGAATTGGTTCAAC-AAATACATTTATTTTTTAAATCTCTTACTTATTA
126 AATAGTCATAACTATTTGAACTGATTC-GCTAAATAGATTTATTTTTTAAATCTCTTACTTATTA
* * ** * * * * * * * *
3918 ATTTTTAGAATATTATTAGTTTAGCAATATTTTACTCCGAAT-AAGTTTGTATGGACAGAAATAA
190 ATTTTTAAAATATTAATAAATTAGTATTATTTTATTTCGAATAAACTTT-TATGAATAGAAACAA
* * *
3982 TTGTTTTATGACAAAAC-AAAGATCAT-ACTGATTGGAGATAGATAATTATTCAAATAGTCATAA
254 TTGTTTTATGACAAAACAAAAGGTCATAAC-GATTTGAAATAGATAATTATTCAAATAGTCATAA
* * * *
4045 CTATTTGAA-TTAGTCCGATAAACAGATATAGTTTTTA-A-ATC
318 CTATTTGAACTT-GTTCGATAAACAGATATATTTTTTATATTTT
* *
4086 T-CTTATTAATTTTCAAAATATTAATAAATTAGTATTATTTTATTTTGAAATAA-TTATGTATGA
1 TACTTATTAATTTT-GAAATATTAATAAATTAGTATTATTTTA-TTTGAAATAAGCT-TGTATGA
* * * * * * *
4149 ATAGAAACAATTGTTTTATTACAAAAC-AAAGGATCATAACGATTTGAAATAAATATTTATTTAA
63 ACAGAAACAATTGTTTTATGACAAAACAAAAGG-TCATAATGATTTGAAATAGATAATTGTTCAA
* * * * * * * *
4213 ATAGTCATAATTATTTGAACTCACTCGCTAAACAAATTTATTTTTTAAATATTTTTCTTATTAAT
127 ATAGTCATAACTATTTGAACTGATTCGCTAAATAGATTTATTTTTTAAATCTCTTACTTATTAAT
* *
4278 TTTTAAAATTTTAGTAAATTAGTATTATTTTATTTCGAATAAACTTTTATGAATAGAAACAATT-
192 TTTTAAAATATTAATAAATTAGTATTATTTTATTTCGAATAAACTTTTATGAATAGAAACAATTG
* * *
4342 TGTTTATGACAAAACAAAAGGTCATAATGATTTGAAATAGATAATTATTCAAATGGTCATAATTA
257 T-TTTATGACAAAACAAAAGGTCATAACGATTTGAAATAGATAATTATTCAAATAGTCATAACTA
* * * * * * *
4407 TTTTGAACGTGTTCAAAAAACAAATATAATCTATATATTTT
321 -TTTGAACTTGTTCGATAAACAGATATATTTTTTATATTTT
* * * * *
4448 TACTTACTAATCTTTGGAATATTAGTAAATTTA-TATTATTTCATTTGAAATAAGCTTGCATGAA
1 TACTTATTAAT-TTTGAAATATTAATAAA-TTAGTATTATTTTATTTGAAATAAGCTTGTATGAA
* * **
4512 CAGAAACAATTTTTTTATGGCAAAACAAAAGGTCATAACAATTTGAAATAGATAATTGTTCAAAT
64 CAGAAACAATTGTTTTATGACAAAACAAAAGGTCATAATGATTTGAAATAGATAATTGTTCAAAT
* * * **
4577 AGTCATAACTATTTGAACTTG-TTTGGTAAATAGATTCCA-TTTTTAAATCTCTTACTCGTTAAT
129 AGTCATAACTATTTGAAC-TGATTCGCTAAATAGATT-TATTTTTTAAATCTCTTACTTATTAAT
** * * * * * * * *
4640 TTTTTGAATAGTAATAAGTTAGTATTATTTTATTTCGAATAAGCGTATATGAATTGATATAATTG
192 TTTTAAAATATTAATAAATTAGTATTATTTTATTTCGAATAAACTTTTATGAATAGAAACAATTG
*** * * * * *
4705 TTTTATGGTGAAACAAAAGGTCATAACGATTTAAAATAGATAATTATTCAGATACTTATTACTAT
257 TTTTATGACAAAACAAAAGGTCATAACGATTTGAAATAGATAATTATTCAAATAGTCATAACTAT
* * * *
4770 TTGAACTTGTTCGGTAAACATATTTATTTTTTAAATCTTT
322 TTGAACTTGTTCGATAAACAGATATATTTTTTATAT-TTT
* * ** ** *
4810 TACTTATTAATTGTTGAAATATTAATAAATTAATATTATTTTAATCCAAATAAGCTAATATGTAC
1 TACTTATTAATT-TTGAAATATTAATAAATTAGTATTATTTTATTTGAAATAAGCTTGTATGAAC
* * * *
4875 AAAAATAATTGTTTTATGACAAAACAAAAGGTCATAATGATTTAAAATAAATAATTGTTTC-AAT
65 AGAAACAATTGTTTTATGACAAAACAAAAGGTCATAATGATTTGAAATAGATAATTG-TTCAAAT
4939 AGTCATAACTATT
129 AGTCATAACTATT
4952 CAAAATTATT
Statistics
Matches: 977, Mismatches: 200, Indels: 88
0.77 0.16 0.07
Matches are distributed among these distances:
354 4 0.00
356 35 0.04
357 31 0.03
358 202 0.21
359 127 0.13
360 160 0.16
361 37 0.04
362 335 0.34
363 40 0.04
364 6 0.01
ACGTcount: A:0.40, C:0.08, G:0.10, T:0.41
Consensus pattern (360 bp):
TACTTATTAATTTTGAAATATTAATAAATTAGTATTATTTTATTTGAAATAAGCTTGTATGAACA
GAAACAATTGTTTTATGACAAAACAAAAGGTCATAATGATTTGAAATAGATAATTGTTCAAATAG
TCATAACTATTTGAACTGATTCGCTAAATAGATTTATTTTTTAAATCTCTTACTTATTAATTTTT
AAAATATTAATAAATTAGTATTATTTTATTTCGAATAAACTTTTATGAATAGAAACAATTGTTTT
ATGACAAAACAAAAGGTCATAACGATTTGAAATAGATAATTATTCAAATAGTCATAACTATTTGA
ACTTGTTCGATAAACAGATATATTTTTTATATTTT
Found at i:6141 original size:7 final size:7
Alignment explanation
Indices: 6125--6245 Score: 68
Period size: 7 Copynumber: 16.7 Consensus size: 7
6115 TTAATTAGTT
6125 TTAATAA
1 TTAATAA
*
6132 TTAATTA
1 TTAATAA
*
6139 TTAAAATA
1 TTAATA-A
6147 TTAATAA
1 TTAATAA
* *
6154 TTATTAT
1 TTAATAA
6161 TTAATAA
1 TTAATAA
6168 TTAAT-A
1 TTAATAA
*
6174 TCAATAATA
1 TTAAT-A-A
6183 TTAA-AA
1 TTAATAA
*
6189 TTGATAA
1 TTAATAA
* *
6196 TATAGTTA
1 T-TAATAA
6204 TTAAT-A
1 TTAATAA
6210 TTAATAAA
1 TTAAT-AA
*
6218 TTATTAA
1 TTAATAA
*
6225 TTAATAT
1 TTAATAA
6232 TTCAATATA
1 TT-AATA-A
6241 TTAAT
1 TTAAT
6246 TTTATTTGAA
Statistics
Matches: 85, Mismatches: 19, Indels: 19
0.69 0.15 0.15
Matches are distributed among these distances:
6 15 0.18
7 42 0.49
8 22 0.26
9 6 0.07
ACGTcount: A:0.50, C:0.02, G:0.02, T:0.47
Consensus pattern (7 bp):
TTAATAA
Found at i:6161 original size:21 final size:20
Alignment explanation
Indices: 6125--6232 Score: 78
Period size: 21 Copynumber: 5.1 Consensus size: 20
6115 TTAATTAGTT
6125 TTAATAATTAATTATTAAAATA
1 TTAATAATT-ATTATT-AAATA
*
6147 TTAATAATTATTATTTAATAA
1 TTAATAATTATTATTAAAT-A
* *
6168 TTAATATCAATAATATTAAA-A
1 TTAATA--ATTATTATTAAATA
*
6189 TTGATAATATAGTTATT-AATA
1 TTAATAAT-TA-TTATTAAATA
6210 TTAATAAATTATTAATT-AATA
1 TTAAT-AATTATT-ATTAAATA
6231 TT
1 TT
6233 TCAATATATT
Statistics
Matches: 70, Mismatches: 8, Indels: 17
0.74 0.08 0.18
Matches are distributed among these distances:
19 1 0.01
20 9 0.13
21 39 0.56
22 12 0.17
23 9 0.13
ACGTcount: A:0.50, C:0.01, G:0.02, T:0.47
Consensus pattern (20 bp):
TTAATAATTATTATTAAATA
Found at i:6171 original size:36 final size:36
Alignment explanation
Indices: 6116--6245 Score: 124
Period size: 36 Copynumber: 3.6 Consensus size: 36
6106 ATTCAAATAT
*
6116 TAATTAGT-TTTAATAATTAATTATTAA-AATATTAA
1 TAATTATTATTTAATAATTAA-TATTAATAATATTAA
*
6151 TAATTATTATTTAATAATTAATATCAATAATATTAA
1 TAATTATTATTTAATAATTAATATTAATAATATTAA
* * * * *
6187 -AATTGATAATATAGTTATTAATATTAATAA-ATTAT
1 TAATT-ATTATTTAATAATTAATATTAATAATATTAA
*
6222 TAATTAATATTTCAATATATTAAT
1 TAATTATTATTT-AATA-ATTAAT
6246 TTTATTTGAA
Statistics
Matches: 76, Mismatches: 13, Indels: 10
0.77 0.13 0.10
Matches are distributed among these distances:
35 24 0.32
36 46 0.61
37 6 0.08
ACGTcount: A:0.48, C:0.02, G:0.02, T:0.48
Consensus pattern (36 bp):
TAATTATTATTTAATAATTAATATTAATAATATTAA
Found at i:7239 original size:182 final size:181
Alignment explanation
Indices: 6410--8074 Score: 1248
Period size: 181 Copynumber: 9.3 Consensus size: 181
6400 ATTATGTCAA
* * * * * * *
6410 AATACTAATTTGTTAATATTTTGACAATTAATAAGTAAAAAATTTTAAAAATAAATATGTTTACC
1 AATACTAATTTATTAATATTCTGAAAATTAATAAGTAAGAGATTTAAAAAATAAATATATTTACC
* * * * * * *
6475 -ACACTAGATCAAATAATCACGACAATTTGAATAATTATCTA-TT----TCA--ATGACCTTTTG
66 GA-ACAAGTTCAAATAGTTATGACTATTTGAACAATTATCTATTTCAAATCATTATGACCTTTTG
* * * * * *
6532 CTTTGTCATAAAAGAATTGTTTCAATTCATATAAACTTA-TTCAAAATAAAAT
130 TTTTGTCATAAAACAATTATTTCTATTCATACAAGCTTATTTC-AAATAAAAT
* * * * * * * *
6584 AATACTAATTTATTAATAATC-CAAAATTTTATAA-TAAAGAGATTTAAAAAATGACTCTGTTTT
1 AATACTAATTTATTAATATTCTGAAAA-TTAATAAGT-AAGAGATTTAAAAAATAAATATATTTA
** * * * * * * * * ** *
6647 CTAAACAAATTTAAATAATTAGGACTGTTTAAATAATTATCTATTTGAAAT-AGCCATAACCTTT
64 CCGAACAAGTTCAAATAGTTATGACTATTTGAACAATTATCTATTTCAAATCA-TTATGACCTTT
* * * * *
6711 TGTTTTGTCATACAAGAATTTTTTTTTTGTTCAT-CTAAGCTTATTTCAAATAAAAT
128 TGTTTTGTCATAAAACAA--TTATTTCTATTCATAC-AAGCTTATTTCAAATAAAAT
** * * * *
6767 AATAC-ATATTTATTAATATTAAGACAATTAATAAGTAAAAGATTTAAAAAATAAATTTGTTTAC
1 AATACTA-ATTTATTAATATTCTGAAAATTAATAAGTAAGAGATTTAAAAAATAAATATATTTAC
* * * * * * ** *
6831 CAAACAAGTTCAAATCA-TTATGGCAATTTGAGCAATTATTTATTTCAACTTGTTATGACTTTTT
65 CGAACAAGTTCAAAT-AGTTATGACTATTTGAACAATTATCTATTTCAAATCATTATGACCTTTT
* *
6895 GTTTTGTCATAAAACAATTATTTCTATTCATACAAGTTTA-TTCAGATTAAAAT
129 GTTTTGTCATAAAACAATTATTTCTATTCATACAAGCTTATTTCA-AATAAAAT
* * * ** * *
6948 AATATTAATTTATAAATATTTTGATCATTAATAAGTAAAAGATTTAAAAAATAAATATATTTACT
1 AATACTAATTTATTAATATTCTGAAAATTAATAAGTAAGAGATTTAAAAAATAAATATATTTACC
* * * * *
7013 AAACAAGTTCAAATAGTCATGAATATTTGAATAATTATCTATTTCAAATCATTATGACCTTTTCT
66 GAACAAGTTCAAATAGTTATGACTATTTGAACAATTATCTATTTCAAATCATTATGACCTTTTGT
* * * * * * * * *
7078 TTTGTAATAAAAACACTTGTTTCAATTCTTATAAGCTTATTTGAAGTAAGAT
131 TTTGTCAT-AAAACAATTATTTCTATTCATACAAGCTTATTTCAAATAAAAT
* * * *
7130 AATACTAATTCATTAATATTCTGAAAATTAATGAGTAAGAGAATTTAAAAAA-GAATATGTTTAC
1 AATACTAATTTATTAATATTCTGAAAATTAATAAGTAAGAG-ATTTAAAAAATAAATATATTTAC
* * * * *
7194 CGAATAAGTTCAAATAGTTATGACTATCTGAACAATTATCTATTTCAAAACATTACGATCTTTTG
65 CGAACAAGTTCAAATAGTTATGACTATTTGAACAATTATCTATTTCAAATCATTATGACCTTTTG
* * ** * * * *
7259 TTTTGTCATTAAACAGTTGGTTATGCTT-ATGCAAGCTTATTTCAAATAAAGT
130 TTTTGTCATAAAACAATTATTTCT-ATTCATACAAGCTTATTTCAAATAAAAT
* ** * * *
7311 AAT-TTAAATTTATTAATATTCCAAAAATTAATAAGTAA-A-ACTTAAAAATATATATATATTTT
1 AATACT-AATTTATTAATATTCTGAAAATTAATAAGTAAGAGATTTAAAAA-ATAAATATATTTA
* * * **
7373 CTGAACAATTTCAAATAGTTATGACTATTTGAAGAATTATCTATTTCAAATTGTTATGACCTTTT
64 CCGAACAAGTTCAAATAGTTATGACTATTTGAACAATTATCTATTTCAAATCATTATGACCTTTT
* * * * * *
7438 GTTTTGTCATAAACCAACTGTTTCTATTCATAAAAGCTTTTTTGAAATAAAAT
129 GTTTTGTCATAAAACAATTATTTCTATTCATACAAGCTTATTTCAAATAAAAT
* * * * * * *
7491 AATACTAATTTTTTAAAATTCTAAAAAATTAATAAGTAAAACATTTAAAAAATAAATCTTTTTAC
1 AATACTAATTTATTAATATTCT-GAAAATTAATAAGTAAGAGATTTAAAAAATAAATATATTTAC
* * * * * * *
7556 TGAGA-GAGTTCAAATAGTTATGACTATTGGAATAATTTTTTATTTCAAATCATTATGATCTTTT
65 CGA-ACAAGTTCAAATAGTTATGACTATTTGAACAATTATCTATTTCAAATCATTATGACCTTTT
* ** *
7620 GTTTTGTCAT-AAACAATTATTTCTATTCACACAATTTTATTTGAAATAAAAT
129 GTTTTGTCATAAAACAATTATTTCTATTCATACAAGCTTATTTCAAATAAAAT
* * ** * *
7672 AATACTAATTTATTAGTATTCTAAAAATTAATAAGTTTGAGATTTAAAAAATAAATTTGTTTACC
1 AATACTAATTTATTAATATTCTGAAAATTAATAAGTAAGAGATTTAAAAAATAAATATATTTACC
* * * ** * * * *
7737 AAACAAGTTTAAATAGTCATGTTTATTTGAACTATTATTTATTTCAAATCATAATGACATTTTGT
66 GAACAAGTTCAAATAGTTATGACTATTTGAACAATTATCTATTTCAAATCATTATGACCTTTTGT
** * *
7802 TTTGTTGTAAAACAATTATTTCTGTTCATGTACAA--TTA-TTCATAATATAAT
131 TTTGTCATAAAACAATTATTTCTATTCA--TACAAGCTTATTTCA-AATAAAAT
* * * *
7853 AATACTAATCTATTAATATTTTGATAA-T--TAA-TAAGAGATTTAAAAACA-AAATCTATTTAC
1 AATACTAATTTATTAATATTCTGAAAATTAATAAGTAAGAGATTTAAAAA-ATAAATATATTTAC
* * * * * *
7913 CGAA-ATAGTTCAAATATTTATGCCTATTTGAATAATTATCTATCTCAAATCTTTATGATC-TTT
65 CGAACA-AGTTCAAATAGTTATGACTATTTGAACAATTATCTATTTCAAATCATTATGACCTTTT
* * * *** * * *
7976 ATTTTGTCATAAAACAA-GAGTTTCTTTTCATATTGGCTT-CTTCAATTCAAAT
129 GTTTTGTCATAAAACAATTA-TTTCTATTCATACAAGCTTATTTCAAATAAAAT
* * *
8028 AATACTAATTTAATAATATTC--CAAA--AATTAGTAAGAGATTTAAAAAA
1 AATACTAATTTATTAATATTCTGAAAATTAATAAGTAAGAGATTTAAAAAA
8075 AATAGTTAAA
Statistics
Matches: 1180, Mismatches: 260, Indels: 102
0.77 0.17 0.07
Matches are distributed among these distances:
173 6 0.01
174 80 0.07
175 42 0.04
176 33 0.03
177 67 0.06
178 13 0.01
179 5 0.00
180 219 0.19
181 338 0.29
182 214 0.18
183 155 0.13
184 8 0.01
ACGTcount: A:0.41, C:0.10, G:0.08, T:0.41
Consensus pattern (181 bp):
AATACTAATTTATTAATATTCTGAAAATTAATAAGTAAGAGATTTAAAAAATAAATATATTTACC
GAACAAGTTCAAATAGTTATGACTATTTGAACAATTATCTATTTCAAATCATTATGACCTTTTGT
TTTGTCATAAAACAATTATTTCTATTCATACAAGCTTATTTCAAATAAAAT
Found at i:8592 original size:22 final size:22
Alignment explanation
Indices: 8566--8612 Score: 60
Period size: 22 Copynumber: 2.1 Consensus size: 22
8556 TAATTTACTA
8566 ATATTCTAA-ATATTAATTAAAG
1 ATATTCTAATATATTAATT-AAG
* *
8588 ATATTTTAATTTATTAATTAAG
1 ATATTCTAATATATTAATTAAG
8610 ATA
1 ATA
8613 ATAATTAAAT
Statistics
Matches: 22, Mismatches: 2, Indels: 2
0.85 0.08 0.08
Matches are distributed among these distances:
22 14 0.64
23 8 0.36
ACGTcount: A:0.47, C:0.02, G:0.04, T:0.47
Consensus pattern (22 bp):
ATATTCTAATATATTAATTAAG
Found at i:8634 original size:19 final size:18
Alignment explanation
Indices: 8610--8652 Score: 54
Period size: 19 Copynumber: 2.4 Consensus size: 18
8600 ATTAATTAAG
*
8610 ATAATAATTAAATTACTAT
1 ATAATAATTAAA-TAATAT
8629 ATAATAA-TAAATAATAT
1 ATAATAATTAAATAATAT
8646 -TAATAAT
1 ATAATAAT
8653 ATTTAATAAT
Statistics
Matches: 22, Mismatches: 1, Indels: 4
0.81 0.04 0.15
Matches are distributed among these distances:
16 6 0.27
17 5 0.23
18 4 0.18
19 7 0.32
ACGTcount: A:0.58, C:0.02, G:0.00, T:0.40
Consensus pattern (18 bp):
ATAATAATTAAATAATAT
Found at i:8658 original size:10 final size:9
Alignment explanation
Indices: 8630--8700 Score: 55
Period size: 9 Copynumber: 8.3 Consensus size: 9
8620 AATTACTATA
8630 TAATAATA-
1 TAATAATAT
8638 -AATAATAT
1 TAATAATAT
8646 TAATAATAT
1 TAATAATAT
8655 T--TAATAAT
1 TAATAAT-AT
*
8663 TATTAAT-T
1 TAATAATAT
8671 TAATAATAT
1 TAATAATAT
* *
8680 TACTAACATT
1 TAATAATA-T
8690 TAATAAT-T
1 TAATAATAT
8698 TAA
1 TAA
8701 GTACTACTAA
Statistics
Matches: 51, Mismatches: 5, Indels: 14
0.73 0.07 0.20
Matches are distributed among these distances:
7 11 0.22
8 14 0.27
9 16 0.31
10 10 0.20
ACGTcount: A:0.52, C:0.03, G:0.00, T:0.45
Consensus pattern (9 bp):
TAATAATAT
Found at i:8927 original size:14 final size:15
Alignment explanation
Indices: 8908--8944 Score: 53
Period size: 14 Copynumber: 2.7 Consensus size: 15
8898 TATAATTAAT
8908 TTAATTAATAT-TTA
1 TTAATTAATATATTA
8922 TTAATTAA-ATATTA
1 TTAATTAATATATTA
8936 TT-ATTAATA
1 TTAATTAATA
8945 AAATAATAGT
Statistics
Matches: 21, Mismatches: 0, Indels: 4
0.84 0.00 0.16
Matches are distributed among these distances:
13 7 0.33
14 14 0.67
ACGTcount: A:0.46, C:0.00, G:0.00, T:0.54
Consensus pattern (15 bp):
TTAATTAATATATTA
Found at i:8941 original size:17 final size:15
Alignment explanation
Indices: 8908--8949 Score: 50
Period size: 17 Copynumber: 2.7 Consensus size: 15
8898 TATAATTAAT
8908 TTAATT-AATATTTA
1 TTAATTAAATATTTA
8922 TTAATTAAATATTATTA
1 TTAATTAAATA-T-TTA
*
8939 TTAATAAAATA
1 TTAATTAAATA
8950 ATAGTATTAT
Statistics
Matches: 24, Mismatches: 1, Indels: 3
0.86 0.04 0.11
Matches are distributed among these distances:
14 6 0.25
15 4 0.17
16 1 0.04
17 13 0.54
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (15 bp):
TTAATTAAATATTTA
Found at i:8957 original size:17 final size:17
Alignment explanation
Indices: 8920--8958 Score: 51
Period size: 17 Copynumber: 2.3 Consensus size: 17
8910 AATTAATATT
* * *
8920 TATTAATTAAATATTAT
1 TATTAATAAAATAATAG
8937 TATTAATAAAATAATAG
1 TATTAATAAAATAATAG
8954 TATTA
1 TATTA
8959 TTTTAAATGT
Statistics
Matches: 19, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
17 19 1.00
ACGTcount: A:0.51, C:0.00, G:0.03, T:0.46
Consensus pattern (17 bp):
TATTAATAAAATAATAG
Found at i:9335 original size:19 final size:18
Alignment explanation
Indices: 9303--9341 Score: 51
Period size: 19 Copynumber: 2.1 Consensus size: 18
9293 ATGTTATTTT
9303 ATTAAAAATAAATTATTA
1 ATTAAAAATAAATTATTA
* *
9321 ATTAAAATATTAATTGTTA
1 ATTAAAA-ATAAATTATTA
9340 AT
1 AT
9342 ATTTCAAACA
Statistics
Matches: 18, Mismatches: 2, Indels: 1
0.86 0.10 0.05
Matches are distributed among these distances:
18 7 0.39
19 11 0.61
ACGTcount: A:0.54, C:0.00, G:0.03, T:0.44
Consensus pattern (18 bp):
ATTAAAAATAAATTATTA
Found at i:9714 original size:16 final size:16
Alignment explanation
Indices: 9673--9720 Score: 62
Period size: 16 Copynumber: 2.9 Consensus size: 16
9663 ATTATAAAAA
9673 TATTATAATTATTATAT
1 TATTATAA-TATTATAT
*
9690 TATAATAATATTA-AT
1 TATTATAATATTATAT
9705 TATTAGTAATATTATA
1 TATTA-TAATATTATA
9721 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:9724 original size:25 final size:25
Alignment explanation
Indices: 9653--9730 Score: 88
Period size: 25 Copynumber: 3.0 Consensus size: 25
9643 TGGATAATAA
9653 AATTATTAATATTATAAAAATATT-AT
1 AATTA-TAATATTAT-AAAATATTAAT
*
9679 AATTATTATATTATAATAATATTAAT
1 AATTATAATATTATAA-AATATTAAT
*
9705 TATTAGTAATATTAT-AAATATTAAT
1 AATTA-TAATATTATAAAATATTAAT
9730 A
1 A
9731 TAATAAATTT
Statistics
Matches: 45, Mismatches: 4, Indels: 7
0.80 0.07 0.12
Matches are distributed among these distances:
24 2 0.04
25 23 0.51
26 12 0.27
27 8 0.18
ACGTcount: A:0.51, C:0.00, G:0.01, T:0.47
Consensus pattern (25 bp):
AATTATAATATTATAAAATATTAAT
Found at i:9748 original size:15 final size:15
Alignment explanation
Indices: 9711--9755 Score: 56
Period size: 15 Copynumber: 2.9 Consensus size: 15
9701 TAATTATTAG
*
9711 TAATATTATAAATAT
1 TAATATAATAAATAT
9726 TAATATAATAAAT-T
1 TAATATAATAAATAT
9740 TAATAATAATATAATA
1 TAAT-ATAATA-AATA
9756 ATACTAATTA
Statistics
Matches: 26, Mismatches: 1, Indels: 4
0.84 0.03 0.13
Matches are distributed among these distances:
14 5 0.19
15 18 0.69
16 3 0.12
ACGTcount: A:0.58, C:0.00, G:0.00, T:0.42
Consensus pattern (15 bp):
TAATATAATAAATAT
Found at i:9831 original size:44 final size:45
Alignment explanation
Indices: 9739--9824 Score: 102
Period size: 44 Copynumber: 1.9 Consensus size: 45
9729 TATAATAAAT
* * * * *
9739 TTAATAATAATATAATAATACTAATTACAATTGATTATTAAACTA
1 TTAATAATAATATAATAATACTAATAAAAATTAATCAGTAAACTA
* *
9784 TTAATAATAA-ATAATCATAGTAATAAAAATTAATCAGTAAA
1 TTAATAATAATATAATAATACTAATAAAAATTAATCAGTAAA
9825 TAATTAAATG
Statistics
Matches: 34, Mismatches: 7, Indels: 1
0.81 0.17 0.02
Matches are distributed among these distances:
44 24 0.71
45 10 0.29
ACGTcount: A:0.55, C:0.06, G:0.03, T:0.36
Consensus pattern (45 bp):
TTAATAATAATATAATAATACTAATAAAAATTAATCAGTAAACTA
Found at i:10587 original size:178 final size:180
Alignment explanation
Indices: 10209--10593 Score: 399
Period size: 178 Copynumber: 2.1 Consensus size: 180
10199 TTTTAAATTT
*
10209 GTTCGATAAACAAATTTATTTTTTAAAACTTTTGCTTATTAATTTTGGAAATATTAAGAAATTAG
1 GTTCGATAAACAAATTTATTTTTTAAAACTTTTGCTTATTAATTTTGCAAATATTAAGAAATTAG
* * * * * * *
10274 TATTATTTTATTCTAGATAAGTTTTAATAAATTGAAACTATTCTTTTATGTGAAAACAAAAGGTC
66 AATTATTTTATTCTAGATAACTTGTAAGAAATTGAAACTAATCTTTGATCT-AAAACAAAAGGTC
* * *
10339 ATAACAATTTTAAATAAATAATTATTTAAATAGTCATAACTATTTGAACTT
130 ATAAAAATTTCAAATAAATAATTATTTAAATAGTCATAACTATTTGAACTG
* * *** * * * * *
10390 GCTCAATAAAGGGATTTATTTTTTCAAATCTTTTGCTTATTAATTTTTCAAATGTTAATAAATTT
1 GTTCGATAAACAAATTTATTTTTT-AAAACTTTTGCTTATTAATTTTGCAAATATTAAGAAATTA
* *
10455 GAATTATTTTATT-TTGAATAAACTTGTAAGATA-TGAAA-TAAAT-TTTGA-CT-AAACAAAAG
65 GAATTATTTTATTCTAG-AT-AACTTGTAAGAAATTGAAACT-AATCTTTGATCTAAAACAAAAG
* ** *
10514 GTCA-AAAAGATTTCAAATTAATAATTATTCT-AATAGTTTTAATTATTTGAACTG
127 GTCATAAAA-ATTTCAAATAAATAATTATT-TAAATAGTCATAACTATTTGAACTG
*
10568 GTTCGATAAACATATTTATTTTTTAA
1 GTTCGATAAACAAATTTATTTTTTAA
10594 TCTATATATC
Statistics
Matches: 166, Mismatches: 32, Indels: 16
0.78 0.15 0.07
Matches are distributed among these distances:
177 5 0.03
178 69 0.42
179 1 0.01
180 1 0.01
181 26 0.16
182 55 0.33
183 9 0.05
ACGTcount: A:0.40, C:0.07, G:0.09, T:0.44
Consensus pattern (180 bp):
GTTCGATAAACAAATTTATTTTTTAAAACTTTTGCTTATTAATTTTGCAAATATTAAGAAATTAG
AATTATTTTATTCTAGATAACTTGTAAGAAATTGAAACTAATCTTTGATCTAAAACAAAAGGTCA
TAAAAATTTCAAATAAATAATTATTTAAATAGTCATAACTATTTGAACTG
Found at i:11013 original size:162 final size:160
Alignment explanation
Indices: 10747--11061 Score: 393
Period size: 162 Copynumber: 2.0 Consensus size: 160
10737 ATAATTTTGC
* * * * *
10747 ATGAATAGAAACAATTGTTTTATGACAAAAAAGGTCATAATTATTTGAAATAGATAATTGTTCAA
1 ATGAATAGAAACAATTGTTTTAGGACAAAAAAGATCATAACTATTTGAAATAAAAAATTGTTCAA
* * * * * **
10812 ATGGACATGACTATTTGGACTTATTCAGTAAATAGATTTATTT-TTAAATTTCCTACTTACTAAC
66 ATAGACATAACAATTTGGAATTATTCAGTAAACAGATTTATTTAAAAAATTTCCTACTTACTAAC
*
10876 TTTCAAAGTATTAATCAATTAGTATTATTGT
131 TTTCAAA-TATTAATAAATTAGTATTATTGT
10907 ATGAATAGAAACAATTG-TTTAGGACAAAACAAAAGATCATAACTATTTGAAATAAAAAATTGTT
1 ATGAATAGAAACAATTGTTTTAGGAC--AA-AAAAGATCATAACTATTTGAAATAAAAAATTGTT
* ** *
10971 CAAATAGCCATAACAATTT-GAATTAGTTCAGTAAACAGATTTATTTAAAAAATTTTTTACTTAT
63 CAAATAGACATAACAATTTGGAATTA-TTCAGTAAACAGATTTATTTAAAAAATTTCCTACTTAC
* *
11035 TAATTTTGAAATATTAATAAATTAGTA
127 TAACTTTCAAATATTAATAAATTAGTA
11062 CATTTTATTT
Statistics
Matches: 131, Mismatches: 19, Indels: 8
0.83 0.12 0.05
Matches are distributed among these distances:
159 7 0.05
160 17 0.13
161 7 0.05
162 79 0.60
163 21 0.16
ACGTcount: A:0.43, C:0.09, G:0.11, T:0.38
Consensus pattern (160 bp):
ATGAATAGAAACAATTGTTTTAGGACAAAAAAGATCATAACTATTTGAAATAAAAAATTGTTCAA
ATAGACATAACAATTTGGAATTATTCAGTAAACAGATTTATTTAAAAAATTTCCTACTTACTAAC
TTTCAAATATTAATAAATTAGTATTATTGT
Found at i:11209 original size:179 final size:178
Alignment explanation
Indices: 10903--11476 Score: 601
Period size: 179 Copynumber: 3.2 Consensus size: 178
10893 ATTAGTATTA
* * *
10903 TTGTATGAATAGAAACAATT-GTTTAGGACAAAACAAAAGATCATAACTATTTGAAATAAAAAAT
1 TTGTATGAATAGAAACAATTGGTTTAGGACAAAACAAAAGGTCATAACTATTTGAAATAGATAAT
* * * * * **
10967 TGTTCAAATAGCCATAACAATTTGA-ATTAGTTCAGTAAACAGATTTA-TTTAAAAAATTTTTTA
66 TGTTCAAAGAGACATAACTATTTGATA-T-GTTTAGAAAACA-ATTTATTTTTTAAAA-TTTTTA
* *
11030 CTTATTAATTTTGAAATATTAATAAATTAGTA-CATTTTATTTCAAATATGC
127 CTTATTAATTTTGAAATATTAATAAATTAGTATTATTTTATTTCAAATAAGC
* *
11081 TTGTATGAATAGAAACAATTGGTTTATGACAAAACAAAGGGTCATAACTATTTGAAATAGATAAT
1 TTGTATGAATAGAAACAATTGGTTTAGGACAAAACAAAAGGTCATAACTATTTGAAATAGATAAT
* *
11146 TGTTCAAAGAGTCATAACTATTTGATCATGTTTAGAAAACATATTTATTTTTTTAAATTTTTACT
66 TGTTCAAAGAGACATAACTATTTGAT-ATGTTTAGAAAACA-ATTTATTTTTTAAAATTTTTACT
*
11211 TATTAATTTTTGAAATATTAATAAATTTA-TATTATTTT-CTTCAGAATAAGC
129 TATTAA-TTTTGAAATATTAATAAA-TTAGTATTATTTTATTTCA-AATAAGC
* * * *
11262 TTGTTTGAATAGAAACAATTGTTTTAGGACAAAACAAAATGTCATAACAATTTGAAATAGATAAT
1 TTGTATGAATAGAAACAATTGGTTTAGGACAAAACAAAAGGTCATAACTATTTGAAATAGATAAT
* * * * * ***
11327 AGTTCAAATG-GACATGACTATTTAAATTTGTTT-GATAAACAATTT-TTTTTTGAAATCTCCAA
66 TGTTCAAA-GAGACATAACTATTT-GATATGTTTAGA-AAACAATTTATTTTTTAAAAT-TTTTA
* ** * * *
11389 CTTATTAATTTTTAGAATATTAATTGACTAGTATTATTTTATTTCGAATAAAC
127 CTTATTAATTTTGA-AATATTAATAAATTAGTATTATTTTATTTCAAATAAGC
* * *
11442 TTGTATGAACAGAAAC-ATATGTTTTATGACAAAAC
1 TTGTATGAATAGAAACAAT-TGGTTTAGGACAAAAC
11477 CTAACTATTT
Statistics
Matches: 338, Mismatches: 42, Indels: 30
0.82 0.10 0.07
Matches are distributed among these distances:
178 20 0.06
179 109 0.32
180 101 0.30
181 105 0.31
182 3 0.01
ACGTcount: A:0.41, C:0.09, G:0.11, T:0.40
Consensus pattern (178 bp):
TTGTATGAATAGAAACAATTGGTTTAGGACAAAACAAAAGGTCATAACTATTTGAAATAGATAAT
TGTTCAAAGAGACATAACTATTTGATATGTTTAGAAAACAATTTATTTTTTAAAATTTTTACTTA
TTAATTTTGAAATATTAATAAATTAGTATTATTTTATTTCAAATAAGC
Found at i:11318 original size:181 final size:179
Alignment explanation
Indices: 10903--11476 Score: 609
Period size: 180 Copynumber: 3.2 Consensus size: 179
10893 ATTAGTATTA
* *
10903 TTGTATGAATAGAAACAATTG-TTTAGGACAAAACAAAAGATCATAACTATTTGAAATAAAAAAT
1 TTGTATGAATAGAAACAATTGTTTTAGGACAAAACAAAAG-TCATAACTATTTGAAATAGATAAT
* * * * * **
10967 TGTTCAAATAGCCATAACAATTTGA-ATTAGTTCAGTAAACAGATTTA-TTTAAAAAATTTTTTA
65 TGTTCAAAGAGACATAACTATTTGATA-T-GTTTAGAAAACA-ATTTATTTTTTAAAA-TTTTTA
* *
11030 CTTATTAA-TTTTGAAATATTAATAAATTAGTA-CATTTTATTTCA-AATATGC
126 CTTATTAATTTTTGAAATATTAATAAATTAGTATTATTTTATTTCAGAATAAGC
* * *
11081 TTGTATGAATAGAAACAATTGGTTTATGACAAAACAAAGGGTCATAACTATTTGAAATAGATAAT
1 TTGTATGAATAGAAACAATTGTTTTAGGACAAAACAAA-AGTCATAACTATTTGAAATAGATAAT
* *
11146 TGTTCAAAGAGTCATAACTATTTGATCATGTTTAGAAAACATATTTATTTTTTTAAATTTTTACT
65 TGTTCAAAGAGACATAACTATTTGAT-ATGTTTAGAAAACA-ATTTATTTTTTAAAATTTTTACT
*
11211 TATTAATTTTTGAAATATTAATAAATTTA-TATTATTTT-CTTCAGAATAAGC
128 TATTAATTTTTGAAATATTAATAAA-TTAGTATTATTTTATTTCAGAATAAGC
* *
11262 TTGTTTGAATAGAAACAATTGTTTTAGGACAAAACAAAATGTCATAACAATTTGAAATAGATAAT
1 TTGTATGAATAGAAACAATTGTTTTAGGACAAAACAAAA-GTCATAACTATTTGAAATAGATAAT
* * * * * ***
11327 AGTTCAAATG-GACATGACTATTTAAATTTGTTT-GATAAACAATTT-TTTTTTGAAATCTCCAA
65 TGTTCAAA-GAGACATAACTATTT-GATATGTTTAGA-AAACAATTTATTTTTTAAAAT-TTTTA
** * *
11389 CTTATTAATTTTT-AGAATATTAATTGACTAGTATTATTTTATTTC-GAATAAAC
126 CTTATTAATTTTTGA-AATATTAATAAATTAGTATTATTTTATTTCAGAATAAGC
* *
11442 TTGTATGAACAGAAAC-ATATGTTTTATGACAAAAC
1 TTGTATGAATAGAAACAAT-TGTTTTAGGACAAAAC
11477 CTAACTATTT
Statistics
Matches: 340, Mismatches: 38, Indels: 34
0.83 0.09 0.08
Matches are distributed among these distances:
178 21 0.06
179 103 0.30
180 108 0.32
181 105 0.31
182 3 0.01
ACGTcount: A:0.41, C:0.09, G:0.11, T:0.40
Consensus pattern (179 bp):
TTGTATGAATAGAAACAATTGTTTTAGGACAAAACAAAAGTCATAACTATTTGAAATAGATAATT
GTTCAAAGAGACATAACTATTTGATATGTTTAGAAAACAATTTATTTTTTAAAATTTTTACTTAT
TAATTTTTGAAATATTAATAAATTAGTATTATTTTATTTCAGAATAAGC
Found at i:12099 original size:181 final size:180
Alignment explanation
Indices: 11864--12622 Score: 693
Period size: 181 Copynumber: 4.2 Consensus size: 180
11854 TCCTGCCTAC
* *
11864 TAATTTTTAGAGTATTAATCAATTAGTATTATTTTATTCAAAATAAACTTGTATGAATAGAAACA
1 TAATTTTTAGAATATTAATAAATTAGTATTATTTTATTCAAAATAAACTTGTATGAATAGAAACA
* * *
11929 ATTGTTTTAGGGCAAAACAAAAGATCATAACT-ATTTGAAATAAATAATTGTTCAAATAGTCATG
66 ATTGTTTTATGACAAAACAAAAGATCATAACTGATTTGAAATAAATAATTGTTCAAATAGTCATA
* * * *
11993 ATGATTTAAACTAACTCGGTAAACATATTTATTTATAAAATTTTTTACTCAT
131 ATTATTTAAACT-ATTCGGTAAACATATTTATTT-TTAAATTTTTTACTTAT
* * * *
12045 TAATTTTTGGAATATTAAGAAATTAGTATTATTTTATTTC-AAATACATTTGTATGAATAGAAAC
1 TAATTTTTAGAATATTAATAAATTAGTATTATTTTA-TTCAAAATAAACTTGTATGAATAGAAAC
* * * ** * * *
12109 AATTGGTTTATGATAAAACAAAGGGCCATAACT-ATTTGAAATAGATAATTGTTTAAAAAGTCAT
65 AATTGTTTTATGACAAAACAAAAGATCATAACTGATTTGAAATAAATAATTGTTCAAATAGTCAT
* * ** * * *
12173 AACTATTTGAACGTGGTCAGAAAATATATTTAGTTTTTAAA-TTTTTACTTAT
130 AATTATTTAAAC-TATTCGGTAAACATATTTA-TTTTTAAATTTTTTACTTAT
* * * * * *
12225 TAATTTTT-GAAAAATCAATAAATTTA-TATTATTTTATTCGAAATCAGCTTGTTTGAATAGAAA
1 TAATTTTTAG-AATATTAATAAA-TTAGTATTATTTTATTCAAAATAAACTTGTATGAATAGAAA
* * * * * * *
12288 CAATTATTTTATGACAAAA-ATATG-TCAT-AGTGATTTGAAATAAATAATAGTTCAAATGGACA
64 CAATTGTTTTATGACAAAACAAAAGATCATAACTGATTTGAAATAAATAATTGTTCAAATAGTCA
* * * * * ***
12350 TGATTATTTAAACTTGTTTGGTAAAC-TATTTTTTTTTTAAATCTCCAACTTAT
129 TAATTATTTAAAC-TATTCGGTAAACATA-TTTATTTTTAAATTTTTTACTTAT
** * ***
12403 TAATTTTTAGAATATTAATTTATTAGTATTATCTTATTTTGAATAAACTTGTATGAATAGAAAC-
1 TAATTTTTAGAATATTAATAAATTAGTATTATTTTATTCAAAATAAACTTGTATGAATAGAAACA
* * *
12467 ATACGTTTTATGACAAAACAAAAGATCATAA-TGATTTGAAATAAATAATTGTTTAAAATAGTTA
66 AT-TGTTTTATGACAAAACAAAAGATCATAACTGATTTGAAATAAATAATTG-TTCAAATAGTCA
* * * * **
12531 TAATTATTTGAACTCATTCGGTAAACAAATTTAGTTTTAAGTCTTTTGGCCTTAT
129 TAATTATTTAAACT-ATTCGGTAAACATATTTATTTTTAAAT-TTTT-TACTTAT
12586 TAATTTTTA-ACAT-TTAATGAAATTA-TATTATTTTATT
1 TAATTTTTAGA-ATATTAAT-AAATTAGTATTATTTTATT
12623 TTGAACTAAA
Statistics
Matches: 458, Mismatches: 98, Indels: 43
0.76 0.16 0.07
Matches are distributed among these distances:
177 17 0.04
178 114 0.25
179 11 0.02
180 95 0.21
181 175 0.38
182 26 0.06
183 20 0.04
ACGTcount: A:0.40, C:0.08, G:0.11, T:0.42
Consensus pattern (180 bp):
TAATTTTTAGAATATTAATAAATTAGTATTATTTTATTCAAAATAAACTTGTATGAATAGAAACA
ATTGTTTTATGACAAAACAAAAGATCATAACTGATTTGAAATAAATAATTGTTCAAATAGTCATA
ATTATTTAAACTATTCGGTAAACATATTTATTTTTAAATTTTTTACTTAT
Found at i:12460 original size:358 final size:362
Alignment explanation
Indices: 11890--12543 Score: 836
Period size: 358 Copynumber: 1.8 Consensus size: 362
11880 AATCAATTAG
* *
11890 TATTATTTTATTCAAAATAAACTTGTATGAATAGAAACAATTGTTTTAGGGCAAAACAAAAGATC
1 TATTATTTTATTCAAAATAAACTTGTATGAATAGAAACAATTATTTTAGGACAAAACAAAAGATC
* *
11955 ATAACTATTTGAAATAAATAATTGTTCAAATAGTCATGATGATTTAAACTAACTCGGTAAACATA
66 ATAACTATTTGAAATAAATAATAGTTCAAATAGACATGATGATTTAAACTAACTCGGTAAACATA
* *** * *
12020 TTTATTTATAAAATTTTTTACTCATTAATTTTTGGAATATTAAGAAATTAGTATTATTTTATTTC
131 TTTATTTATAAAATCTCCAACTCATTAATTTTTAGAATATTAAGAAATTAGTATTATCTTATTTC
* * * * * *
12085 AAATACATTTGTATGAATAGAAACA-ATTGGTTTATGATAAAACAAAGGGCCATAACT-ATTTGA
196 AAATAAACTTGTATGAATAGAAACATA-CGGTTTATGACAAAACAAAAGACCATAA-TGATTTGA
*
12148 AATAGATAATTGTTTAAAA-AGTCATAACTATTTGAACGTGGTCAGAAAATATATTTAGTTTTTA
259 AATAAATAATTGTTTAAAATAGTCATAACTATTTGAACGTGGTCAGAAAATATATTTAGTTTTTA
12212 AATTTTTACTTATTAATTTTTGAAAAATCAATAAATTTA
324 AATTTTTACTTATTAATTTTTGAAAAATCAATAAATTTA
* * * * * * *
12251 TATTATTTTATTCGAAATCAGCTTGTTTGAATAGAAACAATTATTTTATGACAAAA-ATATG-TC
1 TATTATTTTATTCAAAATAAACTTGTATGAATAGAAACAATTATTTTAGGACAAAACAAAAGATC
* * * *** *
12314 AT-AGTGATTTGAAATAAATAATAGTTCAAATGGACATGATTATTTAAACTTGTTTGGTAAAC-T
66 ATAACT-ATTTGAAATAAATAATAGTTCAAATAGACATGATGATTTAAACTAACTCGGTAAACAT
* * * * ***
12377 ATTTTTTTTTTAAATCTCCAACTTATTAATTTTTAGAATATTAATTTATTAGTATTATCTTATTT
130 ATTTATTTATAAAATCTCCAACTCATTAATTTTTAGAATATTAAGAAATTAGTATTATCTTATTT
** * *
12442 TGAATAAACTTGTATGAATAGAAACATACGTTTTATGACAAAACAAAAGATCATAATGATTTGAA
195 CAAATAAACTTGTATGAATAGAAACATACGGTTTATGACAAAACAAAAGACCATAATGATTTGAA
* *
12507 ATAAATAATTGTTTAAAATAGTTATAATTATTTGAAC
260 ATAAATAATTGTTTAAAATAGTCATAACTATTTGAAC
12544 TCATTCGGTA
Statistics
Matches: 245, Mismatches: 44, Indels: 10
0.82 0.15 0.03
Matches are distributed among these distances:
357 1 0.00
358 123 0.50
359 69 0.28
360 3 0.01
361 49 0.20
ACGTcount: A:0.41, C:0.08, G:0.11, T:0.41
Consensus pattern (362 bp):
TATTATTTTATTCAAAATAAACTTGTATGAATAGAAACAATTATTTTAGGACAAAACAAAAGATC
ATAACTATTTGAAATAAATAATAGTTCAAATAGACATGATGATTTAAACTAACTCGGTAAACATA
TTTATTTATAAAATCTCCAACTCATTAATTTTTAGAATATTAAGAAATTAGTATTATCTTATTTC
AAATAAACTTGTATGAATAGAAACATACGGTTTATGACAAAACAAAAGACCATAATGATTTGAAA
TAAATAATTGTTTAAAATAGTCATAACTATTTGAACGTGGTCAGAAAATATATTTAGTTTTTAAA
TTTTTACTTATTAATTTTTGAAAAATCAATAAATTTA
Found at i:13083 original size:39 final size:39
Alignment explanation
Indices: 13010--13086 Score: 95
Period size: 39 Copynumber: 2.0 Consensus size: 39
13000 ATGTAATTAT
* * *
13010 AATATTTAATTATAGTAATAAATTATATTCTATAATTTA
1 AATATTTAATTATAGTAAAAAATTATAATATATAATTTA
13049 AATATTATAATT-TA-TAAAAAATTATAAATATATAATTT
1 AATATT-TAATTATAGTAAAAAATTAT-AATATATAATTT
13087 TTAATAATTA
Statistics
Matches: 33, Mismatches: 3, Indels: 4
0.82 0.08 0.10
Matches are distributed among these distances:
38 10 0.30
39 18 0.55
40 5 0.15
ACGTcount: A:0.51, C:0.01, G:0.01, T:0.47
Consensus pattern (39 bp):
AATATTTAATTATAGTAAAAAATTATAATATATAATTTA
Found at i:13213 original size:18 final size:17
Alignment explanation
Indices: 13192--13235 Score: 56
Period size: 18 Copynumber: 2.6 Consensus size: 17
13182 ATATTAGTTA
13192 ATTAATTAATATATAAAT
1 ATTAATTAATATAT-AAT
*
13210 ATTAATTAAT-TATAGT
1 ATTAATTAATATATAAT
13226 ATTAA-TAATA
1 ATTAATTAATA
13236 ATTTATTAAT
Statistics
Matches: 24, Mismatches: 1, Indels: 4
0.83 0.03 0.14
Matches are distributed among these distances:
15 4 0.17
16 7 0.29
17 3 0.12
18 10 0.42
ACGTcount: A:0.52, C:0.00, G:0.02, T:0.45
Consensus pattern (17 bp):
ATTAATTAATATATAAT
Found at i:13232 original size:22 final size:21
Alignment explanation
Indices: 13189--13243 Score: 65
Period size: 22 Copynumber: 2.5 Consensus size: 21
13179 TACATATTAG
13189 TTAATTAATTAATATATAAATA
1 TTAATTAATT-ATATATAAATA
*
13211 TTAATTAATTATAGTATTAATA
1 TTAATTAATTATA-TATAAATA
* *
13233 ATAATTTATTA
1 TTAATTAATTA
13244 ATTCAAATTT
Statistics
Matches: 29, Mismatches: 3, Indels: 2
0.85 0.09 0.06
Matches are distributed among these distances:
21 3 0.10
22 26 0.90
ACGTcount: A:0.49, C:0.00, G:0.02, T:0.49
Consensus pattern (21 bp):
TTAATTAATTATATATAAATA
Found at i:13724 original size:16 final size:18
Alignment explanation
Indices: 13682--13719 Score: 53
Period size: 19 Copynumber: 2.2 Consensus size: 18
13672 TTAATTAATT
13682 ATAA-TAATATTATTATTA
1 ATAACTAATATTATTA-TA
13700 ATAACTAATATTATTA-A
1 ATAACTAATATTATTATA
13717 ATA
1 ATA
13720 TTAATGTACT
Statistics
Matches: 19, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
17 4 0.21
18 4 0.21
19 11 0.58
ACGTcount: A:0.53, C:0.03, G:0.00, T:0.45
Consensus pattern (18 bp):
ATAACTAATATTATTATA
Found at i:14984 original size:31 final size:31
Alignment explanation
Indices: 14948--15029 Score: 87
Period size: 31 Copynumber: 2.6 Consensus size: 31
14938 AATACTGATA
*
14948 ATTAAATAATAAAAATTAAAATATTTTTTATT
1 ATTAAATAATAAAAATTAAAA-ATTTTTAATT
* * *
14980 -TTAAATATTTAAAATTTAAAATTTTTAATT
1 ATTAAATAATAAAAATTAAAAATTTTTAATT
15010 ATTAACATTAA-AAAAATTAA
1 ATTAA-A-TAATAAAAATTAA
15030 TAAACAAAGT
Statistics
Matches: 40, Mismatches: 7, Indels: 6
0.75 0.13 0.11
Matches are distributed among these distances:
30 9 0.22
31 21 0.52
32 8 0.20
33 2 0.05
ACGTcount: A:0.54, C:0.01, G:0.00, T:0.45
Consensus pattern (31 bp):
ATTAAATAATAAAAATTAAAAATTTTTAATT
Found at i:15014 original size:23 final size:24
Alignment explanation
Indices: 14978--15023 Score: 58
Period size: 23 Copynumber: 2.0 Consensus size: 24
14968 ATATTTTTTA
*
14978 TTTTAAATATTTAAAATTTAAAAT
1 TTTTAAATATTTAAAATTAAAAAT
* *
15002 TTTTAATTA-TTAACATTAAAAA
1 TTTTAAATATTTAAAATTAAAAA
15024 AATTAATAAA
Statistics
Matches: 19, Mismatches: 3, Indels: 1
0.83 0.13 0.04
Matches are distributed among these distances:
23 11 0.58
24 8 0.42
ACGTcount: A:0.50, C:0.02, G:0.00, T:0.48
Consensus pattern (24 bp):
TTTTAAATATTTAAAATTAAAAAT
Found at i:15383 original size:179 final size:178
Alignment explanation
Indices: 15068--15947 Score: 674
Period size: 179 Copynumber: 4.8 Consensus size: 178
15058 GTTTATCGAT
* *
15068 CAGTTCAAATAGTTATGATTATTTGAACAATTATTTATTTAAAATCATTATGACCTTTTGTTTTG
1 CAGTTCAAATAGTTATGACTATTTGAACAATTATCTATTT-AAATCATTATGACCTTTTGTTTT-
* * * * * * *
15133 GACAAAAAACAAATTGTTTTAGTTCATAAAAGCTTATCCCAAATAAAATAATACTAATTTCTTAA
64 GTCATAAAA-AAA-TGTTTCAGTTCATACAAGCTTATTCGAAATAAAATAATACTAATTTATTAA
* *
15198 TATTTCAAAATTAATAAGCAAGAG-TTTAAAAAAATTAATTTGTTTACTAAAC
127 TATTTCAAAATTAATAAGCAAGAGATTT-AAAAAATAAATTTATTTACTAAAC
* * * *
15250 AAATTCAAATAGTTTATAACTATTTGAACAATTATCTATTTAAATCATTATGACCTTTGGTTTTG
1 CAGTTCAAATAG-TTATGACTATTTGAACAATTATCTATTTAAATCATTATGACCTTTTGTTTTG
**
15315 TCATAAAAAAATGTTTCAGTTCATACAAGCTTATTCGAAATAAAATAATTGTAATTTATTAATAT
65 TCATAAAAAAATGTTTCAGTTCATACAAGCTTATTCGAAATAAAATAATACTAATTTATTAATAT
* * * * * * *
15380 TTCAAAAATTAATAAGTAAGTGATTTAAAAAATGATTTTGTTTACCAAAT
130 TTC-AAAATTAATAAGCAAGAGATTTAAAAAATAAATTTATTTACTAAAC
* * * * * * * * *
15430 TAGTTGAAATAATTATGACTATTTCAA-TATTATCTATTCGAAATCAATATTACCTTTTTGTTTG
1 CAGTTCAAATAGTTATGACTATTTGAACAATTATCTATT-TAAATCATTATGACC-TTTTGTTTT
* * ** **
15494 GTCATATAACAATTGTTT-TTTGTCATACAAGCTT-TAAG-AATAAAAATAATACTAATTTATTA
64 GTCATA-AAAAAATGTTTCAGT-TCATACAAGCTTATTCGAAAT-AAAATAATACTAATTTATTA
* * * * *
15556 AT-CTTCAAAAGTTAATAAGTAAGAAATTTAAAAAATAAATTTATTTATTGAAC
126 ATATTTCAAAA-TTAATAAGCAAGAGATTTAAAAAATAAATTTATTTACTAAAC
* * * * *
15609 CCGTT-AAATAGTTATGACTATTTGAACAAATGTATAGTTTAAAATAAGTTATTTAAAAGATAAA
1 CAGTTCAAATAGTTATGACTATTTGAACAATTATCTA-TTT-AAATCA-TTA--T----G----A
* * * *
15673 CCTTTTTTGTTCTATCAT-AAAAAAT-TATTCATGTTCATACAAGCCTATTTGAAATAAAATAAT
53 CC--TTTTGTTTTGTCATAAAAAAATGT-TTCA-GTTCATACAAGCTTATTCGAAATAAAATAAT
* * * * *
15736 ACTAATCTAATAATACTCTAAAAATTAATAA-CTAAGAGATTTAAAAAATAAATTTATTTACTGA
114 ACTAATTTATTAATA-TTTCAAAATTAATAAGC-AAGAGATTTAAAAAATAAATTTATTTACTAA
15800 AC
177 AC
* * * ** *
15802 CAGTTAAAATAGTTAAGACTATATG-ACAATTATCTATTTTAAATTGTTATGA-ATCTTTGTTTT
1 CAGTTCAAATAGTTATGACTATTTGAACAATTATCTA-TTTAAATCATTATGACCT-TTTGTTTT
* * * * * *
15865 GTCATAAAACAATTTTTTCAATTCATACTAGCTTATT-TAGAATAAAAGGAA-A-TGAATTTATT
64 GTCATAAAA-AAATGTTTCAGTTCATACAAGCTTATTCGA-AATAAAA-TAATACT-AATTTATT
15927 AATATTTCAAAAATTAATAAG
125 AATATTTC-AAAATTAATAAG
15948 AGATTTAACA
Statistics
Matches: 553, Mismatches: 103, Indels: 85
0.75 0.14 0.11
Matches are distributed among these distances:
178 34 0.06
179 137 0.25
180 136 0.25
181 43 0.08
182 33 0.06
183 26 0.05
185 1 0.00
189 2 0.00
190 7 0.01
191 17 0.03
192 39 0.07
193 56 0.10
194 22 0.04
ACGTcount: A:0.42, C:0.09, G:0.09, T:0.40
Consensus pattern (178 bp):
CAGTTCAAATAGTTATGACTATTTGAACAATTATCTATTTAAATCATTATGACCTTTTGTTTTGT
CATAAAAAAATGTTTCAGTTCATACAAGCTTATTCGAAATAAAATAATACTAATTTATTAATATT
TCAAAATTAATAAGCAAGAGATTTAAAAAATAAATTTATTTACTAAAC
Found at i:16437 original size:22 final size:23
Alignment explanation
Indices: 16412--16473 Score: 65
Period size: 22 Copynumber: 2.7 Consensus size: 23
16402 TTATATTGGA
16412 AATAATTTA-AATAGTTATTAT-T
1 AATAATTTATAATA-TTATTATCT
**
16434 AATAATAGATAATATTATTATCT
1 AATAATTTATAATATTATTATCT
*
16457 ATTAATTTATTAATATT
1 AATAATTTA-TAATATT
16474 TCTAGAATGA
Statistics
Matches: 32, Mismatches: 5, Indels: 4
0.78 0.12 0.10
Matches are distributed among these distances:
22 14 0.44
23 11 0.34
24 7 0.22
ACGTcount: A:0.45, C:0.02, G:0.03, T:0.50
Consensus pattern (23 bp):
AATAATTTATAATATTATTATCT
Found at i:16750 original size:12 final size:12
Alignment explanation
Indices: 16698--16752 Score: 51
Period size: 12 Copynumber: 4.5 Consensus size: 12
16688 ATTATTTAAC
16698 TATATATAATTA
1 TATATATAATTA
*
16710 TA-ATTATATTTA
1 TATA-TATAATTA
*
16722 T-TATTTAATTA
1 TATATATAATTA
16733 TTTATATATAATTA
1 --TATATATAATTA
16747 TATATA
1 TATATA
16753 ATAAAACATA
Statistics
Matches: 34, Mismatches: 4, Indels: 10
0.71 0.08 0.21
Matches are distributed among these distances:
11 7 0.21
12 17 0.50
13 1 0.03
14 9 0.26
ACGTcount: A:0.44, C:0.00, G:0.00, T:0.56
Consensus pattern (12 bp):
TATATATAATTA
Found at i:16751 original size:33 final size:33
Alignment explanation
Indices: 16688--16749 Score: 92
Period size: 33 Copynumber: 1.9 Consensus size: 33
16678 AATAACAATA
16688 ATTATTTAACTATATATAATTATAATTATATTT
1 ATTATTTAACTATATATAATTATAATTATATTT
* *
16721 ATTATTTAATTATTTAT-A-TATAATTATAT
1 ATTATTTAACTATATATAATTATAATTATAT
16750 ATAATAAAAC
Statistics
Matches: 27, Mismatches: 2, Indels: 2
0.87 0.06 0.06
Matches are distributed among these distances:
31 11 0.41
32 1 0.04
33 15 0.56
ACGTcount: A:0.42, C:0.02, G:0.00, T:0.56
Consensus pattern (33 bp):
ATTATTTAACTATATATAATTATAATTATATTT
Found at i:17067 original size:18 final size:18
Alignment explanation
Indices: 17035--17071 Score: 58
Period size: 18 Copynumber: 2.1 Consensus size: 18
17025 ATTTTATTAA
17035 TGTTATGTTATTAATAAT
1 TGTTATGTTATTAATAAT
17053 TGTTCATGTTA-TAATAAT
1 TGTT-ATGTTATTAATAAT
17071 T
1 T
17072 ATATAAAATA
Statistics
Matches: 18, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
18 12 0.67
19 6 0.33
ACGTcount: A:0.32, C:0.03, G:0.11, T:0.54
Consensus pattern (18 bp):
TGTTATGTTATTAATAAT
Found at i:17386 original size:25 final size:23
Alignment explanation
Indices: 17332--17386 Score: 56
Period size: 25 Copynumber: 2.2 Consensus size: 23
17322 TATATTATTT
*
17332 ATTATATTATAATAATATATACA
1 ATTATATTATAATAATATAAACA
*
17355 AGTTTATATTATATACTAATATAAATA
1 A--TTATATTATA-A-TAATATAAACA
17382 ATTAT
1 ATTAT
17387 TTGCTAATTA
Statistics
Matches: 26, Mismatches: 2, Indels: 6
0.76 0.06 0.18
Matches are distributed among these distances:
23 1 0.04
25 14 0.54
26 1 0.04
27 10 0.38
ACGTcount: A:0.49, C:0.04, G:0.02, T:0.45
Consensus pattern (23 bp):
ATTATATTATAATAATATAAACA
Found at i:17433 original size:29 final size:29
Alignment explanation
Indices: 17391--17459 Score: 72
Period size: 29 Copynumber: 2.4 Consensus size: 29
17381 AATTATTTGC
*
17391 TAATTATTAAATT-AGTATCTATTAT-TAA
1 TAATTATTAAATTAAAT-TCTATTATATAA
*
17419 TAATTATTTATATTAAATTCTATTATATAA
1 TAATTA-TTAAATTAAATTCTATTATATAA
17449 T-ATTAATTAAA
1 TAATT-ATTAAA
17460 GATAATCATA
Statistics
Matches: 34, Mismatches: 3, Indels: 7
0.77 0.07 0.16
Matches are distributed among these distances:
28 6 0.18
29 21 0.62
30 7 0.21
ACGTcount: A:0.45, C:0.03, G:0.01, T:0.51
Consensus pattern (29 bp):
TAATTATTAAATTAAATTCTATTATATAA
Found at i:17550 original size:19 final size:20
Alignment explanation
Indices: 17521--17579 Score: 68
Period size: 20 Copynumber: 2.9 Consensus size: 20
17511 TTGTTATTAT
17521 TAATAAATTATATATTAA-AA
1 TAAT-AATTATATATTAATAA
17541 TAATAATTATTATATATAATAA
1 TAATAATTA-TATAT-TAATAA
*
17563 TAATAATAATA-ATTAAT
1 TAATAATTATATATTAAT
17580 TATATTATAA
Statistics
Matches: 35, Mismatches: 1, Indels: 7
0.81 0.02 0.16
Matches are distributed among these distances:
19 9 0.26
20 11 0.31
21 5 0.14
22 10 0.29
ACGTcount: A:0.58, C:0.00, G:0.00, T:0.42
Consensus pattern (20 bp):
TAATAATTATATATTAATAA
Found at i:17555 original size:22 final size:22
Alignment explanation
Indices: 17527--17569 Score: 70
Period size: 22 Copynumber: 2.0 Consensus size: 22
17517 TTATTAATAA
17527 ATTATATATTAA-AATAATAATT
1 ATTATATA-TAATAATAATAATT
17549 ATTATATATAATAATAATAAT
1 ATTATATATAATAATAATAAT
17570 AATAATTAAT
Statistics
Matches: 20, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
21 3 0.15
22 17 0.85
ACGTcount: A:0.56, C:0.00, G:0.00, T:0.44
Consensus pattern (22 bp):
ATTATATATAATAATAATAATT
Found at i:17798 original size:24 final size:24
Alignment explanation
Indices: 17741--17804 Score: 67
Period size: 24 Copynumber: 2.7 Consensus size: 24
17731 TGTTTATATT
17741 ATTATTAAAATTATTAATAATTAA
1 ATTATTAAAATTATTAATAATTAA
* * *
17765 ATAATCAAAATTATTAATTAA-TAG
1 ATTATTAAAATTATTAA-TAATTAA
* *
17789 TTTATTAAAAGTATTA
1 ATTATTAAAATTATTA
17805 GTTTAATATA
Statistics
Matches: 32, Mismatches: 7, Indels: 2
0.78 0.17 0.05
Matches are distributed among these distances:
24 29 0.91
25 3 0.09
ACGTcount: A:0.52, C:0.02, G:0.03, T:0.44
Consensus pattern (24 bp):
ATTATTAAAATTATTAATAATTAA
Found at i:18019 original size:16 final size:15
Alignment explanation
Indices: 18000--18042 Score: 54
Period size: 14 Copynumber: 2.9 Consensus size: 15
17990 TATTGTTAAA
18000 TATTAATTATTATTT
1 TATTAATTATTATTT
18015 CTATT--TTATTATTT
1 -TATTAATTATTATTT
18029 TAATTAATTATTAT
1 T-ATTAATTATTAT
18043 AATTAATTAA
Statistics
Matches: 24, Mismatches: 0, Indels: 6
0.80 0.00 0.20
Matches are distributed among these distances:
13 1 0.04
14 12 0.50
16 11 0.46
ACGTcount: A:0.33, C:0.02, G:0.00, T:0.65
Consensus pattern (15 bp):
TATTAATTATTATTT
Found at i:18040 original size:13 final size:13
Alignment explanation
Indices: 18002--18051 Score: 57
Period size: 13 Copynumber: 3.8 Consensus size: 13
17992 TTGTTAAATA
18002 TTAATT-ATTATT
1 TTAATTAATTATT
* *
18014 TCTATTTTATTATT
1 T-TAATTAATTATT
18028 TTAATTAATTATT
1 TTAATTAATTATT
*
18041 ATAATTAATTA
1 TTAATTAATTA
18052 AATATTAAAT
Statistics
Matches: 32, Mismatches: 4, Indels: 3
0.82 0.10 0.08
Matches are distributed among these distances:
12 1 0.03
13 24 0.75
14 7 0.22
ACGTcount: A:0.36, C:0.02, G:0.00, T:0.62
Consensus pattern (13 bp):
TTAATTAATTATT
Found at i:18050 original size:17 final size:17
Alignment explanation
Indices: 18028--18071 Score: 54
Period size: 17 Copynumber: 2.5 Consensus size: 17
18018 TTTTATTATT
18028 TTAATTAATTATTATAA-
1 TTAATTAATTATTA-AAG
*
18045 TTAATTAAATATTAAATG
1 TTAATTAATTATTAAA-G
18063 TTAATTAAT
1 TTAATTAAT
18072 ATAAATAAAA
Statistics
Matches: 23, Mismatches: 2, Indels: 3
0.82 0.07 0.11
Matches are distributed among these distances:
16 2 0.09
17 13 0.57
18 8 0.35
ACGTcount: A:0.48, C:0.00, G:0.02, T:0.50
Consensus pattern (17 bp):
TTAATTAATTATTAAAG
Found at i:18072 original size:17 final size:16
Alignment explanation
Indices: 18027--18077 Score: 52
Period size: 17 Copynumber: 3.1 Consensus size: 16
18017 ATTTTATTAT
18027 TTTAATTAATTATTATAA
1 TTTAATTAA-TATTA-AA
18045 -TTAATTAAATATTAAA
1 TTTAATT-AATATTAAA
18061 TGTTAATTAATA-TAAA
1 T-TTAATTAATATTAAA
18077 T
1 T
18078 AAAATGATAA
Statistics
Matches: 30, Mismatches: 0, Indels: 8
0.79 0.00 0.21
Matches are distributed among these distances:
16 7 0.23
17 15 0.50
18 8 0.27
ACGTcount: A:0.49, C:0.00, G:0.02, T:0.49
Consensus pattern (16 bp):
TTTAATTAATATTAAA
Found at i:18088 original size:21 final size:21
Alignment explanation
Indices: 18041--18090 Score: 66
Period size: 21 Copynumber: 2.3 Consensus size: 21
18031 ATTAATTATT
18041 ATAATTAATTAAATATTAAATG
1 ATAATTAATTAAATA-TAAATG
*
18063 TTAATTAATATAAATA-AAATG
1 ATAATTAAT-TAAATATAAATG
18084 ATAATTA
1 ATAATTA
18091 TTTGAACAAT
Statistics
Matches: 25, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
21 11 0.44
22 8 0.32
23 6 0.24
ACGTcount: A:0.56, C:0.00, G:0.04, T:0.40
Consensus pattern (21 bp):
ATAATTAATTAAATATAAATG
Found at i:18469 original size:14 final size:14
Alignment explanation
Indices: 18446--18476 Score: 53
Period size: 14 Copynumber: 2.2 Consensus size: 14
18436 ATATATTATT
*
18446 ATATATAATAATTA
1 ATATAAAATAATTA
18460 ATATAAAATAATTA
1 ATATAAAATAATTA
18474 ATA
1 ATA
18477 ATATCCAATT
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:0.61, C:0.00, G:0.00, T:0.39
Consensus pattern (14 bp):
ATATAAAATAATTA
Found at i:18530 original size:15 final size:15
Alignment explanation
Indices: 18510--18539 Score: 51
Period size: 15 Copynumber: 2.0 Consensus size: 15
18500 TATTATTAAT
18510 ATATTTAATTAATTA
1 ATATTTAATTAATTA
*
18525 ATATTTAATTTATTA
1 ATATTTAATTAATTA
18540 GATAATATTG
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
15 14 1.00
ACGTcount: A:0.43, C:0.00, G:0.00, T:0.57
Consensus pattern (15 bp):
ATATTTAATTAATTA
Found at i:18971 original size:22 final size:23
Alignment explanation
Indices: 18946--19040 Score: 77
Period size: 22 Copynumber: 3.9 Consensus size: 23
18936 AATTTCTAAA
*
18946 ATAATAGTAAT-ATTAGTTTAA-T
1 ATAATAATAATAATTA-TTTAATT
18968 ATAATAATAATAATTATTTAATT
1 ATAATAATAATAATTATTTAATT
*
18991 ATAATTATATAATATTATTATATTATTT
1 ATAA-TA-ATAATA--ATTAT-TTAATT
*
19019 ATTATTAATAATAATTAATTTA
1 A-TAATAATAATAATT-ATTTA
19041 TGTATACTTA
Statistics
Matches: 61, Mismatches: 3, Indels: 15
0.77 0.04 0.19
Matches are distributed among these distances:
22 15 0.25
23 9 0.15
24 2 0.03
25 12 0.20
26 2 0.03
27 11 0.18
28 8 0.13
29 2 0.03
ACGTcount: A:0.47, C:0.00, G:0.02, T:0.51
Consensus pattern (23 bp):
ATAATAATAATAATTATTTAATT
Found at i:18995 original size:28 final size:28
Alignment explanation
Indices: 18945--19038 Score: 86
Period size: 28 Copynumber: 3.4 Consensus size: 28
18935 AAATTTCTAA
* * *
18945 AATAATAGTAATATTAGTT-TAATATAAT
1 AATAATAATTATATTAATTATAAT-TAAT
18973 AATAATAATTAT-TTAATTATAATTATAT
1 AATAATAATTATATTAATTATAATTA-AT
* * *
19001 AAT-ATTATTATATTATTTATTATTAAT
1 AATAATAATTATATTAATTATAATTAAT
19028 AATAATTAATT
1 AATAA-TAATT
19039 TATGTATACT
Statistics
Matches: 54, Mismatches: 7, Indels: 9
0.77 0.10 0.13
Matches are distributed among these distances:
27 19 0.35
28 31 0.57
29 4 0.07
ACGTcount: A:0.48, C:0.00, G:0.02, T:0.50
Consensus pattern (28 bp):
AATAATAATTATATTAATTATAATTAAT
Found at i:19024 original size:18 final size:19
Alignment explanation
Indices: 18988--19057 Score: 55
Period size: 18 Copynumber: 3.9 Consensus size: 19
18978 TAATTATTTA
18988 ATTATAATTATATAATATT
1 ATTATAATTATATAATATT
19007 ATTAT-ATTAT-T--TATT
1 ATTATAATTATATAATATT
*
19022 ATTAATAATAAT-TAAT-TT
1 ATT-ATAATTATATAATATT
*
19040 ATGTATACTTATA-AATAT
1 AT-TATAATTATATAATAT
19058 ACATATAAGT
Statistics
Matches: 41, Mismatches: 3, Indels: 14
0.71 0.05 0.24
Matches are distributed among these distances:
15 7 0.17
16 2 0.05
17 6 0.15
18 18 0.44
19 8 0.20
ACGTcount: A:0.44, C:0.01, G:0.01, T:0.53
Consensus pattern (19 bp):
ATTATAATTATATAATATT
Found at i:19051 original size:28 final size:25
Alignment explanation
Indices: 18972--19056 Score: 75
Period size: 25 Copynumber: 3.2 Consensus size: 25
18962 TTTAATATAA
18972 TAATAATAATTATTTAATTATAATTAT
1 TAATAATAATTATTT-ATTAT-ATTAT
*
18999 ATAAT-ATTATTATATTATT-TATTAT
1 -TAATAATAATTAT-TTATTATATTAT
19024 TAATAATAATTAATTTATGTATACTTAT
1 TAATAATAATT-ATTTAT-TATA-TTAT
*
19052 AAATA
1 TAATA
19057 TACATATAAG
Statistics
Matches: 48, Mismatches: 3, Indels: 12
0.76 0.05 0.19
Matches are distributed among these distances:
24 4 0.08
25 14 0.29
26 4 0.08
27 12 0.25
28 14 0.29
ACGTcount: A:0.46, C:0.01, G:0.01, T:0.52
Consensus pattern (25 bp):
TAATAATAATTATTTATTATATTAT
Found at i:20417 original size:17 final size:18
Alignment explanation
Indices: 20381--20437 Score: 50
Period size: 18 Copynumber: 3.3 Consensus size: 18
20371 TTAAATTATG
20381 TAATT-AATAAAA-A-TA
1 TAATTAAATAAAATATTA
*
20396 GTAATTAAAT-AAATATTT
1 -TAATTAAATAAAATATTA
**
20414 TAATTGTATAAAATATTA
1 TAATTAAATAAAATATTA
20432 TAATTA
1 TAATTA
20438 TATATAAATT
Statistics
Matches: 32, Mismatches: 5, Indels: 6
0.74 0.12 0.14
Matches are distributed among these distances:
16 8 0.25
17 11 0.34
18 13 0.41
ACGTcount: A:0.54, C:0.00, G:0.04, T:0.42
Consensus pattern (18 bp):
TAATTAAATAAAATATTA
Found at i:20429 original size:18 final size:19
Alignment explanation
Indices: 20404--20446 Score: 61
Period size: 18 Copynumber: 2.3 Consensus size: 19
20394 TAGTAATTAA
* *
20404 ATAAATATTTTAATTGTAT
1 ATAAATATTATAATTATAT
20423 A-AAATATTATAATTATAT
1 ATAAATATTATAATTATAT
20441 ATAAAT
1 ATAAAT
20447 TCTACAATTC
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
18 16 0.76
19 5 0.24
ACGTcount: A:0.51, C:0.00, G:0.02, T:0.47
Consensus pattern (19 bp):
ATAAATATTATAATTATAT
Found at i:20551 original size:25 final size:24
Alignment explanation
Indices: 20518--20593 Score: 64
Period size: 25 Copynumber: 3.0 Consensus size: 24
20508 TATCAATTGT
* *
20518 AATAGTAATTATTATTAATATAATA
1 AATATTAATTATT-TTAAAATAATA
* *
20543 ATTTTTAA-TATTTTTAAAATAATTA
1 AATATTAATTA-TTTTAAAATAA-TA
*
20568 AATATTAATTATTTTAACATTAATA
1 AATATTAATTATTTTAA-AATAATA
20593 A
1 A
20594 GGTGTCAAAA
Statistics
Matches: 40, Mismatches: 7, Indels: 8
0.73 0.13 0.15
Matches are distributed among these distances:
24 10 0.25
25 24 0.60
26 6 0.15
ACGTcount: A:0.49, C:0.01, G:0.01, T:0.49
Consensus pattern (24 bp):
AATATTAATTATTTTAAAATAATA
Found at i:21115 original size:26 final size:27
Alignment explanation
Indices: 21066--21142 Score: 72
Period size: 26 Copynumber: 2.9 Consensus size: 27
21056 TTTAAAATTT
**
21066 AAATATTATATATATTATCTATTAT-TAC
1 AAATA-TATA-ATATTATAAATTATCTAC
21094 AAATATATAATATTATAAATTATTGCTAC
1 AAATATATAATATTATAAATTA-T-CTAC
21123 AAATAT-TAAT-TTA-AAATTAT
1 AAATATATAATATTATAAATTAT
21143 ATAATTATTT
Statistics
Matches: 44, Mismatches: 2, Indels: 9
0.80 0.04 0.16
Matches are distributed among these distances:
25 1 0.02
26 17 0.39
27 8 0.18
28 9 0.20
29 9 0.20
ACGTcount: A:0.48, C:0.05, G:0.01, T:0.45
Consensus pattern (27 bp):
AAATATATAATATTATAAATTATCTAC
Found at i:21359 original size:23 final size:23
Alignment explanation
Indices: 21332--21378 Score: 67
Period size: 23 Copynumber: 2.0 Consensus size: 23
21322 AATTATTAAA
21332 TTAATTAAATAATAAATAAATAT
1 TTAATTAAATAATAAATAAATAT
* * *
21355 TTAATTAATTTATAAATAATTAT
1 TTAATTAAATAATAAATAAATAT
21378 T
1 T
21379 AAAATTACTA
Statistics
Matches: 21, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
23 21 1.00
ACGTcount: A:0.53, C:0.00, G:0.00, T:0.47
Consensus pattern (23 bp):
TTAATTAAATAATAAATAAATAT
Found at i:21577 original size:24 final size:24
Alignment explanation
Indices: 21550--21610 Score: 63
Period size: 24 Copynumber: 2.6 Consensus size: 24
21540 ATTAACAAAT
* *
21550 ATTATATAAATT-TATAATATATTA
1 ATTAAATAAATTAAATAA-ATATTA
*
21574 ATTAAATTAATTAAATAAATATTA
1 ATTAAATAAATTAAATAAATATTA
*
21598 ATT-AATTAATTAA
1 ATTAAATAAATTAA
21611 TATTAATAAT
Statistics
Matches: 33, Mismatches: 3, Indels: 3
0.85 0.08 0.08
Matches are distributed among these distances:
23 10 0.30
24 19 0.58
25 4 0.12
ACGTcount: A:0.54, C:0.00, G:0.00, T:0.46
Consensus pattern (24 bp):
ATTAAATAAATTAAATAAATATTA
Found at i:21585 original size:4 final size:4
Alignment explanation
Indices: 21570--21611 Score: 50
Period size: 4 Copynumber: 10.5 Consensus size: 4
21560 TTTATAATAT
* *
21570 ATTA ATTAA ATTA ATTA AATA AAT- ATTA ATTA ATTA ATTA AT
1 ATTA ATT-A ATTA ATTA ATTA ATTA ATTA ATTA ATTA ATTA AT
21612 ATTAATAATC
Statistics
Matches: 34, Mismatches: 2, Indels: 4
0.85 0.05 0.10
Matches are distributed among these distances:
3 2 0.06
4 28 0.82
5 4 0.12
ACGTcount: A:0.55, C:0.00, G:0.00, T:0.45
Consensus pattern (4 bp):
ATTA
Found at i:21602 original size:19 final size:18
Alignment explanation
Indices: 21578--21617 Score: 62
Period size: 18 Copynumber: 2.2 Consensus size: 18
21568 ATATTAATTA
21578 AATTAATTAAATAAATATT
1 AATTAATT-AATAAATATT
*
21597 AATTAATTAATTAATATT
1 AATTAATTAATAAATATT
21615 AAT
1 AAT
21618 AATCTTATAA
Statistics
Matches: 20, Mismatches: 1, Indels: 1
0.91 0.05 0.05
Matches are distributed among these distances:
18 12 0.60
19 8 0.40
ACGTcount: A:0.55, C:0.00, G:0.00, T:0.45
Consensus pattern (18 bp):
AATTAATTAATAAATATT
Found at i:21618 original size:24 final size:24
Alignment explanation
Indices: 21563--21610 Score: 80
Period size: 23 Copynumber: 2.0 Consensus size: 24
21553 ATATAAATTT
21563 ATAATATATTAATTAAATTAATTAA
1 ATAA-ATATTAATTAAATTAATTAA
21588 ATAAATATTAATT-AATTAATTAA
1 ATAAATATTAATTAAATTAATTAA
21611 TATTAATAAT
Statistics
Matches: 23, Mismatches: 0, Indels: 2
0.92 0.00 0.08
Matches are distributed among these distances:
23 10 0.43
24 9 0.39
25 4 0.17
ACGTcount: A:0.56, C:0.00, G:0.00, T:0.44
Consensus pattern (24 bp):
ATAAATATTAATTAAATTAATTAA
Found at i:21662 original size:26 final size:25
Alignment explanation
Indices: 21622--21692 Score: 69
Period size: 26 Copynumber: 2.9 Consensus size: 25
21612 ATTAATAATC
21622 TTATA-ATATATAAATAGTTTTATTT
1 TTATATATATA-AAATAGTTTTATTT
* *
21647 GTTATATATATAAAATAGCTTAATTT
1 -TTATATATATAAAATAGTTTTATTT
*
21673 TTA-ATATA-AATATA-TTTTAT
1 TTATATATATAAAATAGTTTTAT
21693 AAAATAATAT
Statistics
Matches: 39, Mismatches: 5, Indels: 6
0.78 0.10 0.12
Matches are distributed among these distances:
22 4 0.10
23 5 0.13
24 5 0.13
25 3 0.08
26 17 0.44
27 5 0.13
ACGTcount: A:0.42, C:0.01, G:0.04, T:0.52
Consensus pattern (25 bp):
TTATATATATAAAATAGTTTTATTT
Found at i:21756 original size:18 final size:18
Alignment explanation
Indices: 21725--21759 Score: 52
Period size: 18 Copynumber: 1.9 Consensus size: 18
21715 GTAAGTAAAA
* *
21725 ATAATTTATTAATATATT
1 ATAATCTATAAATATATT
21743 ATAATCTATAAATATAT
1 ATAATCTATAAATATAT
21760 ATTATAATAT
Statistics
Matches: 15, Mismatches: 2, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
18 15 1.00
ACGTcount: A:0.49, C:0.03, G:0.00, T:0.49
Consensus pattern (18 bp):
ATAATCTATAAATATATT
Found at i:21765 original size:25 final size:27
Alignment explanation
Indices: 21755--21851 Score: 65
Period size: 28 Copynumber: 3.5 Consensus size: 27
21745 AATCTATAAA
*
21755 TATATATTATAATATCAATTATAATTAT
1 TATATATTATATTATCAATTATAA-TAT
* * *
21783 TATATATGATATTAT-TATTAAAATATT
1 TATATATTATATTATCAATTATAATA-T
* *
21810 TAAATAATATT-TGTTATTAATTAATAATAT
1 T--AT-ATATTATATTATCAATT-ATAATAT
21840 TATA-ATTATATT
1 TATATATTATATT
21852 TATATTATTA
Statistics
Matches: 53, Mismatches: 9, Indels: 15
0.69 0.12 0.19
Matches are distributed among these distances:
26 5 0.09
27 12 0.23
28 15 0.28
29 7 0.13
30 9 0.17
31 5 0.09
ACGTcount: A:0.45, C:0.01, G:0.02, T:0.52
Consensus pattern (27 bp):
TATATATTATATTATCAATTATAATAT
Found at i:21866 original size:21 final size:22
Alignment explanation
Indices: 21837--21884 Score: 64
Period size: 21 Copynumber: 2.2 Consensus size: 22
21827 TAATTAATAA
21837 TATTATAATTATA-TT-TATAT
1 TATTATAATTATAGTTATATAT
21857 TATTAATAATTATAGTTAATATAT
1 TATT-ATAATTATAGTT-ATATAT
21881 TATT
1 TATT
21885 TGAATATTTA
Statistics
Matches: 24, Mismatches: 0, Indels: 4
0.86 0.00 0.14
Matches are distributed among these distances:
20 4 0.17
21 9 0.38
22 2 0.08
24 9 0.38
ACGTcount: A:0.42, C:0.00, G:0.02, T:0.56
Consensus pattern (22 bp):
TATTATAATTATAGTTATATAT
Found at i:22167 original size:41 final size:39
Alignment explanation
Indices: 22114--22211 Score: 96
Period size: 40 Copynumber: 2.5 Consensus size: 39
22104 AATTTATATT
*
22114 TTATT-ATATAATTAAATATAGTATATT-TTCAAAGTAATTAA
1 TTATTAAT-TAATTAAATATAGTATATTATTC-AA-CAA-TAA
* *
22155 TTATTAATTAATT-AATTTATTATATTATTCAACAATAA
1 TTATTAATTAATTAAATATAGTATATTATTCAACAATAA
22193 TTA-TAATTAATTATAATAT
1 TTATTAATTAATTA-AATAT
22212 TTTATCATAT
Statistics
Matches: 49, Mismatches: 4, Indels: 10
0.78 0.06 0.16
Matches are distributed among these distances:
37 9 0.18
38 6 0.12
39 6 0.12
40 13 0.27
41 13 0.27
42 2 0.04
ACGTcount: A:0.46, C:0.03, G:0.02, T:0.49
Consensus pattern (39 bp):
TTATTAATTAATTAAATATAGTATATTATTCAACAATAA
Found at i:22414 original size:16 final size:16
Alignment explanation
Indices: 22344--22424 Score: 51
Period size: 16 Copynumber: 5.1 Consensus size: 16
22334 TGTTTTTAAT
*
22344 TAATAATTTTAAATTCA
1 TAATAATTATAAATT-A
* * *
22361 TTATTATTAT-TATTAA
1 TAATAATTATAAATT-A
* * *
22377 TATTAAATATAAAATA
1 TAATAATTATAAATTA
22393 -AATAA-TATAATATTA
1 TAATAATTATAA-ATTA
22408 TAATAATTATAAATTA
1 TAATAATTATAAATTA
22424 T
1 T
22425 TATTATTATT
Statistics
Matches: 47, Mismatches: 13, Indels: 9
0.68 0.19 0.13
Matches are distributed among these distances:
14 5 0.11
15 7 0.15
16 21 0.45
17 14 0.30
ACGTcount: A:0.52, C:0.01, G:0.00, T:0.47
Consensus pattern (16 bp):
TAATAATTATAAATTA
Done.