Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: NW_019168404.1 Durio zibethinus cultivar Musang King isolate D1 unplaced genomic scaffold, Duzib1.0 scaffold_62, 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: 141830
ACGTcount: A:0.43, C:0.06, G:0.07, T:0.44
File 1 of 5
Found at i:358 original size:181 final size:179
Alignment explanation
Indices: 20--470 Score: 441
Period size: 181 Copynumber: 2.5 Consensus size: 179
10 CATATAGCCT
* * * * * * * *
20 TAACTATTTGAATTGGTTTAGCAATTAGATTTATTTTTTAATTTTTTTGGTTATTAAGTTTCAAA
1 TAACTATTTGAAATGGTTTGGTAAATAGATTTA-TTTTTAATTCTTTT--ATATTAATTTTCTAA
* * * * *
85 ATATTATTAAATTAATATTATTTT-TTCCAAATAAAATAGTATGAACAAAACCAATTGTTTGATG
63 ATATTAATAAATTAGTATTATTTTATTTCAAACAAAATAGTATGAACAAAACCAATTATTTGATG
*
149 ACAAAAAAAAAAGGTCATAACAATTTGAAATAGATAATT-ATTCAAATAGTCA
128 ACAAAAAAAAAAGGTAATAACAATTTGAAATAGATAATTGATT-AAATAGTCA
*
201 -AACTATTTGAAATGGTTTGGTAAACAGATTTAACTTTTTAATTCTTTTACTAATTAATTTTCTA
1 TAACTATTTGAAATGGTTTGGTAAATAGATTT-A-TTTTTAATTCTTTTA-T-ATTAATTTTCTA
* * * * *
265 AATATTAATAAATTAGTATTATTTTATTTCGAACAAACTTA-TATTAACAAAAGCAATTATTTTA
62 AATATTAATAAATTAGTATTATTTTATTTCAAACAAA-ATAGTATGAACAAAACCAATTATTTGA
* ** * *
329 TGACAAAACAAAAA-GTAATAATGATTTGAAATAGATAATTGCTTAAATAGTTA
126 TGACAAAAAAAAAAGGTAATAACAATTTGAAATAGATAATTGATTAAATAGTCA
* * * * * * *
382 TAA-TAACTTGAACTAGTTTGGTAAATAGAATTATTTTCTAAATCTCTTATA--AATTTTTTAAA
1 TAACT-ATTTGAAATGGTTTGGTAAATAGATTTATTTT-TAATTCTTTTATATTAATTTTCTAAA
* *
444 TATTAATAAATTAGTTTTATTCTATTT
64 TATTAATAAATTAGTATTATTTTATTT
471 TGAATACGCT
Statistics
Matches: 225, Mismatches: 36, Indels: 22
0.80 0.13 0.08
Matches are distributed among these distances:
177 35 0.16
179 1 0.00
180 32 0.14
181 89 0.40
182 66 0.29
183 2 0.01
ACGTcount: A:0.41, C:0.07, G:0.09, T:0.43
Consensus pattern (179 bp):
TAACTATTTGAAATGGTTTGGTAAATAGATTTATTTTTAATTCTTTTATATTAATTTTCTAAATA
TTAATAAATTAGTATTATTTTATTTCAAACAAAATAGTATGAACAAAACCAATTATTTGATGACA
AAAAAAAAAGGTAATAACAATTTGAAATAGATAATTGATTAAATAGTCA
Found at i:507 original size:177 final size:180
Alignment explanation
Indices: 124--543 Score: 451
Period size: 177 Copynumber: 2.3 Consensus size: 180
114 AATAAAATAG
* * *
124 TATGAACAAAACCAATTGTTTGATGACAAAAAAAAAAGGTCATAACAATTTGAAATAGATAATTA
1 TATGAACAAAAGCAATTGTTTTATGACAAAACAAAAA-GTCATAACAATTTGAAATAGATAATTA
* * * * *
189 TTCAAATAGTCAAACTATTTGAAATGGTTTGGTAAACAGATTTAACTTTTTAATTCTTTTACTAA
65 TTCAAATAGTCAAACTACTTGAAATAGTTTGGTAAACAGAATTAACTTTTTAAATCTCTTACTAA
*
254 TTAATTTTCTAAATATTAATAAATTAGTATTATTTTATTTCGAACAAACTTA
130 -TAATTTTCTAAATATTAATAAATTAGTATTATTCTATTTCGAACAAACTTA
* * * ** *
306 TATTAACAAAAGCAATTATTTTATGACAAAACAAAAAGTAATAATGATTTGAAATAGATAATTGC
1 TATGAACAAAAGCAATTGTTTTATGACAAAACAAAAAGTCATAACAATTTGAAATAGATAATT-A
* * *
371 TT-AAATAGTTATAA-TAACTTGAACTAGTTTGGTAAATAGAATT-A-TTTTCTAAATCTCTTA-
65 TTCAAATAGTCA-AACT-ACTTGAAATAGTTTGGTAAACAGAATTAACTTTT-TAAATCTCTTAC
* * * * ** *
431 T-A-AATTTTTTAAATATTAATAAATTAGTTTTATTCTATTTTGAATACGCTTG
127 TAATAATTTTCTAAATATTAATAAATTAGTATTATTCTATTTCGAACAAACTTA
* * * * *
483 TATGAGCTGAAA-TAATTGTTTTATGACAAAACAAAAGGTCATAACAATTTGAAATAAATAA
1 TATGAAC-AAAAGCAATTGTTTTATGACAAAACAAAAAGTCATAACAATTTGAAATAGATAA
544 ATGTTAATAA
Statistics
Matches: 198, Mismatches: 35, Indels: 15
0.80 0.14 0.06
Matches are distributed among these distances:
177 89 0.45
178 3 0.02
179 1 0.01
180 5 0.03
181 42 0.21
182 58 0.29
ACGTcount: A:0.43, C:0.08, G:0.10, T:0.38
Consensus pattern (180 bp):
TATGAACAAAAGCAATTGTTTTATGACAAAACAAAAAGTCATAACAATTTGAAATAGATAATTAT
TCAAATAGTCAAACTACTTGAAATAGTTTGGTAAACAGAATTAACTTTTTAAATCTCTTACTAAT
AATTTTCTAAATATTAATAAATTAGTATTATTCTATTTCGAACAAACTTA
Found at i:616 original size:101 final size:101
Alignment explanation
Indices: 440--633 Score: 237
Period size: 101 Copynumber: 1.9 Consensus size: 101
430 ATAAATTTTT
* * * * * * * *
440 TAAATATTAATAAATTAGTTTTATTCTATTTTGAATACGCTTGTATGAGCTGAAATAATTGTTTT
1 TAAATATTAATAAATTAATATTATTCTATTTTGAATAAGCTTGTATGAACTGAAACAACTATTAT
* *
505 ATGACAAAACAAAAGGTCATAACAATTTGAAATAAA
66 ATGACAAAACAAAAAGTCAAAACAATTTGAAATAAA
* * *
541 TAAATGTTAATAAATTAATATTATTTTATTTTGAATAAGCTTTTATGAACTGAAACAACTATTAT
1 TAAATATTAATAAATTAATATTATTCTATTTTGAATAAGCTTGTATGAACTGAAACAACTATTAT
* *
606 AT-AGCTAAACAAAAAGTCAAAACTATTT
66 ATGA-CAAAACAAAAAGTCAAAACAATTT
634 AAAACTGATA
Statistics
Matches: 77, Mismatches: 15, Indels: 2
0.82 0.16 0.02
Matches are distributed among these distances:
100 1 0.01
101 76 0.99
ACGTcount: A:0.44, C:0.08, G:0.10, T:0.38
Consensus pattern (101 bp):
TAAATATTAATAAATTAATATTATTCTATTTTGAATAAGCTTGTATGAACTGAAACAACTATTAT
ATGACAAAACAAAAAGTCAAAACAATTTGAAATAAA
Found at i:1693 original size:508 final size:508
Alignment explanation
Indices: 640--2124 Score: 1235
Period size: 508 Copynumber: 2.9 Consensus size: 508
630 ATTTAAAACT
* * *
640 GATAATTATTCTAATAGTCTTAACTATTTGAACTAG-TTCGACAAACACATTTATTTTTTAAATC
1 GATAATTGTTCTAATAGTCATAACTATTTGAACT-GCTTAGACAAACACATTTATTTTTTAAATC
* * * * *
704 TCTTGTTA-ATTTTTGA-AATATTATTAAATTAGTATTATTTTTATCCGAATAAGC-TGGATGAT
65 TCTTCTTATATTTTTTAGAATATTATTAAATTAGTATTATTTTAATCCGAATAAGCTTGAATGAA
* * * * * * *
766 TAAAAACAATTGTTTTATGAGAAAAGAAAAATCATAATGATTTGAGATTGATATTTGTTTAAATA
130 AAAAAACAATTG-TTTATGACAAAA-CAAAATCATAACGATTTGAGATAGATAATTGTTCAAATA
** *
831 GTCATAACTATTTGAACTAGTTTGGAAAACAGTTTTAGTTTTTAAATCTCTTGCTTACTAATTTT
193 G---T-ACTA--TGAACTAGTTCAGAAAACAGATTTAGTTTTTAAATCTCTTGC-TA-TAATTTT
* * * *
896 TTAAATATTAATAAAGTAGTATTATTTATTTTCAAATAAAATCTTTATGAACTGAAACAATTGCT
250 TCAAATATTAATAAAGTAGTATTATTTATTCTCAAAT-AAATCTTTATGAACTAAAACAATTGAT
* * *
961 TTATGACAAAATAAAAGGTCATAACAACTTTAAATAGTTAGAATGATCATTCAAATAGTTAAATC
314 TTATGACAAAACAAAAGGTCATAACAACTTTAAATAGTAAGAATAATCATTCAAATAGTTAAATC
* * * * *
1026 TATTTGAACTTGTTTGGTAAATAATTTTTTTTTAAATCTCTTGCTCATTAATTTTTTGAATGTTA
379 TATTTGAACTTGTTCGATAAACAATTTTTTTTTAAATCCCTTGCTCATTAATTTTTAGAATGTTA
* * * *
1091 ATAAATTAGTATTAATCGAAATAAGTGTTTTATGACTAAAAAAAATGTCAGAACAATTTGAAATA
444 ATAAATTAGTATGAATAGAAACAAGTGTTTTATGACTAAAAAAAATATCAGAACAATTTGAAATA
* *
1156 GATAATTGTTCTAATAGTCTTAACTATTTGAACTGCTTTGACAAACACATTTATTTTTTAAATCT
1 GATAATTGTTCTAATAGTCATAACTATTTGAACTGCTTAGACAAACACATTTATTTTTTAAATCT
1221 CTTACTTATTATTTTTTAGAATATTATTAAATTAGTATTATTTTAATCCGAATAAGCTTGAATGA
66 CTT-CTTA-TATTTTTTAGAATATTATTAAATTAGTATTATTTTAATCCGAATAAGCTTGAATGA
*
1286 AAAAAAACAATTGTTCTATGACAAAATAAAGATCATAACGATTTGAGATAGATAATTGTTCAAAT
129 AAAAAAACAATTGTT-TATGACAAAACAAA-ATCATAACGATTTGAGATAGATAATTGTTCAAAT
*
1351 AGT-C-A-GAACTAGTTCAGAAAATAGATTTAGTTTTTAAATCTCTTG-T-TAA-TTTTCAAGAT
192 AGTACTATGAACTAGTTCAGAAAACAGATTTAGTTTTTAAATCTCTTGCTATAATTTTTCAA-AT
* * *
1410 ATTGATAGA-TATGTATTATTTTATTCT-AAAT-AAT-TTTGCATGAAC-AATAATAATT-ATTG
256 ATTAATAAAGTA-GTATTA-TTTATTCTCAAATAAATCTTT--ATGAACTAA-AACAATTGATT-
* * ** * *
1469 TACT-ACAAAACCAAAGGTCATAACAA-TTT-GA-AG-AAG-ATAATTGTTCAAATGGTTATGA-
315 TA-TGACAAAACAAAAGGTCATAACAACTTTAAATAGTAAGAATAATCATTCAAATAGTTA-AAT
*
1527 CTATTTGAACTTGTTCGATAAACATATTTGTTTTTTAAATCCCTT-ATCTATTAATTTTTAGAAT
378 CTATTTGAACTTGTTCGATAAACA-ATTT-TTTTTTAAATCCCTTGCTC-ATTAATTTTTAGAAT
* * * *
1591 ATTTCCAAATAAACTT-GTATGAATAGAAACAATTGTTTTATGAC-AAAACAAAATATCATAACT
440 -GTT---AATAAA-TTAGTATGAATAGAAACAAGTGTTTTATGACTAAAA-AAAATATCAGAACA
1654 ATTTGAAATA
499 ATTTGAAATA
* * * * *
1664 -AGTAATTGTT-TAAATTGTCATAACTATTTGAACTTGCTCAG-TAAATAGATTTA-TTTTTAAA
1 GA-TAATTGTTCT-AATAGTCATAACTATTTGAAC-TGCTTAGACAAACACATTTATTTTTTAAA
* * * * * * * * * *
1725 TATTTTCTTACTAATTTTTGGAATATGAATGAACTAGTATTATTTTATTTCGAATACAG-TTGAA
63 TCTCTTCTTA-TATTTTTTAGAATATTATTAAATTAGTATTATTTTAATCCGAATA-AGCTTGAA
* * * * * *
1789 TGAACAAAAGCAATTGGTTTATAACAAAACAAAATGTCATAACTATTTAAAATAGATAATTGTTC
126 TGAAAAAAAACAATT-GTTTATGACAAAACAAAA--TCATAACGATTTGAGATAGATAATTGTTC
* * *
1854 AAATAGTTATAACTATTTGAACGT-GTTCAGAAAATAGATTTA-TTTTTAAAAT-TTTTACTCAT
188 AAATAG---T-ACTA--TGAAC-TAGTTCAGAAAACAGATTTAGTTTTT-AAATCTCTTGCT-A-
* * * ** *
1916 TAATTTTTTGAAA-ATTAATAAATTAATATTATTTTATT-TGGAAT-AAGCTTGTATGAA-TAGA
243 TAA-TTTTTCAAATATTAATAAAGTAGTATTA-TTTATTCTCAAATAAATCTT-TATGAACTA-A
** * ** * **
1977 AACAATT-ATTTTACAACAAAACAAAATGTCATAATGA-TTT--A-ACTAA-AA-AATTGTTCAA
304 AACAATTGA-TTTATGACAAAACAAAAGGTCATAACAACTTTAAATAGTAAGAATAATCATTCAA
* * * * *
2035 ATAGTCATAA-CTATTTGAATTTGTTCGATAAATAGATTTATTTTTTAAATCTCTTACTCATTAA
368 ATAGTTA-AATCTATTTGAACTTGTTCGATAAACA-ATTT-TTTTTTAAATCCCTTGCTCATTAA
* *
2099 TTTTTGGAATATTAATAAATTAGTAT
430 TTTTTAGAATGTTAATAAATTAGTAT
2125 TATTTTATTT
Statistics
Matches: 808, Mismatches: 99, Indels: 126
0.78 0.10 0.12
Matches are distributed among these distances:
502 36 0.04
503 9 0.01
504 30 0.04
505 7 0.01
506 80 0.10
507 97 0.12
508 110 0.14
509 14 0.02
510 2 0.00
512 37 0.05
513 3 0.00
514 10 0.01
515 10 0.01
516 92 0.11
517 6 0.01
518 75 0.09
519 75 0.09
520 50 0.06
521 65 0.08
ACGTcount: A:0.39, C:0.09, G:0.11, T:0.41
Consensus pattern (508 bp):
GATAATTGTTCTAATAGTCATAACTATTTGAACTGCTTAGACAAACACATTTATTTTTTAAATCT
CTTCTTATATTTTTTAGAATATTATTAAATTAGTATTATTTTAATCCGAATAAGCTTGAATGAAA
AAAAACAATTGTTTATGACAAAACAAAATCATAACGATTTGAGATAGATAATTGTTCAAATAGTA
CTATGAACTAGTTCAGAAAACAGATTTAGTTTTTAAATCTCTTGCTATAATTTTTCAAATATTAA
TAAAGTAGTATTATTTATTCTCAAATAAATCTTTATGAACTAAAACAATTGATTTATGACAAAAC
AAAAGGTCATAACAACTTTAAATAGTAAGAATAATCATTCAAATAGTTAAATCTATTTGAACTTG
TTCGATAAACAATTTTTTTTTAAATCCCTTGCTCATTAATTTTTAGAATGTTAATAAATTAGTAT
GAATAGAAACAAGTGTTTTATGACTAAAAAAAATATCAGAACAATTTGAAATA
Found at i:2348 original size:182 final size:179
Alignment explanation
Indices: 1590--2375 Score: 823
Period size: 179 Copynumber: 4.4 Consensus size: 179
1580 ATTTTTAGAA
* * *
1590 TATTTCCAAATAAACTTGTATGAATAGAAACAATTGTTTTATGACAAAACAAAATATCATAACTA
1 TATTT-CAAATAAGCTTGTATGAATA-AAACAATTGTTTTATGACAAAACAAAATGTCATAACGA
* * * *
1655 TTTGAAATA-AGTAATTGTTTAAATTGTCATAACTATTTGAACTTGCTCAGTAAATAGATTTATT
64 TTTGAAATAGA-TAATTGTTCAAATAGTCATAACTATTTGAACTTGTTCAATAAATAGATTTATT
* * * * * * * *
1719 TTTAAATATTTT-CTTACTAATTTTTGGAATATGAATGAACTAGTATTATTT
128 TTTAAATTTTTTACTCATTAATTTTTGAAATATTAATAAATTAATATTATTT
* * * * * *
1770 TATTTCGAATACAG-TTGAATGAACAAAAGCAATTGGTTTATAACAAAACAAAATGTCATAACTA
1 TATTTCAAATA-AGCTTGTATGAATAAAA-CAATTGTTTTATGACAAAACAAAATGTCATAACGA
* * *
1834 TTTAAAATAGATAATTGTTCAAATAGTTATAACTATTTGAACGTGTTCAGA-AAATAGATTTATT
64 TTTGAAATAGATAATTGTTCAAATAGTCATAACTATTTGAACTTGTTCA-ATAAATAGATTTATT
*
1898 TTTAAAATTTTTACTCATTAATTTTTTGAAA-ATTAATAAATTAATATTATTT
128 TTTAAATTTTTTACTCATTAA-TTTTTGAAATATTAATAAATTAATATTATTT
** * ** *
1950 TATTTGGAATAAGCTTGTATGAATAGAAACAATTATTTTACAACAAAACAAAATGTCATAATGAT
1 TATTTCAAATAAGCTTGTATGAATA-AAACAATTGTTTTATGACAAAACAAAATGTCATAACGAT
* * * * *
2015 TT-AACTAAAAAATTGTTCAAATAGTCATAACTATTTGAATTTGTTCGATAAATAGATTTATTTT
65 TTGAAATAGATAATTGTTCAAATAGTCATAACTATTTGAACTTGTTCAATAAATAGATTTA-TTT
* * * *
2079 TTAAATCTCTTACTCATTAATTTTTGGAATATTAATAAATTAGTATTATTT
129 TTAAATTTTTTACTCATTAATTTTTGAAATATTAATAAATTAATATTATTT
* * * * * * * *
2130 TATTTCAAATAAGCCTATATAAACTGATACAATTGTTTTATGATGAAAATAAAAGGTCATAACGA
1 TATTTCAAATAAGCTTGTATGAA-TAAAACAATTGTTTTATGA-CAAAACAAAATGTCATAACGA
* * * * * *
2195 TTTGAAATAGATAATTATTCAAATAGTTATGACTGTTTGAACTTATTCAATAAATATATTTATTT
64 TTTGAAATAGATAATTGTTCAAATAGTCATAACTATTTGAACTTGTTCAATAAATAGATTTATTT
* * ** *
2260 TTAAATTTTTTTACTTATTAATTGTCAAAATATTAATAAATTAATATTAGTT
129 TTAAA-TTTTTTACTCATTAATTTTTGAAATATTAATAAATTAATATTATTT
*** * *
2312 TAAACCAAATAAGCTTGTATGAATGAAAATAATTGTTTTATGACAAAA-AAAA-GTCATAATGAT
1 TATTTCAAATAAGCTTGTATGAAT-AAAACAATTGTTTTATGACAAAACAAAATGTCATAACGAT
2375 T
65 T
2376 AGAACTTATT
Statistics
Matches: 502, Mismatches: 88, Indels: 33
0.81 0.14 0.05
Matches are distributed among these distances:
178 4 0.01
179 180 0.36
180 157 0.31
181 45 0.09
182 116 0.23
ACGTcount: A:0.42, C:0.08, G:0.10, T:0.41
Consensus pattern (179 bp):
TATTTCAAATAAGCTTGTATGAATAAAACAATTGTTTTATGACAAAACAAAATGTCATAACGATT
TGAAATAGATAATTGTTCAAATAGTCATAACTATTTGAACTTGTTCAATAAATAGATTTATTTTT
AAATTTTTTACTCATTAATTTTTGAAATATTAATAAATTAATATTATTT
Found at i:2854 original size:506 final size:507
Alignment explanation
Indices: 1893--2883 Score: 1158
Period size: 506 Copynumber: 2.0 Consensus size: 507
1883 GAAAATAGAT
* * * *
1893 TTATTTTTAAAATTTTTACTCATTAATTTTTTGAAAATTAATAAATTAATATTATTTTATTTGGA
1 TTATTTTTAAAATTTTTACTCATTAATTGTCTGAAAATTAATAAATTAATATTATTTTAATTGAA
* *
1958 ATAAGCTTGTATGAATAGAAACAATTATTTTACAACAAAACAAAATGTCATAATGATTTAACTAA
66 ATAAGCTTGTATGAATAGAAACAATTATTTTACAACAAAACAAAAGGTCATAACGATTTAACTAA
* * * * * *
2023 AAAATTGTTCAAATAGTCATAACTATTTGAATTTGTTCGATAAATAGATTTATTTTTTAAATCTC
131 AAAATTGTTCAAATAGTCATAACTATTTGAACTTATTCAATAAACAGATTCAATTTTTAAATCTC
** * * *
2088 TTACTCATTAATTTTTGGAATATTAATAAATTAGTATTATTTTATTTCAAATAAGCCTATATAAA
196 TTACTCATTAATTTTTGGAATATTAATAAATTAAAATTATGTTATTCCAAATAAGCCTATACAAA
** * * * *
2153 CTGATACAATTGTTTTATGATGAAAATAAAAGGTCATAACGATTTGAAATAGATAATTATTCAAA
261 CAAAAACAATTGTTTTATGATCAAAATAAAAGGTCATAACAATTTAAAATAGATAATTATTCAAA
* * * * * * * *** **
2218 TAGTTATGACTGTTTGAACTTATTCAATAAATATATTTATTTTTAAATTTTTTTACTTATTAATT
326 CAGTCATAACTATTTGAACTTAGTCAACAAATATATTCATTTTTAAATTCCATTACACATTAATT
* * * *
2283 GTCAAAATATTAATAAATTAATATTAGTTTAAACCAAATAAGCTTGTATGAATGAAAATAATTGT
391 GTCAAAATATTAATAAATTAACATTAGTTTAAACCAAATAAGCTTATATCAATGAAAACAATTGT
2348 TTTATGACAAAA-AAA-AGTCATAATGATTAGAACTTATTTGGTAGTCAAAG
456 TTTATGACAAAACAAATAGTCATAATGATTAGAACTTATTTGGTAGTCAAAG
* * **
2398 TTATTTTTTAAATCTTTTACTTATTAATTGTCT-AAATATTAATAAATTTTTATTATTTTAATTG
1 TTATTTTTAAAAT-TTTTACTCATTAATTGTCTGAAA-ATTAATAAATTAATATTATTTTAATTG
** * *
2462 AAATAAGCTTGTATGAATAGACAA-AATTATTTTATGACAAAACAAAAGGTTATAGCGATTTGAT
64 AAATAAGCTTGTATGAATAGA-AACAATTATTTTACAACAAAACAAAAGGTCATAACGATTT-A-
*** * * *
2526 A-TAGGTAATTGTTGAAATAGTCATAACTATTTGAACTTATTCAATAAACATATTCAATTTTTAG
126 ACTAAAAAATTGTTCAAATAGTCATAACTATTTGAACTTATTCAATAAACAGATTCAATTTTTAA
* * * * *
2590 ATCTCTTACTTATTAATTTTTGGAATATTAATAAATTAAAATTATGTTATTCCTAGTAAGCTTGT
191 ATCTCTTACTCATTAATTTTTGGAATATTAATAAATTAAAATTATGTTATTCCAAATAAGCCTAT
* * * *
2655 ACAAACAAAAATAATTTTTTTGTGA-CAAAATAAAAGGTTATAACAATTTAAAATAGATAATTAT
256 ACAAACAAAAACAATTGTTTTATGATCAAAATAAAAGGTCATAACAATTTAAAATAGATAATTAT
* * *
2719 TCAAACAGTCATAACTATTTGCAC-TGGTCAAGCCAATCA-ATTCATTTTTTAAA-TCCATTACA
321 TCAAACAGTCATAACTATTTGAACTTAGTCAA-CAAAT-ATATTCA-TTTTTAAATTCCATTACA
* * * * ** *
2781 CATTAATTTTTAGAATATTAATAAATTAACATTATTTTATTCTAAATAAGAC-TATATCAAT-AG
383 CATTAATTGTCAAAATATTAATAAATTAACATTAGTTTAAACCAAATAAG-CTTATATCAATGA-
*
2844 AAACAATTGTTTTATGACAAAACAAATGGTCATAATGATT
446 AAACAATTGTTTTATGACAAAACAAATAGTCATAATGATT
2884 TGAAATGAAT
Statistics
Matches: 401, Mismatches: 73, Indels: 21
0.81 0.15 0.04
Matches are distributed among these distances:
505 21 0.05
506 226 0.56
507 141 0.35
508 13 0.03
ACGTcount: A:0.41, C:0.08, G:0.09, T:0.41
Consensus pattern (507 bp):
TTATTTTTAAAATTTTTACTCATTAATTGTCTGAAAATTAATAAATTAATATTATTTTAATTGAA
ATAAGCTTGTATGAATAGAAACAATTATTTTACAACAAAACAAAAGGTCATAACGATTTAACTAA
AAAATTGTTCAAATAGTCATAACTATTTGAACTTATTCAATAAACAGATTCAATTTTTAAATCTC
TTACTCATTAATTTTTGGAATATTAATAAATTAAAATTATGTTATTCCAAATAAGCCTATACAAA
CAAAAACAATTGTTTTATGATCAAAATAAAAGGTCATAACAATTTAAAATAGATAATTATTCAAA
CAGTCATAACTATTTGAACTTAGTCAACAAATATATTCATTTTTAAATTCCATTACACATTAATT
GTCAAAATATTAATAAATTAACATTAGTTTAAACCAAATAAGCTTATATCAATGAAAACAATTGT
TTTATGACAAAACAAATAGTCATAATGATTAGAACTTATTTGGTAGTCAAAG
Found at i:3092 original size:176 final size:176
Alignment explanation
Indices: 2782--3776 Score: 602
Period size: 177 Copynumber: 5.7 Consensus size: 176
2772 TCCATTACAC
* * * * *
2782 ATTAATTTTTAGAATATTAATAAATTAACATTATTTTATTCTAAATAAGAC-TATATCAATAGAA
1 ATTAATTTTCAAAATATTAATAAATTAATATTA-TTTATTCTAAATAA-ACTTATATGAACA-AA
* * * * *
2846 ACAATTGTTTTATGACAAAACAAATGGTCATAATGATTTGAAATGAATAATTGTTCAAATTGTTA
63 ACAATTGTTTTATGACAAAACAAAAGGTCATAATAATTTGAAATAAATAATTATTCAAATTGTCA
* * * * * **
2911 TAACTAATT-GAACTAGTTTGGTAAACATATTTA-TTTTTCAAATTTCTT
128 TAACTAATTAAAACTAGATCGATAAACAGATTTAGTTTTT-AAATACCTT
* *
2959 ATTGATTTTCAAAATATTAATCAATTAATATTATTATATTCTAAATAAACTTATATGAACAAAAC
1 ATTAATTTTCAAAATATTAATAAATTAATATTATT-TATTCTAAATAAACTTATATGAACAAAAC
* * *
3024 ATTTGTTTTACGACAAAACAAAAGGTCATAATAATTTGAAATAAATAATTATTCATATAT-TCAT
65 AATTGTTTTATGACAAAACAAAAGGTCATAATAATTTGAAATAAATAATTATTCAAAT-TGTCAT
*
3088 AACTATTTAAAACTAGATCGATAAACAGATTTAGTTTTTAAATACCTT
129 AACTAATTAAAACTAGATCGATAAACAGATTTAGTTTTTAAATACCTT
** * * * ** *
3136 ATTAATTTTTGAAATATTAATAAATTAGTATTATTTTTTCTGAATAATTTTGTATGAACAAAAAC
1 ATTAATTTTCAAAATATTAATAAATTAATATTATTTATTCTAAATAAACTTATATGAAC-AAAAC
* * * * * *
3201 AATTATTTTATGACAAAACAAAATGTCATAACAATTTGAAATAGATAA-TAGTTCAAATAGACAT
65 AATTGTTTTATGACAAAACAAAAGGTCATAATAATTTGAAATAAATAATTA-TTCAAATTGTCAT
** * * * * * *
3265 AACTACCTGAAA-TTG-T--TTAGTA-A-A-TT-G----T-CA-A-CTC
129 AACTAATTAAAACTAGATCGATA-AACAGATTTAGTTTTTAAATACCTT
* * * * * *
3299 ATTAATTTT-ATAATTTTAATAAATTAGTATTATTTTATTCTAAATAAAATTGTATGAATAGAAA
1 ATTAATTTTCAAAATATTAATAAATTAATATTA-TTTATTCTAAATAAACTTATATGAACA-AAA
* * * * * *
3363 CAATTATTTTATGACCAAACAAAAGATCATATAACAATTTGAAATAAATAATTGTTCAAATAGTC
64 CAATTGTTTTATGACAAAACAAAAGGTC--ATAATAATTTGAAATAAATAATTATTCAAATTGTC
** * * *
3428 ATAACT-ATTTGAACTCA-CTC-ATTAAACAAATTTATTTTTTAAAT-CTTTTACTT
127 ATAACTAATTAAAACT-AGATCGA-TAAACAGATTTAGTTTTTAAATAC-----CTT
*** * * *
3481 ATTAATTTTTGGAATA--AATAAATTATTATTATTTTATTCCAAATAAGA-TTGTATGAACAAAA
1 ATTAATTTTCAAAATATTAATAAATTAATATTA-TTTATTCTAAATAA-ACTTATATGAAC-AAA
* * * * * *
3543 ACAATTGGTTTATGACAAAACAAAAGGTTATAACAATTTGAAATAGATAATTATTCAAATAGTTA
63 ACAATTGTTTTATGACAAAACAAAAGGTCATAATAATTTGAAATAAATAATTATTCAAATTGTCA
** * *
3608 TAACT-ATT-TGACGT-GTTCAGA-AAACAGATTTATTTTTTAAATTTTTA-CTT
128 TAACTAATTAAAAC-TAGATC-GATAAACAGATTTAGTTTTTAAA----TACCTT
* * * * * ** **
3658 TTTAA-TTTCTAGAATATTAATAAATTTATATTATTTTATTCAAAAT-AAGTCTGCATGATTAGA
1 ATTAATTTTC-AAAATATTAATAAATTAATATTA-TTTATTCTAAATAAACT-TATATGAACA-A
* * * * ** *
3721 ACCAATTATCTTATGACAAAATAAAAGGTCATAATGTTTTGAAATAGATAATTATT
62 AACAATTGTTTTATGACAAAACAAAAGGTCATAATAATTTGAAATAAATAATTATT
3777 TAGATAATCA
Statistics
Matches: 655, Mismatches: 110, Indels: 104
0.75 0.13 0.12
Matches are distributed among these distances:
162 21 0.03
163 60 0.09
164 4 0.01
165 38 0.06
166 3 0.00
167 1 0.00
168 3 0.00
169 1 0.00
170 3 0.00
171 2 0.00
172 1 0.00
173 3 0.00
174 1 0.00
175 2 0.00
176 96 0.15
177 183 0.28
178 31 0.05
179 121 0.18
180 1 0.00
181 63 0.10
182 14 0.02
183 3 0.00
ACGTcount: A:0.43, C:0.09, G:0.08, T:0.40
Consensus pattern (176 bp):
ATTAATTTTCAAAATATTAATAAATTAATATTATTTATTCTAAATAAACTTATATGAACAAAACA
ATTGTTTTATGACAAAACAAAAGGTCATAATAATTTGAAATAAATAATTATTCAAATTGTCATAA
CTAATTAAAACTAGATCGATAAACAGATTTAGTTTTTAAATACCTT
Found at i:3231 original size:177 final size:176
Alignment explanation
Indices: 2415--3790 Score: 893
Period size: 181 Copynumber: 7.8 Consensus size: 176
2405 TTAAATCTTT
* ** * *
2415 TACTTATTAATTGTCTA-AATATTAATAAATTTTTATTATTTTAATT-GAAATAAGCTTGTATGA
1 TACTTATTAATT-TTTAGAATATTAATAAATTAATATTATTTT-ATTCTAAATAAGATTGTATGA
* * * * * * ** * *
2478 ATAGACAA-AATTATTTTATGACAAAACAAAAGGTTATAGCGATTTGATATAGGTAATTGTTGAA
64 ACA-AAAACAATTATTTTATGACAAAACAAAAGGTCATAACAATTTGAAATAAATAATTATTCAA
* * * * * * *
2542 ATAGTCATAACTATTTGAACTTA-TTCAATAAACATATTCAATTTTTAGATCTCT
128 ATATTCATAACTATTTAAAC-TAGTTCGATAAACAGATTTAGTTTTTA-A----A
* * * * * **
2596 TACTTATTAATTTTTGGAATATTAATAAATTAAAATTATGTTATTCCT-AGTAAGCTTGTACAAA
1 TACTTATTAATTTTTAGAATATTAATAAATTAATATTATTTTATT-CTAAATAAGATTGTATGAA
* * * * * * * *
2660 CAAAAATAATTTTTTTGTGACAAAATAAAAGGTTATAACAATTTAAAATAGATAATTATTCAAAC
65 CAAAAACAATTATTTTATGACAAAACAAAAGGTCATAACAATTTGAAATAAATAATTATTCAAAT
* ** * ** * * *
2725 AGTCATAACTATTTGCACT-GGTCAAGCCAATCA-ATTCATTTTTTAAA
130 ATTCATAACTATTTAAACTAGTTC--GATAAACAGATTTAGTTTTTAAA
* * * *
2772 TCCATTACACATTAATTTTTAGAATATTAATAAATTAACATTATTTTATTCTAAATAAGACTATA
1 TAC-TT----ATTAATTTTTAGAATATTAATAAATTAATATTATTTTATTCTAAATAAGATTGTA
* * * * * ** * *
2837 TCAATAGAAACAATTGTTTTATGACAAAACAAATGGTCATAATGATTTGAAATGAATAATTGTTC
61 TGAACAAAAACAATTATTTTATGACAAAACAAAAGGTCATAACAATTTGAAATAAATAATTATTC
* * * * * *
2902 AAAT-TGTTATAACTAATTGAACTAGTTTGGTAAACATATTTA-TTTTTCAAA
126 AAATAT-TCATAACTATTTAAACTAGTTCGATAAACAGATTTAGTTTTT-AAA
* * * * * * *
2953 TTTCTTATTGATTTTCAAAATATTAATCAATTAATATTATTATATTCTAAATAA-ACTTATATGA
1 -TACTTATTAATTTTTAGAATATTAATAAATTAATATTATTTTATTCTAAATAAGA-TTGTATGA
* * * * *
3017 AC-AAAACATTTGTTTTACGACAAAACAAAAGGTCATAATAATTTGAAATAAATAATTATTCATA
64 ACAAAAACAATTATTTTATGACAAAACAAAAGGTCATAACAATTTGAAATAAATAATTATTCAAA
*
3081 TATTCATAACTATTTAAAACTAGATCGATAAACAGATTTAGTTTTTAAA
129 TATTCATAACTATTT-AAACTAGTTCGATAAACAGATTTAGTTTTTAAA
* * **
3130 TACCTTATTAATTTTT-GAAATATTAATAAATTAGTATTATTTT-TTCTGAATAATTTTGTATGA
1 TA-CTTATTAATTTTTAG-AATATTAATAAATTAATATTATTTTATTCTAAATAAGATTGTATGA
* *
3193 ACAAAAACAATTATTTTATGACAAAACAAAATGTCATAACAATTTGAAATAGATAA-TAGTTCAA
64 ACAAAAACAATTATTTTATGACAAAACAAAAGGTCATAACAATTTGAAATAAATAATTA-TTCAA
** * * * * *
3257 ATAGACATAACTACCTGAAA-TTGTT---TAGTA-A-A-TT-G----T-CA
128 ATATTCATAACTA-TTTAAACTAGTTCGATA-AACAGATTTAGTTTTTAAA
* * * * * *
3295 -ACTCATTAA-TTTTATAATTTTAATAAATTAGTATTATTTTATTCTAAATAAAATTGTATGAAT
1 TACTTATTAATTTTTAGAATATTAATAAATTAATATTATTTTATTCTAAATAAGATTGTATGAAC
* * * *
3358 AGAAACAATTATTTTATGACCAAACAAAAGATCATATAACAATTTGAAATAAATAATTGTTCAAA
66 AAAAACAATTATTTTATGACAAAACAAAAGGTC--ATAACAATTTGAAATAAATAATTATTCAAA
* * * * *
3423 TAGTCATAACTATTTGAACTCA-CTC-ATTAAACAAATTTATTTTTTAAA
129 TATTCATAACTATTTAAACT-AGTTCGA-TAAACAGATTTAGTTTTTAAA
* * *
3471 TCTTTTACTTATTAATTTTTGGAATA--AATAAATTATTATTATTTTATTCCAAATAAGATTGTA
1 -----TACTTATTAATTTTTAGAATATTAATAAATTAATATTATTTTATTCTAAATAAGATTGTA
** * *
3534 TGAACAAAAACAATTGGTTTATGACAAAACAAAAGGTTATAACAATTTGAAATAGATAATTATTC
61 TGAACAAAAACAATTATTTTATGACAAAACAAAAGGTCATAACAATTTGAAATAAATAATTATTC
* *
3599 AAATAGTT-ATAACTATTT-GACGT-GTTCAGA-AAACAGATTTATTTTTTAAA
126 AAATA-TTCATAACTATTTAAAC-TAGTTC-GATAAACAGATTTAGTTTTTAAA
* * * * *
3649 TTTTTACTTTTTAATTTCTAGAATATTAATAAATTTATATTATTTTATTCAAAATAAG-TCTGCA
1 ----TACTTATTAATTTTTAGAATATTAATAAATTAATATTATTTTATTCTAAATAAGAT-TGTA
** * * * * *** * *
3713 TGATTAGAACCAATTATCTTATGACAAAATAAAAGGTCATAATGTTTTGAAATAGATAATTATTT
61 TGAACAAAAACAATTATTTTATGACAAAACAAAAGGTCATAACAATTTGAAATAAATAATTATTC
* *
3778 AGATAATCATAAC
126 AAATATTCATAAC
3791 AAAAGATTCT
Statistics
Matches: 950, Mismatches: 181, Indels: 130
0.75 0.14 0.10
Matches are distributed among these distances:
162 28 0.03
163 54 0.06
164 4 0.00
165 40 0.04
166 2 0.00
167 1 0.00
168 3 0.00
169 1 0.00
170 3 0.00
171 2 0.00
172 1 0.00
173 3 0.00
174 1 0.00
175 1 0.00
176 93 0.10
177 193 0.20
178 31 0.03
179 133 0.14
180 26 0.03
181 307 0.32
182 16 0.02
183 7 0.01
ACGTcount: A:0.42, C:0.09, G:0.09, T:0.40
Consensus pattern (176 bp):
TACTTATTAATTTTTAGAATATTAATAAATTAATATTATTTTATTCTAAATAAGATTGTATGAAC
AAAAACAATTATTTTATGACAAAACAAAAGGTCATAACAATTTGAAATAAATAATTATTCAAATA
TTCATAACTATTTAAACTAGTTCGATAAACAGATTTAGTTTTTAAA
Found at i:3578 original size:344 final size:338
Alignment explanation
Indices: 2975--3613 Score: 840
Period size: 344 Copynumber: 1.9 Consensus size: 338
2965 TTTCAAAATA
* * * *
2975 TTAATCAATTAATATTATTATATTCTAAATAAACTTATATGAACAAAACATTTGTTTTACGACAA
1 TTAATAAATTAATATTATTATATTCTAAATAAAATTATATGAACAAAACAATTATTTTACGACAA
* * * *
3040 AACAAAAGGTCATAATAATTTGAAATAAATAATTATTCATATATTCATAACTATTTAAAACTAGA
66 AACAAAAGATCATAACAATTTGAAATAAATAATTATTCAAATAGTCATAACTATTTAAAACTAGA
*
3105 TCGATAAACAGATTTAGTTTTTAAATACCTTATTAATTTTTGAAATATTAATAAATTAGTATTAT
131 TCGATAAACAAATTTAGTTTTTAAATACCTTATTAATTTTTGAAATA-TAATAAATTAGTATTAT
** ** * *
3170 TTTTTCTGAATAATTTTGTATGAACAAAAACAATTATTTTATGACAAAACAAAATGTCATAACAA
195 TTTTTCCAAATAAGATTGTATGAACAAAAACAATTAGTTTATGACAAAACAAAAGGTCATAACAA
3235 TTTGAAATAGATAA-TAGTTCAAATAGACATAACTACCTGAAATTGTTTAGTAAATTGTCAACTC
260 TTTGAAATAGATAATTA-TTCAAATAGACATAACTACCTGAAATTGTTTAGTAAATTGTCAACTC
3299 ATTAATTTTATAATT
324 ATTAATTTTATAATT
* * * * * *
3314 TTAATAAATTAGTATTATTTTATTCTAAATAAAATTGTATGAATAGAAACAATTATTTTATGACC
1 TTAATAAATTAATATTATTATATTCTAAATAAAATTATATGAACA-AAACAATTATTTTACGACA
* *
3379 AAACAAAAGATCATATAACAATTTGAAATAAATAATTGTTCAAATAGTCATAACTATTT-GAACT
65 AAACAAAAGATC--ATAACAATTTGAAATAAATAATTATTCAAATAGTCATAACTATTTAAAACT
* * *
3443 CA-CTC-ATTAAACAAATTTATTTTTTAAAT-CTTTTACTTATTAATTTTTGGAATA-AATAAAT
128 -AGATCGA-TAAACAAATTTAGTTTTTAAATAC-----CTTATTAATTTTTGAAATATAATAAAT
* *
3504 TATTATTATTTTATTCCAAATAAGATTGTATGAACAAAAACAATTGGTTTATGACAAAACAAAAG
186 TAGTATTATTTT-TTCCAAATAAGATTGTATGAACAAAAACAATTAGTTTATGACAAAACAAAAG
* **
3569 GTTATAACAATTTGAAATAGATAATTATTCAAATAGTTATAACTA
250 GTCATAACAATTTGAAATAGATAATTATTCAAATAGACATAACTA
3614 TTTGACGTGT
Statistics
Matches: 257, Mismatches: 31, Indels: 19
0.84 0.10 0.06
Matches are distributed among these distances:
339 39 0.15
340 28 0.11
341 26 0.10
342 42 0.16
343 18 0.07
344 84 0.33
345 20 0.08
ACGTcount: A:0.45, C:0.09, G:0.08, T:0.39
Consensus pattern (338 bp):
TTAATAAATTAATATTATTATATTCTAAATAAAATTATATGAACAAAACAATTATTTTACGACAA
AACAAAAGATCATAACAATTTGAAATAAATAATTATTCAAATAGTCATAACTATTTAAAACTAGA
TCGATAAACAAATTTAGTTTTTAAATACCTTATTAATTTTTGAAATATAATAAATTAGTATTATT
TTTTCCAAATAAGATTGTATGAACAAAAACAATTAGTTTATGACAAAACAAAAGGTCATAACAAT
TTGAAATAGATAATTATTCAAATAGACATAACTACCTGAAATTGTTTAGTAAATTGTCAACTCAT
TAATTTTATAATT
Found at i:3605 original size:179 final size:177
Alignment explanation
Indices: 3315--3790 Score: 546
Period size: 179 Copynumber: 2.6 Consensus size: 177
3305 TTTATAATTT
* * * *
3315 TAATAAATTAGTATTATTTTATTCTAAATAAAATTGTATGAATAGAAACAATTATTTTATGACCA
1 TAATAAATTATTATTATTTTATTCAAAATAAGATTGTATGAATAGAAACAATTA-TTTATGACAA
* * *
3380 AACAAAAGATCATATAACAATTTGAAATAAATAATTGTTCAAATAGTCATAACTATTTGAAC-TC
65 AACAAAAGGT--TATAACAATTTGAAATAGATAATTATTCAAATAGTCATAACTATTTG-ACGT-
** * *
3444 ACTCATTAAACAAATTTATTTTTTAAATCTTTTACTTATTAATTTTTGGAATA
126 ACTCAGAAAACAAATTTATTTTTTAAAT-TTTTACTTATTAATTTCTAGAATA
* * * *
3497 -AATAAATTATTATTATTTTATTCCAAATAAGATTGTATGAACAAAAACAATTGGTTTATGACAA
1 TAATAAATTATTATTATTTTATTCAAAATAAGATTGTATGAATAGAAACAATT-ATTTATGACAA
* **
3561 AACAAAAGGTTATAACAATTTGAAATAGATAATTATTCAAATAGTTATAACTATTTGACGTGTTC
65 AACAAAAGGTTATAACAATTTGAAATAGATAATTATTCAAATAGTCATAACTATTTGACGTACTC
* *
3626 AGAAAACAGATTTATTTTTTAAATTTTTACTTTTTAATTTCTAGAATA
130 AGAAAACAAATTTATTTTTTAAATTTTTACTTATTAATTTCTAGAATA
* * *
3674 TTAATAAATT-TATATTATTTTATTCAAAATAAG-TCTGCATGATTAGAACCAATTATCTTATGA
1 -TAATAAATTAT-TATTATTTTATTCAAAATAAGAT-TGTATGAATAGAAACAATTAT-TTATGA
* * *** * * *
3737 CAAAATAAAAGGTCATAATGTTTTGAAATAGATAATTATTTAGATAATCATAAC
62 CAAAACAAAAGGTTATAACAATTTGAAATAGATAATTATTCAAATAGTCATAAC
3791 AAAAGATTCT
Statistics
Matches: 252, Mismatches: 35, Indels: 17
0.83 0.12 0.06
Matches are distributed among these distances:
177 21 0.08
178 28 0.11
179 138 0.55
181 65 0.26
ACGTcount: A:0.43, C:0.09, G:0.08, T:0.40
Consensus pattern (177 bp):
TAATAAATTATTATTATTTTATTCAAAATAAGATTGTATGAATAGAAACAATTATTTATGACAAA
ACAAAAGGTTATAACAATTTGAAATAGATAATTATTCAAATAGTCATAACTATTTGACGTACTCA
GAAAACAAATTTATTTTTTAAATTTTTACTTATTAATTTCTAGAATA
Found at i:4453 original size:177 final size:177
Alignment explanation
Indices: 3932--4635 Score: 484
Period size: 181 Copynumber: 4.0 Consensus size: 177
3922 TGAAATACTT
* ** *
3932 ATAATTATTTGAACCAATTCAGTAAATAGAA-TTATTTTCTAAATCTCTTACCTATAAATTTTTG
1 ATAACTATTTGAACTGATTCAGTAAATA-AATTTATTTTTTAAATCTCTTA--T-T-AA-TTTTG
* * * * *
3996 AAATATTAATAAATTAGTTTTATTCT-TTCCTGAATAAACTTGTATGAGCTGAAATA-ATAT-TT
60 AAATATTAATAAATTAGTATTATTTTATTTC-GAATAAACTTGTATGA-CTGAAAAACAAATGTT
* * * * * *
4058 TTATGACAAAACAAAAGCTCATAACAATTTAAAATAAATCATTATT-AATATAGTC
123 TTATGACAAAACAAAAGGTAATAACAATTTAAAATAGATAATTGTTCAA-ACAGTC
* * * * * ** *
4113 TTAACTATTTTAACTTATTCGGCAAATGGATTTATTTTTTAAATCTCTTAGTTATTAATTTTCAA
1 ATAACTATTTGAACTGATTCAGTAAATAAATTTATTTTTTAAATCTC----TTATTAATTTT-GA
* * * * *
4178 AATTTTACTAAATTAGTATTATTTTAATAT-GAATAAGCTTGTATGAACT--AAAACAATTGTTT
61 AATATTAATAAATTAGTATTATTTT-ATTTCGAATAAACTTGTATG-ACTGAAAAACAAATGTTT
* *
4240 TGA-GATAGAACAAAAGGTTAA-AACAATTTAAAATAGATAATTGTTCAAACAGTC
124 T-ATGACAAAACAAAAGG-TAATAACAATTTAAAATAGATAATTGTTCAAACAGTC
* *
4294 ATATA-TATTTGAACTGGTTCAGTAAACAAATTTATTTTTTAAATCTCTTATTAATTCTTGAAAT
1 ATA-ACTATTTGAACTGATTCAGTAAATAAATTTATTTTTTAAATCTCTTATTAATT-TTGAAAT
* *
4358 GTTAATAAATTAGTATTATTTTATTTCGAATAAACTTGTAT-ATTGAAAAACAAATGTTTTATGA
64 ATTAATAAATTAGTATTATTTTATTTCGAATAAACTTGTATGACTGAAAAACAAATGTTTTATGA
* * * * * *
4422 CAAAACACAAGGTAATAACGATTTGAAATAGATAGTTGTTCAAA-TGGC
129 CAAAACAAAAGGTAATAACAATTTAAAATAGATAATTGTTCAAACAGTC
* ** * * ** *
4470 TATAATTATTCAAACTGATTTAGCAAATTGATTTATTTTTTAAATATCTTACTT-A--TT--AAT
1 -ATAACTATTTGAACTGATTCAGTAAATAAATTTATTTTTTAAATCTCTTA-TTAATTTTGAAAT
* * * * * * * *
4530 -TTAATAAAGTAGTA-T-TTTTATTTTGGATAAACTTTTACGAACT--AAAATAATTATTTTATG
64 ATTAATAAATTAGTATTATTTTATTTCGAATAAACTTGTATG-ACTGAAAAACAAATGTTTTATG
* * * *
4590 ACAAAACAGAAGGTCATAGA-GATTTTAAATAGATAATTGTTCAAAC
128 ACAAAACAAAAGGTAATA-ACAATTTAAAATAGATAATTGTTCAAAC
4636 TTATTCGATA
Statistics
Matches: 420, Mismatches: 75, Indels: 67
0.75 0.13 0.12
Matches are distributed among these distances:
169 72 0.17
170 2 0.00
171 15 0.04
172 3 0.01
174 2 0.00
175 2 0.00
176 10 0.02
177 135 0.32
178 4 0.01
179 3 0.01
180 7 0.02
181 152 0.36
182 8 0.02
183 2 0.00
185 3 0.01
ACGTcount: A:0.40, C:0.09, G:0.10, T:0.41
Consensus pattern (177 bp):
ATAACTATTTGAACTGATTCAGTAAATAAATTTATTTTTTAAATCTCTTATTAATTTTGAAATAT
TAATAAATTAGTATTATTTTATTTCGAATAAACTTGTATGACTGAAAAACAAATGTTTTATGACA
AAACAAAAGGTAATAACAATTTAAAATAGATAATTGTTCAAACAGTC
Found at i:5907 original size:181 final size:179
Alignment explanation
Indices: 5592--6325 Score: 705
Period size: 181 Copynumber: 4.1 Consensus size: 179
5582 ATTTAGTACA
* * * * ** * * * * *
5592 ATTTGAAATAAATAAATGTTCAAATTGTTATAACTAATTGAACT-AGTATGGTAAATAGATTTAT
1 ATTTGAAATAGATAATTGTTTAAATAGCCATAACTATTTGAACTGA-TTTGATAAACAAATTTAT
* * *
5656 TTATTAAATCTCT--TATTAATTTTTGA-AATATTAATAAATTAATATTATTTTATTTCGAACAA
65 TTTTTAAATCTCTACTATTAA-TTTTCATAATATTAATAAATTAATATTATTTTATTTCGAATAA
* * * *
5718 ACTTATATGAACAAAAACATTTGTTTTATGATAAAACAAAAGGTTATAATG
129 GCTTATATGAAGAAAAACAATTGTTTTATGACAAAACAAAAGGTTATAATG
* * * * * * *
5769 ATTTGAAATAGATAATTATTCATATAGCCTTAACTATTTGAATTGGTTTGGTAAACAAATTTATT
1 ATTTGAAATAGATAATTGTTTAAATAGCCATAACTATTTGAACTGATTTGATAAACAAATTTATT
* * * *
5834 TTTTAAATCAATC-AGCTATTAAATTTCATAATATTACTAGATTAGTATTATTTTATTTCGAATA
66 TTTTAAATC--TCTA-CTATTAATTTTCATAATATTAATAAATTAATATTATTTTATTTCGAATA
* * *
5898 AGCTTATATGAAGATAAATAATTGTTTTATGACAAAACAAAAGGTTATAACG
128 AGCTTATATGAAGAAAAACAATTGTTTTATGACAAAACAAAAGGTTATAATG
* * * *
5950 ATTGGAAATATATAATTGTTTAAATAGTCATAACTATTTGAACTGATTTGATAAACAGATTTATT
1 ATTTGAAATAGATAATTGTTTAAATAGCCATAACTATTTGAACTGATTTGATAAACAAATTTATT
* * * *
6015 TTTTAAATTTCCTACTTTTAATTTTTCA-AATATTAATAAATTAGTATTATTTTA-TTCTAAATA
66 TTTTAAATCT-CTACTATTAA-TTTTCATAATATTAATAAATTAATATTATTTTATTTC-GAATA
* * * * *
6078 GGCTTGTAT-AATGAAAAACAATTATTTTATGACAAAACAAAA-GTTCTTAATA
128 AGCTTATATGAA-GAAAAACAATTGTTTTATGACAAAACAAAAGGTT-ATAATG
* * * ** *
6130 ATTTGAAATAGATAATTGTTTAAATGGCCATAATTATTTGAACTGATTCGATAAATTAATTTATG
1 ATTTGAAATAGATAATTGTTTAAATAGCCATAACTATTTGAACTGATTTGATAAACAAATTTATT
* * * *
6195 TTTTAAATCTCTAACTTATCAATTTTTATAATATTAATAAAGTAATATTATTTTATTT-TAGATA
66 TTTTAAATCTCT-AC-TATTAATTTTCATAATATTAATAAATTAATATTATTTTATTTCGA-ATA
* *** * * * *
6259 AGCTTTTATGAATTGAAACAATTGTTTTATGATAAAATATAAGGTCATAATG
128 AGCTTATATGAAGAAAAACAATTGTTTTATGACAAAACAAAAGGTTATAATG
*
6311 ATTTTAAATAGATAA
1 ATTTGAAATAGATAA
6326 GTAAAAAATA
Statistics
Matches: 454, Mismatches: 83, Indels: 36
0.79 0.14 0.06
Matches are distributed among these distances:
177 58 0.13
179 13 0.03
180 148 0.33
181 229 0.50
182 6 0.01
ACGTcount: A:0.41, C:0.07, G:0.10, T:0.42
Consensus pattern (179 bp):
ATTTGAAATAGATAATTGTTTAAATAGCCATAACTATTTGAACTGATTTGATAAACAAATTTATT
TTTTAAATCTCTACTATTAATTTTCATAATATTAATAAATTAATATTATTTTATTTCGAATAAGC
TTATATGAAGAAAAACAATTGTTTTATGACAAAACAAAAGGTTATAATG
Found at i:7096 original size:182 final size:181
Alignment explanation
Indices: 6771--8013 Score: 962
Period size: 180 Copynumber: 7.0 Consensus size: 181
6761 CATTAATTTT
* * * *
6771 TAAATAAATTTA-TTTTTAAAAT-TTTTACTTATTAATTTTTGAAACATTAATAAATTTA-TATT
1 TAAATAGATTTATTTTTTTAAATCTCTTACTTATTAATTTTTGAAATATTAATAAA-TTAGTATT
* * * * **
6833 ATTCTATTTGAAATAAGCTTGA-ATGAATAGAACCAATTGTTTTATGACAAAGCAAAAGGTTGTA
65 ATTTTATTTCAAATAAGCTT-ATATGAA-AGAAACAATTGTTTTATGACAAAACAAAAGGTCATA
*
6897 ATGTTTTGAAATAGATAATTATT-AAGATAGTCATAACTATTTGAACTTGTTCGA
128 ATGATTTGAAATAGATAATTATTCAA-ATAGTCATAACTATTTGAACTTGTTCGA
* * *
6951 TAAATAGATTTATTTTTTTAATTCTCTTACTTTTTAATTTTTGGAATATTAATAAATTAGTATTA
1 TAAATAGATTTATTTTTTTAAATCTCTTACTTATTAATTTTTGAAATATTAATAAATTAGTATTA
* * * * * * * *
7016 TTTTATTTCAAATAAACTAACATGAATTGAAACAATTGTTTTATTACAAAACAAAATGTTACAAT
66 TTTTATTTCAAATAAGCTTATATGAA-AGAAACAATTGTTTTATGACAAAACAAAAGGTCATAAT
* * * *
7081 GATTTGAAGTAGATAATTATTCAAATAGTCATGACTATTTGAACTTGTTTGG
130 GATTTGAAATAGATAATTATTCAAATAGTCATAACTATTTGAACTTGTTCGA
* * * * * *
7133 T--A-A-ACTTATTTTTTAAAAATCTTTTACTTATTAATTGTTGAAATATTAATAAATCAATATT
1 TAAATAGATTTATTTTTT-TAAATCTCTTACTTATTAATTTTTGAAATATTAATAAATTAGTATT
* * * * * * *
7194 ATTTTAATCCGAATAAGCTTGTATGGACAAG-AACAAGTATTTTATGACAAAACAAAAAGTCATA
65 ATTTTATTTCAAATAAGCTTATAT-GA-AAGAAACAATTGTTTTATGACAAAACAAAAGGTCATA
* * * * *
7258 A-GAATTTGAAATAAATAATTATTCAGATAGTCATAACGATTTGAATTTATTCGA
128 ATG-ATTTGAAATAGATAATTATTCAAATAGTCATAACTATTTGAACTTGTTCGA
* * * *** *
7312 TAAATAGATTTA-TGTTTTAAATCTTTTACTTATTAATTGTCCTAATATTAATAAATTTGTATTA
1 TAAATAGATTTATTTTTTTAAATCTCTTACTTATTAATTTTTGAAATATTAATAAATTAGTATTA
* * ** ** * * * **
7376 TTTTATTTGAAGTAAGCTTATATGAACA-AATGAATCATTATATGACAAACCAAAAGGTTATAGC
66 TTTTATTTCAAATAAGCTTATATGAA-AGAAACAATTGTTTTATGACAAAACAAAAGGTCATAAT
* ** * * * * * *
7440 AATTCAAAATCA-ATAATTATTCAAATGGCCATAATTATTTAAACTTGTTTGG
130 GATTTGAAAT-AGATAATTATTCAAATAGTCATAACTATTTGAACTTGTTCGA
* * * *
7492 TAAATAGATTCA-TTTTTTAAATCTCTTAATTATTAA-TTTTCAGAATATTAATAACA-TGGTAT
1 TAAATAGATTTATTTTTTTAAATCTCTTACTTATTAATTTTTGA-AATATTAATAA-ATTAGTAT
* * * *
7554 TATTTTATTTCCAATAACCTTATAT-AAACTAAAATAAGTT-TTTTATGACAAAACAAAAGGTCA
64 TATTTTATTTCAAATAAGCTTATATGAAA--GAAACAA-TTGTTTTATGACAAAACAAAAGGTCA
* * * * *
7617 TAACGATTTGAAATATATAACTATTCAAATAG---T--C-A--TG-AC-TGTCCAGG
126 TAATGATTTGAAATAGATAATTATTCAAATAGTCATAACTATTTGAACTTGTTC-GA
* * * * * * **
7664 TAAACATATTTA-TTTCTAAAAT-TTTTAACTTATTAATTGTCAAAATATTAATAAATTAGTATT
1 TAAATAGATTTATTTTTTTAAATCTCTT-ACTTATTAATTTTTGAAATATTAATAAATTAGTATT
* * * * * * *
7727 ATTTTAATCCAAATAAGCTTTTAT-AATAGAAACAATTGTTTTATAATAGAACAAAATGTCATAA
65 ATTTTATTTCAAATAAGCTTATATGAA-AGAAACAATTGTTTTATGACAAAACAAAAGGTCATAA
* * * * ** *
7791 AGATTTGAAATAAATAATTGTTAAAATAGTCATAACTATTTGAACAAGTTTGA
129 TGATTTGAAATAGATAATTATTCAAATAGTCATAACTATTTGAACTTGTTCGA
* *
7844 TAAATAGATTTA-TTTTTTAAA-C-C--ACTTTTTAATTTTTGAAATATTAATAGATTAGTATTA
1 TAAATAGATTTATTTTTTTAAATCTCTTACTTATTAATTTTTGAAATATTAATAAATTAGTATTA
* * * * * * *
7904 CTTTATTTCTAATAAACTTATATGAACA-AAACCATTTGTTTTAGGACAAAACAAAAAGTAATAA
66 TTTTATTTCAAATAAGCTTATATGAA-AGAAA-CAATTGTTTTATGACAAAACAAAAGGTCATAA
* *
7968 TGATTTGAAATATG-TAATTATTCAAATAGTCATAATTATTTAAACT
129 TGATTTGAAATA-GATAATTATTCAAATAGTCATAACTATTTGAACT
8014 GATTAGGTAA
Statistics
Matches: 837, Mismatches: 182, Indels: 91
0.75 0.16 0.08
Matches are distributed among these distances:
170 2 0.00
171 58 0.07
172 67 0.08
173 5 0.01
174 1 0.00
175 1 0.00
176 53 0.06
177 67 0.08
178 13 0.02
179 135 0.16
180 170 0.20
181 123 0.15
182 136 0.16
183 6 0.01
ACGTcount: A:0.41, C:0.09, G:0.09, T:0.41
Consensus pattern (181 bp):
TAAATAGATTTATTTTTTTAAATCTCTTACTTATTAATTTTTGAAATATTAATAAATTAGTATTA
TTTTATTTCAAATAAGCTTATATGAAAGAAACAATTGTTTTATGACAAAACAAAAGGTCATAATG
ATTTGAAATAGATAATTATTCAAATAGTCATAACTATTTGAACTTGTTCGA
Found at i:7527 original size:361 final size:357
Alignment explanation
Indices: 6771--7652 Score: 859
Period size: 361 Copynumber: 2.4 Consensus size: 357
6761 CATTAATTTT
* * *
6771 TAAATAAATTTATTTTTAAAAT-TTTTACTTATTAATTTTTGAAACATTAATAAATTTATATTAT
1 TAAAT-AA-TTATTTTTTAAATCTTTTACTTATTAA-TTTTGAAATATTAATAAA-TAATATTAT
* ** * * * * **
6835 TCT-ATTTGAAATAAGCTTGAATGA-ATAGAACCAATTGTTTTATGACAAAGCAAAAGGTTGTAA
62 TTTAATCCG-AATAAGCTTGTATGACA-AGAA-CAAGTATTTTATGACAAAACAAAAGGTCATAA
* * * * * *
6898 TGTTTTGAAATAGATAATTATTAAGATAGTCATAACTATTTGAACTTGTTCGATAAATAGATTTA
124 CGATTTGAAATAAATAATTATTCAGATAGTCATAACGATTTGAACTTATTCGATAAATAGATTTA
* * * * **
6963 TTTTTTTAATTCTCTTACTTTTTAATTTTTGGAATATTAATAAATTAGTATTATTTTATTTCAAA
189 TTGTTTTAAATCTCTTACTTATTAATTGTCCGAATATTAATAAATTAGTATTATTTTATTTCAAA
* ** * * * ** ** *
7028 TAAACTAACATGAATTGAAACAATTGTTTTATTACAAAACAAAATGTTACAATGATTTGAAGTAG
254 TAAACTAACATGAA-TCAAACAATCATTATATGACAAAACAAAAGGTTACAACAATTCAAAATAG
* * *
7093 ATAATTATTCAAATAGTCATGACTATTTGAACTTGTTTGG
318 ATAATTATTCAAATAGCCATAACTATTTAAACTTGTTTGG
*
7133 T-AA-ACTTATTTTTTAAAAATCTTTTACTTATTAATTGTTGAAATATTAATAAATCAATATTAT
1 TAAATAATTATTTTTT--AAATCTTTTACTTATTAATT-TTGAAATATTAATAAAT-AATATTAT
*
7196 TTTAATCCGAATAAGCTTGTATGGACAAGAACAAGTATTTTATGACAAAACAAAAAGTCATAA-G
62 TTTAATCCGAATAAGCTTGTAT-GACAAGAACAAGTATTTTATGACAAAACAAAAGGTCATAACG
*
7260 AATTTGAAATAAATAATTATTCAGATAGTCATAACGATTTGAATTTATTCGATAAATAGATTTA-
126 -ATTTGAAATAAATAATTATTCAGATAGTCATAACGATTTGAACTTATTCGATAAATAGATTTAT
* * * * *
7324 TGTTTTAAATCTTTTACTTATTAATTGTCCTAATATTAATAAATTTGTATTATTTTATTTGAAGT
190 TGTTTTAAATCTCTTACTTATTAATTGTCCGAATATTAATAAATTAGTATTATTTTATTTCAAAT
* * * * * * *
7389 AAGCTTATATGAA-CAAATGAATCATTATATGACAAACCAAAAGGTTATAGCAATTCAAAATCA-
255 AAACTAACATGAATCAAA-CAATCATTATATGACAAAACAAAAGGTTACAACAATTCAAAAT-AG
* *
7452 ATAATTATTCAAATGGCCATAATTATTTAAACTTGTTTGG
318 ATAATTATTCAAATAGCCATAACTATTTAAACTTGTTTGG
* * * **
7492 TAAATAGATTCATTTTTTAAATCTCTTAATTATTAATTTTCAGAATATTAATAACATGGTATTAT
1 TAAATA-ATT-ATTTTTTAAATCTTTTACTTATTAATTTTGA-AATATTAATAA-ATAATATTAT
* * * * * *
7557 TTTATTTCC-AATAACCTTATATAAACTAA-AATAAGTTTTTTATGACAAAACAAAAGGTCATAA
62 TTTA-ATCCGAATAAGCTTGTAT-GAC-AAGAACAAGTATTTTATGACAAAACAAAAGGTCATAA
* * *
7620 CGATTTGAAATATATAACTATTCAAATAGTCAT
124 CGATTTGAAATAAATAATTATTCAGATAGTCAT
7653 GACTGTCCAG
Statistics
Matches: 429, Mismatches: 71, Indels: 41
0.79 0.13 0.08
Matches are distributed among these distances:
358 11 0.03
359 66 0.15
360 78 0.18
361 246 0.57
362 20 0.05
363 8 0.02
ACGTcount: A:0.40, C:0.09, G:0.10, T:0.41
Consensus pattern (357 bp):
TAAATAATTATTTTTTAAATCTTTTACTTATTAATTTTGAAATATTAATAAATAATATTATTTTA
ATCCGAATAAGCTTGTATGACAAGAACAAGTATTTTATGACAAAACAAAAGGTCATAACGATTTG
AAATAAATAATTATTCAGATAGTCATAACGATTTGAACTTATTCGATAAATAGATTTATTGTTTT
AAATCTCTTACTTATTAATTGTCCGAATATTAATAAATTAGTATTATTTTATTTCAAATAAACTA
ACATGAATCAAACAATCATTATATGACAAAACAAAAGGTTACAACAATTCAAAATAGATAATTAT
TCAAATAGCCATAACTATTTAAACTTGTTTGG
Found at i:7864 original size:352 final size:352
Alignment explanation
Indices: 6995--8001 Score: 954
Period size: 352 Copynumber: 2.8 Consensus size: 352
6985 TAATTTTTGG
* * * *
6995 AATATTAATAAATTAGTATTATTTTATTTCAAATAAACTAACATGAATTGAAACAATTGTTTTAT
1 AATATTAATAAATTAGTATTATTTTATTTCAAATAAGCTTATATGAATAGAAACAATTGTTTTAT
* * * * * *
7060 TACAAAACAAAATGTTACAATGATTTGAAGTAGATAATTATTCAAATAGTCATGACTATTTGAAC
66 AAC-AAACAAAATGTTATAAAGATTTGAAATAAATAATTATTCAAATAGTCATAACTATTTGAAC
* *
7125 TTGTTTGGT--A-A-ACTTATTTTTTAAAAATCTTTTACTTATTAATTGTT-GAAATATTAATAA
130 TTGTTTGGTAAATAGATTTATTTTTT--AAATCTCTTACTTATTAATT-TTAG-AATATTAATAA
* * * * * *
7185 ATCAATATTATTTTA-ATCCGAATAAGCTTGTATGGACAAGAACAAGTATTTTATGACAAAACAA
191 AT-AGTATTATTTTATTTCC-AATAAACTTATATGAACAA-AACAAGTTTTTTATGACAAAACAA
* * * **
7249 AAAGTCATAAGAATTTGAAATAAATAATTATTCAGATAGTCATAACGATTTGAATTTATTCGATA
253 AAAGTCATAAG-ATTTGAAATATATAATTATTCAAATAGTCAT-A-GATCTG-ATCCA-T-GATA
* * **
7314 AATAGATTTATGTTTTAAATCTTTTACTTATTAATTGTCCT
312 AACAGATTTATGTTTAAAATCTTTTACTTATTAATTGTCAA
* * * * ** ** *
7355 AATATTAATAAATTTGTATTATTTTATTTGAAGTAAGCTTATATGAACA-AATGAATCATTATAT
1 AATATTAATAAATTAGTATTATTTTATTTCAAATAAGCTTATATGAATAGAAACAATTGTTTTAT
* * * ** * * * * *
7419 GACAAACCAAAAGGTTATAGCA-ATTCAAAATCAATAATTATTCAAATGGCCATAATTATTTAAA
66 AACAAA-CAAAATGTTATA-AAGATTTGAAATAAATAATTATTCAAATAGTCATAACTATTTGAA
* *
7483 CTTGTTTGGTAAATAGATTCATTTTTTAAATCTCTTAATTATTAATTTTCAGAATATTAATAACA
129 CTTGTTTGGTAAATAGATTTATTTTTTAAATCTCTTACTTATTAATTTT-AGAATATTAATAA-A
* * * * *
7548 TGGTATTATTTTATTTCCAATAACCTTATATAAACTAAAATAAGTTTTTTATGACAAAACAAAAG
192 TAGTATTATTTTATTTCCAATAAACTTATATGAAC-AAAACAAGTTTTTTATGACAAAACAAAAA
* * *
7613 GTCATAACGATTTGAAATATATAACTATTCAAATAGTCAT-GA-CTG-TCCA-GGTAAACATATT
256 GTCATAA-GATTTGAAATATATAATTATTCAAATAGTCATAGATCTGATCCATGATAAACAGATT
7674 TAT-TTCTAAAAT-TTTTAACTTATTAATTGTCAA
320 TATGTT-TAAAATCTTTT-ACTTATTAATTGTCAA
* * *
7707 AATATTAATAAATTAGTATTATTTTAATCCAAATAAGCTTTTAT-AATAGAAACAATTGTTTTAT
1 AATATTAATAAATTAGTATTATTTTATTTCAAATAAGCTTATATGAATAGAAACAATTGTTTTAT
* * * *
7771 AATAGAACAAAATGTCATAAAGATTTGAAATAAATAATTGTTAAAATAGTCATAACTATTTGAAC
66 AACA-AACAAAATGTTATAAAGATTTGAAATAAATAATTATTCAAATAGTCATAACTATTTGAAC
** * * * *
7836 AAGTTTGATAAATAGATTTATTTTTTAAA-C-C--ACTTTTTAATTTTTGAAATATTAATAGATT
130 TTGTTTGGTAAATAGATTTATTTTTTAAATCTCTTACTTATTAATTTTAG-AATATTAATA-AAT
* * * * *
7897 AGTATTACTTTATTTCTAATAAACTTATATGAACAAAACCATTTGTTTTAGGACAAAACAAAAAG
193 AGTATTATTTTATTTCCAATAAACTTATATGAACAAAACAAGTT-TTTTATGACAAAACAAAAAG
* *
7962 TAATAATGATTTGAAATATGTAATTATTCAAATAGTCATA
257 TCATAA-GATTTGAAATATATAATTATTCAAATAGTCATA
8002 ATTATTTAAA
Statistics
Matches: 524, Mismatches: 102, Indels: 53
0.77 0.15 0.08
Matches are distributed among these distances:
347 8 0.02
348 104 0.20
349 1 0.00
350 1 0.00
351 11 0.02
352 150 0.29
353 2 0.00
355 2 0.00
357 2 0.00
358 5 0.01
359 64 0.12
360 43 0.08
361 112 0.21
362 10 0.02
363 9 0.02
ACGTcount: A:0.42, C:0.09, G:0.09, T:0.40
Consensus pattern (352 bp):
AATATTAATAAATTAGTATTATTTTATTTCAAATAAGCTTATATGAATAGAAACAATTGTTTTAT
AACAAACAAAATGTTATAAAGATTTGAAATAAATAATTATTCAAATAGTCATAACTATTTGAACT
TGTTTGGTAAATAGATTTATTTTTTAAATCTCTTACTTATTAATTTTAGAATATTAATAAATAGT
ATTATTTTATTTCCAATAAACTTATATGAACAAAACAAGTTTTTTATGACAAAACAAAAAGTCAT
AAGATTTGAAATATATAATTATTCAAATAGTCATAGATCTGATCCATGATAAACAGATTTATGTT
TAAAATCTTTTACTTATTAATTGTCAA
Found at i:8103 original size:16 final size:16
Alignment explanation
Indices: 8084--8117 Score: 52
Period size: 16 Copynumber: 2.1 Consensus size: 16
8074 AAATATTAAA
8084 AAATTTATAA-TAATAT
1 AAATTTA-AATTAATAT
8100 AAATTTAAATTAATAT
1 AAATTTAAATTAATAT
8116 AA
1 AA
8118 TAATAATAAT
Statistics
Matches: 17, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
15 2 0.12
16 15 0.88
ACGTcount: A:0.59, C:0.00, G:0.00, T:0.41
Consensus pattern (16 bp):
AAATTTAAATTAATAT
Found at i:8519 original size:24 final size:23
Alignment explanation
Indices: 8492--8550 Score: 66
Period size: 24 Copynumber: 2.5 Consensus size: 23
8482 AGCTGTAAAC
8492 AAATTACAAAATTAATAATTT-TTT
1 AAATTACAAAA-T-ATAATTTATTT
**
8516 AAATTATTAAATATAATTTATTT
1 AAATTACAAAATATAATTTATTT
8539 AATATTACAAAA
1 AA-ATTACAAAA
8551 CTATTATTAA
Statistics
Matches: 29, Mismatches: 4, Indels: 4
0.78 0.11 0.11
Matches are distributed among these distances:
22 7 0.24
23 6 0.21
24 16 0.55
ACGTcount: A:0.53, C:0.03, G:0.00, T:0.44
Consensus pattern (23 bp):
AAATTACAAAATATAATTTATTT
Found at i:8999 original size:181 final size:181
Alignment explanation
Indices: 8682--9960 Score: 935
Period size: 181 Copynumber: 7.2 Consensus size: 181
8672 TATTAACATA
** * * ** * *
8682 ACAAAACAAAAAATCATAA-CATGTTGAAATAAATAATTACTCAAATAGCCATAA-TGATTAGAA
1 ACAAAACAAAAGGTCATAATGAT-TTGAAATAGATAATTGTTCAAATAGTCATAACT-ATTTGAA
* *
8745 CTTGTTTGGTAAACAAATTTA-TTTTTAAATCTTTTACTTATCAATTGTCTT--AATATTAATAA
64 -TTGTTTGGTAAACAAATTTATTTTTTAAATCTCTTACTTATTAATT-T-TTGAAATATTAATAA
*
8807 ATTTA-TATTATTTTA-TTCGAAATAAGCTTAG-ATGAACAGAAAAAATTCTTTTATT
126 A-TTAGTATTATTTTATTTCGAAATAAGCTTAGTATGAACAGAAAAAATT-TTTTATG
* * * * * * * *
8862 ACAAAACAAAAGGTTATAGCT-ATTTCAAATAGATAATTATTCAAACAGTCCTAATTATTTAAAT
1 ACAAAACAAAAGGTCATA-ATGATTTGAAATAGATAATTGTTCAAATAGTCATAACTATTTGAA-
* * * * *
8926 TTGTTTAGTAAACAAAGTCATTTTTTAAATCTCTTTA-TTATTAATTTTTGGATTATTAATAAAT
64 TTGTTTGGTAAACAAATTTATTTTTTAAATCTC-TTACTTATTAATTTTTGAAATATTAATAAAT
* * * *
8990 TAGTATTATTTTATTTTG-AATAAGCTTA-TATGAACTGAAACAACTCTTTTATG
128 TAGTATTATTTTATTTCGAAATAAGCTTAGTATGAACAGAAA-AAATTTTTTATG
* * * * * *
9043 ACAAATCAAAAGGTCATAACGATTTGAAATAGATAATTATTCAAATTGTCATGATTATTT--ATC
1 ACAAAACAAAAGGTCATAATGATTTGAAATAGATAATTGTTCAAATAGTCATAACTATTTGAAT-
* * * * * * **
9106 TAGTGTGGTAAAC--A--TATTTTTAAAATTTTTTACTTACTAATTGTCAAAATATTAATAAATT
65 T-GTTTGGTAAACAAATTTATTTTTTAAATCTCTTACTTATTAATTTTTGAAATATTAATAAATT
* * * * * *
9167 AGTATTATTTTAATGC-AAATAAGCTT-GTATGAATAGAAACAA-TTGTCA--
129 AGTATTATTTTATTTCGAAATAAGCTTAGTATGAACAGAAAAAATTTTTTATG
* * * *
9215 ACAGAATAAAAAGTCATAATGATTTGAAATAAATAATTGCTT-AAATAGTCATAACTATTTGAAC
1 ACAAAACAAAAGGTCATAATGATTTGAAATAGATAATTG-TTCAAATAGTCATAACTATTTGAA-
* * * * * * * *
9279 TAGTTTGATATATAGATTTATTGTCTAAA--TC--ACTTATTAATTTTTGAAATATTAATAGATT
64 TTGTTTGGTAAACAAATTTATTTTTTAAATCTCTTACTTATTAATTTTTGAAATATTAATAAATT
* * * *
9340 AGTATTACTTTATTCCG-AATAAACTTA-TATGAACA-AAAACATTTGTTGTATG
129 AGTATTATTTTATTTCGAAATAAGCTTAGTATGAACAGAAAAAATTT-TT-TATG
* * * * *
9392 ACAAAACAAAAAGTAATAATGATTTGAAATACATAATTGTTCAAATAGT-ATAATTTTTTTGAAT
1 ACAAAACAAAAGGTCATAATGATTTGAAATAGATAATTGTTCAAATAGTCATAA-CTATTTGAAT
* * *
9456 TGGTTAGGTAAA-AAGAATTATTTTTTAAATCTCTTACTTATTATTTTTTGAAATATTAATAAAT
65 T-GTTTGGTAAACAA-ATTTATTTTTTAAATCTCTTACTTATTAATTTTTGAAATATTAATAAAT
* ** *
9520 TCA-T-TTTTTTTATTTC-AAATAAGC-TAGTATGAATTGAGAAAATTGTTTTATG
128 T-AGTATTATTTTATTTCGAAATAAGCTTAGTATGAACAGAAAAAATT-TTTTATG
* ** * *
9572 ACAAGACAAAAGGTCATAACAATTTGAAATAGATAATTGTTCATATAGTCTTAACTATTTGAATG
1 ACAAAACAAAAGGTCATAATGATTTGAAATAGATAATTGTTCAAATAGTCATAACTATTTGAAT-
* * ** * * * * *
9637 GGTTCGACAAACAAATTTATTTTTTAAATCCCTTAGTTATTAATTTTTGGAATATTATTAGATTA
65 TGTTTGGTAAACAAATTTATTTTTTAAATCTCTTACTTATTAATTTTTGAAATATTAATAAATTA
* *
9702 GTATTGTTTTATTTTG-AATAAGCTT-GTATGAACA-AAAATAATTGTTTTATG
130 GTATTATTTTATTTCGAAATAAGCTTAGTATGAACAGAAAA-AATT-TTTTATG
* * * * * * *
9753 ACATAACAAAAGGTTATAATGATTTGAAGTATAGAATTGTTCAAATAGTCATAACTATTTAAACG
1 ACAAAACAAAAGGTCATAATGATTTGAAATAGATAATTGTTCAAATAGTCATAACTATTTGAA-T
* ** * * * *
9818 GGTCCGGTAAACAGATTCATTTTTTAAA--TC-T-CTTATTAATTTTTTAAAGATTAATAAATTA
65 TGTTTGGTAAACAAATTTATTTTTTAAATCTCTTACTTATTAATTTTTGAAATATTAATAAATTA
* * * *
9879 TTATTATTTTATTTC-AAATAATCAT-GTATGATA-A-AAAACAATTGTTATATG
130 GTATTATTTTATTTCGAAATAAGCTTAGTATGA-ACAGAAAA-AATT-TTTTATG
* * * *
9930 ACCAAAGAAAAGGTGATAACGATTTGAAATA
1 ACAAAACAAAAGGTCATAATGATTTGAAATA
9961 ATATCTTATT
Statistics
Matches: 868, Mismatches: 175, Indels: 115
0.75 0.15 0.10
Matches are distributed among these distances:
172 51 0.06
173 64 0.07
174 5 0.01
175 8 0.01
176 73 0.08
177 165 0.19
178 4 0.00
179 10 0.01
180 204 0.24
181 272 0.31
182 12 0.01
ACGTcount: A:0.41, C:0.08, G:0.11, T:0.40
Consensus pattern (181 bp):
ACAAAACAAAAGGTCATAATGATTTGAAATAGATAATTGTTCAAATAGTCATAACTATTTGAATT
GTTTGGTAAACAAATTTATTTTTTAAATCTCTTACTTATTAATTTTTGAAATATTAATAAATTAG
TATTATTTTATTTCGAAATAAGCTTAGTATGAACAGAAAAAATTTTTTATG
Found at i:10212 original size:22 final size:24
Alignment explanation
Indices: 10185--10229 Score: 60
Period size: 22 Copynumber: 2.0 Consensus size: 24
10175 TTATTATATA
10185 TTAATAATT-ATTA-AT-TAATTTT
1 TTAAT-ATTAATTATATATAATTTT
10207 TTAATATTAATTATATATAATTT
1 TTAATATTAATTATATATAATTT
10230 GATTATAATA
Statistics
Matches: 20, Mismatches: 0, Indels: 4
0.83 0.00 0.17
Matches are distributed among these distances:
21 3 0.15
22 9 0.45
23 2 0.10
24 6 0.30
ACGTcount: A:0.42, C:0.00, G:0.00, T:0.58
Consensus pattern (24 bp):
TTAATATTAATTATATATAATTTT
Found at i:10369 original size:22 final size:22
Alignment explanation
Indices: 10339--10381 Score: 59
Period size: 22 Copynumber: 2.0 Consensus size: 22
10329 TTTTATTAGC
* * *
10339 TATTCTAATATTTATTTAATAT
1 TATTATAATAATTATTAAATAT
10361 TATTATAATAATTATTAAATA
1 TATTATAATAATTATTAAATA
10382 ATAATTTAAA
Statistics
Matches: 18, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
22 18 1.00
ACGTcount: A:0.44, C:0.02, G:0.00, T:0.53
Consensus pattern (22 bp):
TATTATAATAATTATTAAATAT
Found at i:11832 original size:14 final size:13
Alignment explanation
Indices: 11811--11845 Score: 52
Period size: 14 Copynumber: 2.6 Consensus size: 13
11801 AATAATTATT
*
11811 ATAAATATTTATA
1 ATAAATATTAATA
11824 ATCAAATATTAATA
1 AT-AAATATTAATA
11838 ATAAATAT
1 ATAAATAT
11846 ATTTTAATAA
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
13 8 0.40
14 12 0.60
ACGTcount: A:0.57, C:0.03, G:0.00, T:0.40
Consensus pattern (13 bp):
ATAAATATTAATA
Found at i:11833 original size:23 final size:24
Alignment explanation
Indices: 11786--11902 Score: 71
Period size: 24 Copynumber: 4.8 Consensus size: 24
11776 TTTTTGTTTA
*
11786 TATAAATTATTTATTAATAATTAT
1 TATAAATTATTTATTAATAAATAT
11810 TATAAA-TATTTA-TAATCAAATAT
1 TATAAATTATTTATTAAT-AAATAT
* * *
11833 TAATAATAAATATATT-TTAATAACTAA
1 T-AT-A-AATTAT-TTATTAATAAATAT
* * *
11860 TATAACTTATATT-TAAATAAGTAT
1 TATAAATTAT-TTATTAATAAATAT
* *
11884 TATTAATTAATTATTAATA
1 TATAAATTATTTATTAATA
11903 TTATAATTAA
Statistics
Matches: 73, Mismatches: 12, Indels: 16
0.72 0.12 0.16
Matches are distributed among these distances:
22 4 0.05
23 14 0.19
24 35 0.48
25 2 0.03
26 4 0.05
27 8 0.11
28 6 0.08
ACGTcount: A:0.50, C:0.03, G:0.01, T:0.47
Consensus pattern (24 bp):
TATAAATTATTTATTAATAAATAT
Found at i:11913 original size:12 final size:12
Alignment explanation
Indices: 11896--11976 Score: 53
Period size: 12 Copynumber: 6.6 Consensus size: 12
11886 TTAATTAATT
11896 ATTAATATTATA
1 ATTAATATTATA
11908 ATTAATATTAATTA
1 ATTAATATT-A-TA
*
11922 TTTAATAGTATATA
1 ATTAATA-T-TATA
11936 ATTAAGTA--AT-
1 ATTAA-TATTATA
* *
11946 ATTAAAATTATT
1 ATTAATATTATA
11958 ATATAA-ATTATA
1 AT-TAATATTATA
11970 ATTAATA
1 ATTAATA
11977 GATAGTATAT
Statistics
Matches: 55, Mismatches: 4, Indels: 20
0.70 0.05 0.25
Matches are distributed among these distances:
9 1 0.02
10 5 0.09
11 7 0.13
12 19 0.35
13 4 0.07
14 14 0.25
15 4 0.07
16 1 0.02
ACGTcount: A:0.51, C:0.00, G:0.02, T:0.47
Consensus pattern (12 bp):
ATTAATATTATA
Found at i:11917 original size:25 final size:28
Alignment explanation
Indices: 11889--11940 Score: 83
Period size: 28 Copynumber: 2.0 Consensus size: 28
11879 AGTATTATTA
11889 ATTAATTA-TTAATA-T-TATAATTAAT
1 ATTAATTATTTAATAGTATATAATTAAT
11914 ATTAATTATTTAATAGTATATAATTAA
1 ATTAATTATTTAATAGTATATAATTAA
11941 GTAATATTAA
Statistics
Matches: 24, Mismatches: 0, Indels: 3
0.89 0.00 0.11
Matches are distributed among these distances:
25 8 0.33
26 6 0.25
27 1 0.04
28 9 0.38
ACGTcount: A:0.48, C:0.00, G:0.02, T:0.50
Consensus pattern (28 bp):
ATTAATTATTTAATAGTATATAATTAAT
Found at i:11917 original size:32 final size:32
Alignment explanation
Indices: 11868--11976 Score: 86
Period size: 32 Copynumber: 3.5 Consensus size: 32
11858 AATATAACTT
*
11868 ATATT-TAAATAAGTATTATTAATTAATTATTA
1 ATATTATAATTAA-TATTATTAATTAATTATTA
* *
11900 ATATTATAATTAATATTAATTATTTAA-TAGT-
1 ATATTATAATTAATATT-ATTAATTAATTATTA
* * *
11931 ATATAATTAAGTAATATTA-AAATT-ATTATATA
1 ATATTA-TAATTAATATTATTAATTAATTAT-TA
11963 A-ATTATAATTAATA
1 ATATTATAATTAATA
11977 GATAGTATAT
Statistics
Matches: 61, Mismatches: 10, Indels: 14
0.72 0.12 0.16
Matches are distributed among these distances:
29 1 0.02
30 13 0.21
31 10 0.16
32 23 0.38
33 14 0.23
ACGTcount: A:0.50, C:0.00, G:0.03, T:0.48
Consensus pattern (32 bp):
ATATTATAATTAATATTATTAATTAATTATTA
Found at i:12412 original size:23 final size:23
Alignment explanation
Indices: 12386--12445 Score: 57
Period size: 27 Copynumber: 2.4 Consensus size: 23
12376 ATATCTATAC
12386 AATTATTAAATTAATTAAATAAT
1 AATTATTAAATTAATTAAATAAT
* * *
12409 AATTAAATATTTAATTAATTTATTAAT
1 AA-T---TATTAAATTAATTAAATAAT
12436 AATTATTAAA
1 AATTATTAAA
12446 ATTACTAGTT
Statistics
Matches: 29, Mismatches: 4, Indels: 8
0.71 0.10 0.20
Matches are distributed among these distances:
23 8 0.28
24 1 0.03
26 1 0.03
27 19 0.66
ACGTcount: A:0.53, C:0.00, G:0.00, T:0.47
Consensus pattern (23 bp):
AATTATTAAATTAATTAAATAAT
Found at i:12424 original size:27 final size:27
Alignment explanation
Indices: 12389--12440 Score: 77
Period size: 27 Copynumber: 1.9 Consensus size: 27
12379 TCTATACAAT
12389 TATTAAATTAATTAAATAATAATTAAA
1 TATTAAATTAATTAAATAATAATTAAA
* * *
12416 TATTTAATTAATTTATTAATAATTA
1 TATTAAATTAATTAAATAATAATTA
12441 TTAAAATTAC
Statistics
Matches: 22, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
27 22 1.00
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (27 bp):
TATTAAATTAATTAAATAATAATTAAA
Found at i:12752 original size:18 final size:18
Alignment explanation
Indices: 12691--12753 Score: 67
Period size: 18 Copynumber: 3.3 Consensus size: 18
12681 AAAGTTTTAT
12691 TTATTTTATATATATAATA
1 TTATTTTATA-ATATAATA
12710 GTTTAATTTT-TAATATAA-A
1 --TT-ATTTTATAATATAATA
12729 TATATTTTATAATATAATA
1 T-TATTTTATAATATAATA
12748 TTATTT
1 TTATTT
12754 ATTAATAGTA
Statistics
Matches: 38, Mismatches: 0, Indels: 11
0.78 0.00 0.22
Matches are distributed among these distances:
17 6 0.16
18 14 0.37
19 3 0.08
20 6 0.16
21 4 0.11
22 5 0.13
ACGTcount: A:0.41, C:0.00, G:0.02, T:0.57
Consensus pattern (18 bp):
TTATTTTATAATATAATA
Found at i:12754 original size:17 final size:17
Alignment explanation
Indices: 12695--12760 Score: 53
Period size: 18 Copynumber: 3.5 Consensus size: 17
12685 TTTTATTTAT
12695 TTTATATATATAATAGTTTAA
1 TTTATA-ATATAATA--TT-A
*
12716 TTTTTAATATAA-ATATA
1 TTTATAATATAATAT-TA
12733 TTTTATAATATAATATTA
1 -TTTATAATATAATATTA
12751 TTTATTAATA
1 TTTA-TAATA
12761 GTAAGTAAAA
Statistics
Matches: 39, Mismatches: 2, Indels: 11
0.75 0.04 0.21
Matches are distributed among these distances:
17 6 0.15
18 19 0.49
19 3 0.08
20 6 0.15
21 5 0.13
ACGTcount: A:0.44, C:0.00, G:0.02, T:0.55
Consensus pattern (17 bp):
TTTATAATATAATATTA
Found at i:12759 original size:18 final size:18
Alignment explanation
Indices: 12715--12810 Score: 56
Period size: 18 Copynumber: 5.1 Consensus size: 18
12705 TAATAGTTTA
12715 ATTT-TTAATATAA-ATAT
1 ATTTATTAATATAATAT-T
12732 ATTT-TATAATATAATATT
1 ATTTAT-TAATATAATATT
*
12750 ATTTATTAATAGTAAGTAAAAATA
1 ATTTATTAATA-TAA-T----ATT
* *
12774 ATTTATTAATATATTATA
1 ATTTATTAATATAATATT
*
12792 ATTTATAAATAT-ATATT
1 ATTTATTAATATAATATT
12809 AT
1 AT
12811 AATATCAATT
Statistics
Matches: 65, Mismatches: 5, Indels: 18
0.74 0.06 0.20
Matches are distributed among these distances:
17 10 0.15
18 32 0.49
19 6 0.09
20 1 0.02
22 1 0.02
23 2 0.03
24 13 0.20
ACGTcount: A:0.48, C:0.00, G:0.02, T:0.50
Consensus pattern (18 bp):
ATTTATTAATATAATATT
Found at i:12811 original size:25 final size:27
Alignment explanation
Indices: 12794--12897 Score: 65
Period size: 28 Copynumber: 3.8 Consensus size: 27
12784 ATATTATAAT
*
12794 TTATAA-A-TATATATTATAATATCAA
1 TTATAATATTATATATTATATTATCAA
* *
12819 TTATAATTATTATATATGATATTAT-TA
1 TTATAA-TATTATATATTATATTATCAA
* * *
12846 TTAAAATATTTAAATAATATT-TGTTATTAA
1 TTATAATA-TT--AT-ATATTATATTATCAA
12876 TTAATAATATTATA-ATTATATT
1 TT-ATAATATTATATATTATATT
12898 TATATTATTA
Statistics
Matches: 60, Mismatches: 9, Indels: 18
0.69 0.10 0.21
Matches are distributed among these distances:
25 6 0.10
26 5 0.08
27 13 0.22
28 15 0.25
29 7 0.12
30 9 0.15
31 5 0.08
ACGTcount: A:0.46, C:0.01, G:0.02, T:0.51
Consensus pattern (27 bp):
TTATAATATTATATATTATATTATCAA
Found at i:12912 original size:21 final size:22
Alignment explanation
Indices: 12883--12930 Score: 64
Period size: 21 Copynumber: 2.2 Consensus size: 22
12873 TAATTAATAA
12883 TATTATAATTATA-TT-TATAT
1 TATTATAATTATAGTTATATAT
12903 TATTAATAATTATAGTTAATATAT
1 TATT-ATAATTATAGTT-ATATAT
12927 TATT
1 TATT
12931 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:12995 original size:26 final size:24
Alignment explanation
Indices: 12946--13002 Score: 69
Period size: 26 Copynumber: 2.2 Consensus size: 24
12936 ATTTAATTTA
*
12946 ATATAATTTATAATAATTGTTAAT
1 ATATAATTTATAATAATTGGTAAT
*
12970 ATATAATTATATTTATAATTGGTAAT
1 ATATAATT-TA-TAATAATTGGTAAT
12996 ATTATAA
1 A-TATAA
13003 ATAGTATCTA
Statistics
Matches: 28, Mismatches: 2, Indels: 3
0.85 0.06 0.09
Matches are distributed among these distances:
24 8 0.29
25 2 0.07
26 13 0.46
27 5 0.18
ACGTcount: A:0.46, C:0.00, G:0.05, T:0.49
Consensus pattern (24 bp):
ATATAATTTATAATAATTGGTAAT
Found at i:13653 original size:25 final size:23
Alignment explanation
Indices: 13622--13698 Score: 68
Period size: 25 Copynumber: 3.3 Consensus size: 23
13612 AGTTTATTTA
13622 AATAATTTAAATATAATTATAATT
1 AATAATTT-AATATAATTATAATT
*
13646 AATGAATTTAATGATAATAATAATT
1 AAT-AATTTAAT-ATAATTATAATT
* * *
13671 -GTTATTTAAT-TATTTATAAATT
1 AATAATTTAATATAATTAT-AATT
13693 AATAAT
1 AATAAT
13699 ATTTAAATAT
Statistics
Matches: 42, Mismatches: 7, Indels: 9
0.72 0.12 0.16
Matches are distributed among these distances:
21 5 0.12
22 4 0.10
23 10 0.24
24 7 0.17
25 16 0.38
ACGTcount: A:0.49, C:0.00, G:0.04, T:0.47
Consensus pattern (23 bp):
AATAATTTAATATAATTATAATT
Found at i:13908 original size:20 final size:20
Alignment explanation
Indices: 13880--13950 Score: 58
Period size: 20 Copynumber: 3.5 Consensus size: 20
13870 GACTATTAAT
*
13880 AATATTTATAATCATATATA
1 AATAATTATAATCATATATA
*
13900 AATAATTATAAACAAATATATA
1 AATAATTATAATC--ATATATA
*
13922 TTATAATTAT-AT-ATATAT-
1 -AATAATTATAATCATATATA
*
13940 TATAATTATAA
1 AATAATTATAA
13951 AATTATTATA
Statistics
Matches: 43, Mismatches: 4, Indels: 10
0.75 0.07 0.18
Matches are distributed among these distances:
17 9 0.21
18 1 0.02
19 6 0.14
20 11 0.26
22 8 0.19
23 8 0.19
ACGTcount: A:0.54, C:0.03, G:0.00, T:0.44
Consensus pattern (20 bp):
AATAATTATAATCATATATA
Found at i:13926 original size:17 final size:17
Alignment explanation
Indices: 13904--13944 Score: 55
Period size: 17 Copynumber: 2.4 Consensus size: 17
13894 TATATAAATA
13904 ATTATAAACAAATATAT
1 ATTATAAACAAATATAT
** *
13921 ATTATAATTATATATAT
1 ATTATAAACAAATATAT
13938 ATTATAA
1 ATTATAA
13945 TTATAAAATT
Statistics
Matches: 21, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
17 21 1.00
ACGTcount: A:0.54, C:0.02, G:0.00, T:0.44
Consensus pattern (17 bp):
ATTATAAACAAATATAT
Found at i:13941 original size:11 final size:13
Alignment explanation
Indices: 13916--13963 Score: 52
Period size: 11 Copynumber: 4.1 Consensus size: 13
13906 TATAAACAAA
13916 TATATATTATAAT
1 TATATATTATAAT
13929 TATATA-TAT-AT
1 TATATATTATAAT
13940 TATA-ATTATAA-
1 TATATATTATAAT
*
13951 AAT-TATTATAAT
1 TATATATTATAAT
13963 T
1 T
13964 TAAATAATAT
Statistics
Matches: 29, Mismatches: 2, Indels: 9
0.73 0.05 0.22
Matches are distributed among these distances:
10 1 0.03
11 18 0.62
12 4 0.14
13 6 0.21
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (13 bp):
TATATATTATAAT
Found at i:13945 original size:17 final size:17
Alignment explanation
Indices: 13915--13982 Score: 77
Period size: 17 Copynumber: 3.9 Consensus size: 17
13905 TTATAAACAA
13915 ATATATATTATAATTAT
1 ATATATATTATAATTAT
13932 ATATATATTATAATTAT
1 ATATATATTATAATTAT
*
13949 A-AAATTATTATAATT-T
1 ATATA-TATTATAATTAT
*
13965 AAATAATATATATAATTA
1 ATAT-ATAT-TATAATTA
13983 AAAACTAATT
Statistics
Matches: 44, Mismatches: 2, Indels: 8
0.81 0.04 0.15
Matches are distributed among these distances:
16 4 0.09
17 32 0.73
18 8 0.18
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (17 bp):
ATATATATTATAATTAT
Found at i:13958 original size:34 final size:34
Alignment explanation
Indices: 13920--13986 Score: 93
Period size: 35 Copynumber: 2.0 Consensus size: 34
13910 AACAAATATA
*
13920 TATTATAA-TTATAT-ATATATTATAATTATAAAAT
1 TATTATAATTTAAATAATATA-TATAATTA-AAAAT
13954 TATTATAATTTAAATAATATATATAATTAAAAA
1 TATTATAATTTAAATAATATATATAATTAAAAA
13987 CTAATTTATT
Statistics
Matches: 30, Mismatches: 1, Indels: 4
0.86 0.03 0.11
Matches are distributed among these distances:
34 12 0.40
35 13 0.43
36 5 0.17
ACGTcount: A:0.54, C:0.00, G:0.00, T:0.46
Consensus pattern (34 bp):
TATTATAATTTAAATAATATATATAATTAAAAAT
Found at i:14515 original size:16 final size:16
Alignment explanation
Indices: 14442--14507 Score: 54
Period size: 14 Copynumber: 4.5 Consensus size: 16
14432 ATTTATTTTT
*
14442 AATTGATTAATAATTA
1 AATTAATTAATAATTA
*
14458 AAAT-A-T-AT-ATTA
1 AATTAATTAATAATTA
* *
14470 AATTATTTAATGATT-
1 AATTAATTAATAATTA
14485 -ATTAATTAATAATTA
1 AATTAATTAATAATTA
14500 AATTAATT
1 AATTAATT
14508 GATTATTATA
Statistics
Matches: 39, Mismatches: 5, Indels: 12
0.70 0.09 0.21
Matches are distributed among these distances:
12 7 0.18
13 2 0.05
14 14 0.36
15 3 0.08
16 13 0.33
ACGTcount: A:0.50, C:0.00, G:0.03, T:0.47
Consensus pattern (16 bp):
AATTAATTAATAATTA
Found at i:15292 original size:14 final size:14
Alignment explanation
Indices: 15233--15292 Score: 56
Period size: 14 Copynumber: 4.4 Consensus size: 14
15223 AACTAGTTTA
15233 TATAATTATAATTA-
1 TATAATTA-AATTAT
*
15247 TATAA-TAACTTAT
1 TATAATTAAATTAT
15260 TAGTAATTAAA-TAT
1 TA-TAATTAAATTAT
*
15274 T-TAATTAAATTCT
1 TATAATTAAATTAT
15287 TATAAT
1 TATAAT
15293 AATAATCAAT
Statistics
Matches: 38, Mismatches: 3, Indels: 10
0.75 0.06 0.20
Matches are distributed among these distances:
12 12 0.32
13 7 0.18
14 16 0.42
15 3 0.08
ACGTcount: A:0.47, C:0.03, G:0.02, T:0.48
Consensus pattern (14 bp):
TATAATTAAATTAT
Found at i:15417 original size:25 final size:24
Alignment explanation
Indices: 15344--15420 Score: 77
Period size: 25 Copynumber: 3.1 Consensus size: 24
15334 TTATCTAATA
15344 AATTAAATATTTATTTAATTAATATAT
1 AATT-AATA-TTA-TTAATTAATATAT
*
15371 -ATTAATAATATT-ATATAATATAT
1 AATTAATATTATTAAT-TAATATAT
*
15394 AATTGAATATTATTAATTATTATAT
1 AATT-AATATTATTAATTAATATAT
15419 AA
1 AA
15421 ACTAATCTAT
Statistics
Matches: 43, Mismatches: 3, Indels: 10
0.77 0.05 0.18
Matches are distributed among these distances:
22 2 0.05
23 10 0.23
24 5 0.12
25 21 0.49
26 5 0.12
ACGTcount: A:0.49, C:0.00, G:0.01, T:0.49
Consensus pattern (24 bp):
AATTAATATTATTAATTAATATAT
Found at i:15548 original size:28 final size:29
Alignment explanation
Indices: 15497--15554 Score: 75
Period size: 28 Copynumber: 2.0 Consensus size: 29
15487 TAATAGCTTA
*
15497 TATAGTTTAAGTTATAAATATTAAT-ATT
1 TATAATTTAAGTTATAAATATTAATCATT
*
15525 TATAATTTAAGTTAT-TATATTTAATCATT
1 TATAATTTAAGTTATAAATA-TTAATCATT
15554 T
1 T
15555 GTATTAATAA
Statistics
Matches: 26, Mismatches: 2, Indels: 3
0.84 0.06 0.10
Matches are distributed among these distances:
27 3 0.12
28 19 0.73
29 4 0.15
ACGTcount: A:0.40, C:0.02, G:0.05, T:0.53
Consensus pattern (29 bp):
TATAATTTAAGTTATAAATATTAATCATT
Found at i:15638 original size:11 final size:11
Alignment explanation
Indices: 15624--15666 Score: 54
Period size: 11 Copynumber: 4.0 Consensus size: 11
15614 TAACTAATAT
15624 ATAATTATTAA
1 ATAATTATTAA
15635 ATAATCTATTAA
1 ATAAT-TATTAA
*
15647 TTAATTATTAA
1 ATAATTATTAA
15658 A-AA-TATTAA
1 ATAATTATTAA
15667 TAGTATAATA
Statistics
Matches: 29, Mismatches: 2, Indels: 4
0.83 0.06 0.11
Matches are distributed among these distances:
9 6 0.21
10 2 0.07
11 11 0.38
12 10 0.34
ACGTcount: A:0.53, C:0.02, G:0.00, T:0.44
Consensus pattern (11 bp):
ATAATTATTAA
Found at i:15699 original size:13 final size:14
Alignment explanation
Indices: 15672--15703 Score: 57
Period size: 13 Copynumber: 2.4 Consensus size: 14
15662 ATTAATAGTA
15672 TAATAATAGTTTAT
1 TAATAATAGTTTAT
15686 TAATAATA-TTTAT
1 TAATAATAGTTTAT
15699 TAATA
1 TAATA
15704 TAAGCTTATA
Statistics
Matches: 18, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
13 10 0.56
14 8 0.44
ACGTcount: A:0.47, C:0.00, G:0.03, T:0.50
Consensus pattern (14 bp):
TAATAATAGTTTAT
Found at i:15893 original size:16 final size:16
Alignment explanation
Indices: 15874--15905 Score: 55
Period size: 16 Copynumber: 2.0 Consensus size: 16
15864 ATTATAAATA
15874 TTTATTATTAACTAAT
1 TTTATTATTAACTAAT
*
15890 TTTATTATTAATTAAT
1 TTTATTATTAACTAAT
15906 AATATTAATA
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
16 15 1.00
ACGTcount: A:0.38, C:0.03, G:0.00, T:0.59
Consensus pattern (16 bp):
TTTATTATTAACTAAT
Found at i:16329 original size:26 final size:25
Alignment explanation
Indices: 16265--16329 Score: 60
Period size: 26 Copynumber: 2.5 Consensus size: 25
16255 GAAGATTTAA
* *
16265 AAAATTAATTAGTTTAAATAATTATT
1 AAAA-TAATTAATTTAAATAAATATT
*
16291 AAATTATAA-TAATTTAATTAAATATTT
1 AAA--ATAATTAATTTAAATAAATA-TT
16318 AAAATAATTAAT
1 AAAATAATTAAT
16330 AATTATATAA
Statistics
Matches: 32, Mismatches: 3, Indels: 8
0.74 0.07 0.19
Matches are distributed among these distances:
25 4 0.12
26 19 0.59
27 8 0.25
28 1 0.03
ACGTcount: A:0.54, C:0.00, G:0.02, T:0.45
Consensus pattern (25 bp):
AAAATAATTAATTTAAATAAATATT
Found at i:16535 original size:23 final size:26
Alignment explanation
Indices: 16509--16568 Score: 72
Period size: 25 Copynumber: 2.4 Consensus size: 26
16499 TAAATATCCC
*
16509 TAATTATT-TAAATATAAT-ATTA-T
1 TAATTATTATAAATATAATAATTACA
*
16532 TAATTAATTATAATTATAATAATTACA
1 TAATT-ATTATAAATATAATAATTACA
16559 TAATTATTAT
1 TAATTATTAT
16569 TGTTATAAAT
Statistics
Matches: 31, Mismatches: 2, Indels: 5
0.82 0.05 0.13
Matches are distributed among these distances:
23 5 0.16
24 3 0.10
25 9 0.29
26 9 0.29
27 5 0.16
ACGTcount: A:0.48, C:0.02, G:0.00, T:0.50
Consensus pattern (26 bp):
TAATTATTATAAATATAATAATTACA
Found at i:16538 original size:19 final size:19
Alignment explanation
Indices: 16511--16588 Score: 56
Period size: 19 Copynumber: 4.2 Consensus size: 19
16501 AATATCCCTA
*
16511 ATTATTTAAATATAATATT
1 ATTAATTAAATATAATATT
*
16530 ATTAATTAATTATAAT-TAT
1 ATTAATTAAATATAATAT-T
* * *
16549 AATAATTACATA-ATTATT
1 ATTAATTAAATATAATATT
*
16567 ATT-GTTATAA-ATAATATT
1 ATTAATTA-AATATAATATT
16585 ATTA
1 ATTA
16589 TTAGCTATGT
Statistics
Matches: 44, Mismatches: 10, Indels: 10
0.69 0.16 0.16
Matches are distributed among these distances:
17 4 0.09
18 15 0.34
19 25 0.57
ACGTcount: A:0.47, C:0.01, G:0.01, T:0.50
Consensus pattern (19 bp):
ATTAATTAAATATAATATT
Found at i:17059 original size:26 final size:27
Alignment explanation
Indices: 17009--17073 Score: 84
Period size: 26 Copynumber: 2.5 Consensus size: 27
16999 TATAAGTAAG
17009 AATTATAATATAATATAAATTTATATT
1 AATTATAATATAATATAAATTTATATT
17036 AATTATTAA-ATAA-AT-AATTGTATATT
1 AATTA-TAATATAATATAAATT-TATATT
17062 AATT-TAATATAA
1 AATTATAATATAA
17074 GCTAATTACA
Statistics
Matches: 35, Mismatches: 0, Indels: 8
0.81 0.00 0.19
Matches are distributed among these distances:
24 3 0.09
25 8 0.23
26 12 0.34
27 9 0.26
28 3 0.09
ACGTcount: A:0.52, C:0.00, G:0.02, T:0.46
Consensus pattern (27 bp):
AATTATAATATAATATAAATTTATATT
Found at i:17510 original size:24 final size:24
Alignment explanation
Indices: 17446--17510 Score: 69
Period size: 24 Copynumber: 2.7 Consensus size: 24
17436 TTATTTATTT
* *
17446 TAAATATTATTTTATT-TAAATTAA
1 TAAATATTA-TTAATTATAAATAAA
*
17470 TAAATAATTAATAATTATAAATAAA
1 TAAAT-ATTATTAATTATAAATAAA
*
17495 TAAATATTATTGATTA
1 TAAATATTATTAATTA
17511 AATCATAACT
Statistics
Matches: 34, Mismatches: 5, Indels: 4
0.79 0.12 0.09
Matches are distributed among these distances:
24 18 0.53
25 16 0.47
ACGTcount: A:0.52, C:0.00, G:0.02, T:0.46
Consensus pattern (24 bp):
TAAATATTATTAATTATAAATAAA
Found at i:17576 original size:6 final size:6
Alignment explanation
Indices: 17549--17595 Score: 57
Period size: 6 Copynumber: 8.3 Consensus size: 6
17539 TCTAAAATTA
17549 TAATAAT TAA-AT TAA-A- TAATAT TAATAT TAATAT TAATAT TAA-AT
1 TAAT-AT TAATAT TAATAT TAATAT TAATAT TAATAT TAATAT TAATAT
17594 TA
1 TA
17596 TTAAAATGAT
Statistics
Matches: 38, Mismatches: 0, Indels: 6
0.86 0.00 0.14
Matches are distributed among these distances:
4 3 0.08
5 11 0.29
6 21 0.55
7 3 0.08
ACGTcount: A:0.55, C:0.00, G:0.00, T:0.45
Consensus pattern (6 bp):
TAATAT
Found at i:17685 original size:17 final size:17
Alignment explanation
Indices: 17634--17685 Score: 50
Period size: 17 Copynumber: 2.9 Consensus size: 17
17624 TTAATTTATT
*
17634 TAATAATTAATAACTATA
1 TAATAATAAATAA-TATA
*
17652 TATCATAATAAAAAATATA
1 TA--ATAATAAATAATATA
*
17671 TAATAATAATTAATA
1 TAATAATAAATAATA
17686 ATTAATATAT
Statistics
Matches: 28, Mismatches: 4, Indels: 5
0.76 0.11 0.14
Matches are distributed among these distances:
17 11 0.39
18 2 0.07
19 6 0.21
20 9 0.32
ACGTcount: A:0.60, C:0.04, G:0.00, T:0.37
Consensus pattern (17 bp):
TAATAATAAATAATATA
Found at i:18481 original size:17 final size:17
Alignment explanation
Indices: 18447--18530 Score: 53
Period size: 17 Copynumber: 4.6 Consensus size: 17
18437 ATATAGTATT
*
18447 ATTATATTATTATTTAA
1 ATTATATTATTATATAA
18464 ATTATATTATT-TGATAA
1 ATTATATTATTAT-ATAA
* * *
18481 ATTAAATAATTGAGATAAATA
1 ATTATATTATT---ATATA-A
*
18502 ATTATATTCTTATACTAA
1 ATTATATTATTATA-TAA
18520 ATTATAATTAT
1 ATTAT-ATTAT
18531 AAGAATTTAT
Statistics
Matches: 50, Mismatches: 9, Indels: 14
0.68 0.12 0.19
Matches are distributed among these distances:
16 1 0.02
17 23 0.46
18 9 0.18
19 5 0.10
20 2 0.04
21 10 0.20
ACGTcount: A:0.45, C:0.02, G:0.04, T:0.49
Consensus pattern (17 bp):
ATTATATTATTATATAA
Found at i:18655 original size:28 final size:25
Alignment explanation
Indices: 18597--18665 Score: 63
Period size: 28 Copynumber: 2.7 Consensus size: 25
18587 TATTATTTTT
18597 TATTAAA--ATATATAATTTAATAA
1 TATTAAATTATATATAATTTAATAA
*
18620 TTTATAAATTATATATAACTTTAAATAAA
1 TAT-TAAATTATATATAA-TTT-AAT-AA
18649 TATTAAATT-TATTATAA
1 TATTAAATTATA-TATAA
18666 ATAAATTAAT
Statistics
Matches: 37, Mismatches: 2, Indels: 9
0.77 0.04 0.19
Matches are distributed among these distances:
23 2 0.05
24 4 0.11
26 8 0.22
27 5 0.14
28 14 0.38
29 4 0.11
ACGTcount: A:0.52, C:0.01, G:0.00, T:0.46
Consensus pattern (25 bp):
TATTAAATTATATATAATTTAATAA
Found at i:18753 original size:23 final size:21
Alignment explanation
Indices: 18622--18776 Score: 58
Period size: 19 Copynumber: 8.0 Consensus size: 21
18612 TTTAATAATT
18622 TATAAATTATATATAACTT-TAA
1 TATAAATTATAT-TAA-TTATAA
* *
18644 -ATAAA-TAT-TAAATT-TAT
1 TATAAATTATATTAATTATAA
* *
18661 TATAAA-TAAATTAATAATAA
1 TATAAATTATATTAATTATAA
*
18681 AAT-AATTATTATT-ATTAT-A
1 TATAAATTA-TATTAATTATAA
**
18700 T-TTCATTAT-TTAATTATAA
1 TATAAATTATATTAATTATAA
*
18719 TATAAA-TA-ATTAATTAATTA
1 TATAAATTATATTAATT-ATAA
18739 TATAAATT-TA-T-ATTATAA
1 TATAAATTATATTAATTATAA
* *
18757 -AT-GATTATAATAATTATAA
1 TATAAATTATATTAATTATAA
18776 T
1 T
18777 TATTTTTTAA
Statistics
Matches: 100, Mismatches: 16, Indels: 36
0.66 0.11 0.24
Matches are distributed among these distances:
16 3 0.03
17 10 0.10
18 20 0.20
19 32 0.32
20 25 0.25
21 10 0.10
ACGTcount: A:0.51, C:0.01, G:0.01, T:0.47
Consensus pattern (21 bp):
TATAAATTATATTAATTATAA
Found at i:19598 original size:21 final size:23
Alignment explanation
Indices: 19555--19604 Score: 59
Period size: 21 Copynumber: 2.2 Consensus size: 23
19545 ATTAGTAAAA
* *
19555 TAATAAATTATATATAATTATAAT
1 TAATAAA-TATATATAATAATAAC
19579 TAATAAA-ATAT-TAATAATAAC
1 TAATAAATATATATAATAATAAC
19600 TAATA
1 TAATA
19605 GTCTAATATA
Statistics
Matches: 24, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
21 13 0.54
22 4 0.17
24 7 0.29
ACGTcount: A:0.58, C:0.02, G:0.00, T:0.40
Consensus pattern (23 bp):
TAATAAATATATATAATAATAAC
Found at i:19825 original size:5 final size:5
Alignment explanation
Indices: 19810--19913 Score: 54
Period size: 5 Copynumber: 20.4 Consensus size: 5
19800 TTTATTAATA
* * *
19810 ATATT ACATT ATATT ATA-A ATATT AAATT ATTATTT ATAATT ATATT
1 ATATT ATATT ATATT ATATT ATATT ATATT A-TA-TT AT-ATT ATATT
* ** * *
19857 AGATT ATTAGA ATAAT AT-TT ATAGT ATAATT ATATT ATA-T AT-TT ATTATT
1 ATATT A-TATT ATATT ATATT ATATT AT-ATT ATATT ATATT ATATT A-TATT
19907 ATATT AT
1 ATATT AT
19914 TTGAATTATT
Statistics
Matches: 74, Mismatches: 15, Indels: 20
0.68 0.14 0.18
Matches are distributed among these distances:
4 11 0.15
5 44 0.59
6 15 0.20
7 4 0.05
ACGTcount: A:0.43, C:0.01, G:0.03, T:0.53
Consensus pattern (5 bp):
ATATT
Found at i:20530 original size:27 final size:28
Alignment explanation
Indices: 20482--20541 Score: 72
Period size: 27 Copynumber: 2.2 Consensus size: 28
20472 TTTATAAAAT
*
20482 TAATATTCAAATATTTAAAATATTTAAC
1 TAATATTCAAATATTTAAAATATTAAAC
*
20510 TAATATT-AAATA-TTAGTAATATTAAAC
1 TAATATTCAAATATTTA-AAATATTAAAC
20537 -AATAT
1 TAATAT
20542 ATTATGTATT
Statistics
Matches: 29, Mismatches: 2, Indels: 4
0.83 0.06 0.11
Matches are distributed among these distances:
26 8 0.28
27 14 0.48
28 7 0.24
ACGTcount: A:0.52, C:0.05, G:0.02, T:0.42
Consensus pattern (28 bp):
TAATATTCAAATATTTAAAATATTAAAC
Found at i:20733 original size:13 final size:13
Alignment explanation
Indices: 20676--20737 Score: 54
Period size: 13 Copynumber: 4.4 Consensus size: 13
20666 TACTATTTGA
20676 TAATAATTT-TAAT
1 TAAT-ATTTATAAT
*
20689 TAATATTTTATTAT
1 TAATA-TTTATAAT
20703 TAAAATATTTAAATAAT
1 T--AATATTT--ATAAT
20720 TAATATTTATAAT
1 TAATATTTATAAT
20733 TAATA
1 TAATA
20738 ATTAATTGTT
Statistics
Matches: 41, Mismatches: 2, Indels: 12
0.75 0.04 0.22
Matches are distributed among these distances:
12 1 0.02
13 17 0.41
14 4 0.10
15 10 0.24
16 4 0.10
17 5 0.12
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (13 bp):
TAATATTTATAAT
Found at i:21478 original size:23 final size:24
Alignment explanation
Indices: 21452--21512 Score: 70
Period size: 24 Copynumber: 2.6 Consensus size: 24
21442 TTTAAATATT
21452 AAATTATATTTATTTCA-AATTAA
1 AAATTATATTTATTTCATAATTAA
* * *
21475 AAATAATATTTATTTGATAATTCA
1 AAATTATATTTATTTCATAATTAA
* *
21499 AATTTAAATTTATT
1 AAATTATATTTATT
21513 GATAAATAAT
Statistics
Matches: 31, Mismatches: 6, Indels: 1
0.82 0.16 0.03
Matches are distributed among these distances:
23 15 0.48
24 16 0.52
ACGTcount: A:0.46, C:0.03, G:0.02, T:0.49
Consensus pattern (24 bp):
AAATTATATTTATTTCATAATTAA
Found at i:21858 original size:18 final size:18
Alignment explanation
Indices: 21816--21858 Score: 50
Period size: 18 Copynumber: 2.4 Consensus size: 18
21806 ATTTGATTTT
*
21816 ATAAATTAAATAGTATTA
1 ATAAATTAAATAGTATAA
* * *
21834 ATTAATTAAGTTGTATAA
1 ATAAATTAAATAGTATAA
21852 ATAAATT
1 ATAAATT
21859 GATATTTATA
Statistics
Matches: 20, Mismatches: 5, Indels: 0
0.80 0.20 0.00
Matches are distributed among these distances:
18 20 1.00
ACGTcount: A:0.51, C:0.00, G:0.07, T:0.42
Consensus pattern (18 bp):
ATAAATTAAATAGTATAA
Found at i:21883 original size:50 final size:49
Alignment explanation
Indices: 21808--21905 Score: 110
Period size: 50 Copynumber: 2.0 Consensus size: 49
21798 AATTACTTAT
*
21808 TTGATTTTATAAATTAAATAGTATTA-ATTAATTAAGTTGTATAAATAAA
1 TTGATTTTATAAATTAAATACTATTAGATTAA-TAAGTTGTATAAATAAA
* * * *
21857 TTGATATTTATACAATT-ATTACTATTAGTTTAATAATTTGTATTAATAA
1 TTGAT-TTTATA-AATTAAATACTATTAGATTAATAAGTTGTATAAATAA
21906 TTAGAGATAG
Statistics
Matches: 41, Mismatches: 5, Indels: 5
0.80 0.10 0.10
Matches are distributed among these distances:
49 5 0.12
50 28 0.68
51 8 0.20
ACGTcount: A:0.43, C:0.02, G:0.07, T:0.48
Consensus pattern (49 bp):
TTGATTTTATAAATTAAATACTATTAGATTAATAAGTTGTATAAATAAA
Found at i:22663 original size:22 final size:22
Alignment explanation
Indices: 22630--22672 Score: 61
Period size: 22 Copynumber: 2.0 Consensus size: 22
22620 CTTTTAGTTA
*
22630 TATTCAAATAATACTATAATAT
1 TATTCAAATAATACAATAATAT
22652 TATT-AAATTAATACAATAATA
1 TATTCAAA-TAATACAATAATA
22673 ATTGTTTATA
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
21 3 0.16
22 16 0.84
ACGTcount: A:0.53, C:0.07, G:0.00, T:0.40
Consensus pattern (22 bp):
TATTCAAATAATACAATAATAT
Found at i:23445 original size:10 final size:10
Alignment explanation
Indices: 23419--23520 Score: 58
Period size: 10 Copynumber: 10.4 Consensus size: 10
23409 AATAAATTAA
*
23419 ATATTAATTT
1 ATATTAATAT
23429 A-ATTAATAT
1 ATATTAATAT
23438 ATATTAATA-
1 ATATTAATAT
23447 ATATT-ATAT
1 ATATTAATAT
23456 AATATATAAT-T
1 -ATAT-TAATAT
*
23467 GGATATTATTA-
1 --ATATTAATAT
23478 ATTATT-ATAT
1 A-TATTAATAT
*
23488 ATAATAATAT
1 ATATTAATAT
*
23498 ATATAAATAT
1 ATATTAATAT
23508 -TATATAAT-T
1 ATAT-TAATAT
23517 ATAT
1 ATAT
23521 AATCCTTCAT
Statistics
Matches: 72, Mismatches: 8, Indels: 24
0.69 0.08 0.23
Matches are distributed among these distances:
8 3 0.04
9 23 0.32
10 35 0.49
11 5 0.07
12 6 0.08
ACGTcount: A:0.49, C:0.00, G:0.02, T:0.49
Consensus pattern (10 bp):
ATATTAATAT
Found at i:23450 original size:47 final size:47
Alignment explanation
Indices: 23413--23507 Score: 122
Period size: 48 Copynumber: 2.0 Consensus size: 47
23403 TTATCTAATA
23413 AATTAAATATTAATTTAATTAATATATATTAATAATATTATATAATATAT
1 AATTAAATATT-A-TTAATTAATATATA-TAATAATATTATATAATATAT
** *
23463 AATTGGATATTATTAATTATTATATATAATAATA-TATATAA-ATAT
1 AATTAAATATTATTAATTAATATATATAATAATATTATATAATATAT
23508 TATATAATTA
Statistics
Matches: 42, Mismatches: 3, Indels: 5
0.84 0.06 0.10
Matches are distributed among these distances:
45 4 0.10
46 7 0.17
47 8 0.19
48 13 0.31
49 1 0.02
50 9 0.21
ACGTcount: A:0.51, C:0.00, G:0.02, T:0.47
Consensus pattern (47 bp):
AATTAAATATTATTAATTAATATATATAATAATATTATATAATATAT
Found at i:23462 original size:25 final size:25
Alignment explanation
Indices: 23434--23523 Score: 73
Period size: 25 Copynumber: 3.6 Consensus size: 25
23424 AATTTAATTA
23434 ATATATATTAATAATATTATATAAT
1 ATATATATTAATAATATTATATAAT
* * *
23459 ATATA-ATTGGATATTATTA-ATTAT
1 ATATATATT-AATAATATTATATAAT
23483 -TATATA-TAATAATA-TATATAAAT
1 ATATATATTAATAATATTATAT-AAT
23506 ATTATATAATTATATAAT
1 A-TATAT-ATTA-ATAAT
23524 CCTTCATATT
Statistics
Matches: 50, Mismatches: 6, Indels: 15
0.70 0.08 0.21
Matches are distributed among these distances:
21 2 0.04
22 7 0.14
23 7 0.14
24 8 0.16
25 18 0.36
26 1 0.02
27 2 0.04
28 5 0.10
ACGTcount: A:0.50, C:0.00, G:0.02, T:0.48
Consensus pattern (25 bp):
ATATATATTAATAATATTATATAAT
Found at i:23533 original size:60 final size:61
Alignment explanation
Indices: 23414--23545 Score: 150
Period size: 60 Copynumber: 2.2 Consensus size: 61
23404 TATCTAATAA
* * *
23414 ATTAAATATTA-ATTTAATTAATATATATTAATAATATTATATAATATATAATTGGATATT
1 ATTAATTATTATATATAATTAATATATATTAATAATATTATATAATATATAATTGCATATT
*
23474 ATTAATTATTATATATAA-TAATATATA-T-A-AATATTATATAATTATATAATCCTTCATATT
1 ATTAATTATTATATATAATTAATATATATTAATAATATTATATAA-TATATAAT--TGCATATT
23534 ATT-ATATATTAT
1 ATTAAT-TATTAT
23546 TAAAAATAAA
Statistics
Matches: 63, Mismatches: 4, Indels: 10
0.82 0.05 0.13
Matches are distributed among these distances:
57 12 0.19
58 9 0.14
59 3 0.05
60 34 0.54
61 5 0.08
ACGTcount: A:0.47, C:0.02, G:0.02, T:0.49
Consensus pattern (61 bp):
ATTAATTATTATATATAATTAATATATATTAATAATATTATATAATATATAATTGCATATT
Found at i:23737 original size:19 final size:17
Alignment explanation
Indices: 23681--23738 Score: 57
Period size: 19 Copynumber: 3.3 Consensus size: 17
23671 TTTTAAACTC
23681 TTATTAATTTTTGAA-A
1 TTATTAATTTTTGAATA
*
23697 TTGTTAATTGTTT-AATA
1 TTATTAATT-TTTGAATA
23714 TTTATATAATTATTTGAATA
1 -TTAT-TAATT-TTTGAATA
23734 TTATT
1 TTATT
23739 CTAATTTAAG
Statistics
Matches: 34, Mismatches: 3, Indels: 8
0.76 0.07 0.18
Matches are distributed among these distances:
16 10 0.29
17 4 0.12
18 4 0.12
19 12 0.35
20 4 0.12
ACGTcount: A:0.34, C:0.00, G:0.07, T:0.59
Consensus pattern (17 bp):
TTATTAATTTTTGAATA
Found at i:24264 original size:24 final size:23
Alignment explanation
Indices: 24208--24264 Score: 57
Period size: 24 Copynumber: 2.5 Consensus size: 23
24198 TTAACAATAA
24208 ATAATAATT-TATTAAATCTAAT
1 ATAATAATTATATTAAATCTAAT
*
24230 A-AATAATTTATAATTTAATC-AATT
1 ATAATAA-TTAT-ATTAAATCTAA-T
24254 ATAATAATTAT
1 ATAATAATTAT
24265 TATATAGATA
Statistics
Matches: 29, Mismatches: 1, Indels: 8
0.76 0.03 0.21
Matches are distributed among these distances:
21 5 0.17
22 3 0.10
23 3 0.10
24 13 0.45
25 5 0.17
ACGTcount: A:0.51, C:0.04, G:0.00, T:0.46
Consensus pattern (23 bp):
ATAATAATTATATTAAATCTAAT
Found at i:24566 original size:22 final size:22
Alignment explanation
Indices: 24539--24583 Score: 63
Period size: 22 Copynumber: 2.0 Consensus size: 22
24529 TATGAGTGGA
**
24539 AATATAGATTATCTATATTTAT
1 AATATAGATTATAAATATTTAT
*
24561 AATATAGTTTATAAATATTTAT
1 AATATAGATTATAAATATTTAT
24583 A
1 A
24584 TTTTAATAAA
Statistics
Matches: 20, Mismatches: 3, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
22 20 1.00
ACGTcount: A:0.44, C:0.02, G:0.04, T:0.49
Consensus pattern (22 bp):
AATATAGATTATAAATATTTAT
Found at i:24588 original size:17 final size:18
Alignment explanation
Indices: 24563--24596 Score: 52
Period size: 18 Copynumber: 1.9 Consensus size: 18
24553 ATATTTATAA
24563 TATAGTTT-ATAAATATT
1 TATAGTTTAATAAATATT
*
24580 TATATTTTAATAAATAT
1 TATAGTTTAATAAATAT
24597 AAATAAATAT
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
17 7 0.47
18 8 0.53
ACGTcount: A:0.44, C:0.00, G:0.03, T:0.53
Consensus pattern (18 bp):
TATAGTTTAATAAATATT
Found at i:24753 original size:13 final size:12
Alignment explanation
Indices: 24735--24787 Score: 53
Period size: 12 Copynumber: 4.7 Consensus size: 12
24725 ATATATACTT
24735 ATTAATAATTATA
1 ATTAATAA-TATA
24748 ATTAATAATATA
1 ATTAATAATATA
24760 ATT-AT--T-TA
1 ATTAATAATATA
24768 ATTAAATAATA-A
1 ATT-AATAATATA
24780 ATTAATAA
1 ATTAATAA
24788 ATAGTGAAAA
Statistics
Matches: 35, Mismatches: 0, Indels: 12
0.74 0.00 0.26
Matches are distributed among these distances:
8 5 0.14
9 1 0.03
10 2 0.06
11 7 0.20
12 12 0.34
13 8 0.23
ACGTcount: A:0.57, C:0.00, G:0.00, T:0.43
Consensus pattern (12 bp):
ATTAATAATATA
Found at i:24758 original size:28 final size:26
Alignment explanation
Indices: 24712--24779 Score: 72
Period size: 28 Copynumber: 2.6 Consensus size: 26
24702 AAATATTTAG
24712 TAATTAT-ATTAA-AATATATACTTATT
1 TAATTATAATTAATAATATA-A-TTATT
24738 AATAATTATAATTAATAATATAATTATT
1 --TAATTATAATTAATAATATAATTATT
24766 TAATTA-AA-TAATAA
1 TAATTATAATTAATAA
24780 ATTAATAAAT
Statistics
Matches: 38, Mismatches: 0, Indels: 8
0.83 0.00 0.17
Matches are distributed among these distances:
24 6 0.16
25 2 0.05
26 6 0.16
28 12 0.32
29 6 0.16
30 6 0.16
ACGTcount: A:0.53, C:0.01, G:0.00, T:0.46
Consensus pattern (26 bp):
TAATTATAATTAATAATATAATTATT
Found at i:24768 original size:16 final size:16
Alignment explanation
Indices: 24712--24787 Score: 56
Period size: 16 Copynumber: 4.9 Consensus size: 16
24702 AAATATTTAG
24712 TAATTATATTAA-AATA
1 TAATTA-ATTAATAATA
24728 TATACTT-ATTAATAAT-
1 TA-A-TTAATTAATAATA
24744 T-A-TAATTAATAATA
1 TAATTAATTAATAATA
*
24758 TAATTATTTAATTAA-A
1 TAATTAATTAA-TAATA
*
24774 TAATAAATTAATAA
1 TAATTAATTAATAA
24788 ATAGTGAAAA
Statistics
Matches: 49, Mismatches: 3, Indels: 17
0.71 0.04 0.25
Matches are distributed among these distances:
12 1 0.02
13 9 0.18
14 2 0.04
15 4 0.08
16 24 0.49
17 7 0.14
18 2 0.04
ACGTcount: A:0.54, C:0.01, G:0.00, T:0.45
Consensus pattern (16 bp):
TAATTAATTAATAATA
Found at i:25115 original size:14 final size:14
Alignment explanation
Indices: 25040--25148 Score: 59
Period size: 14 Copynumber: 7.9 Consensus size: 14
25030 TATCTAATAA
*
25040 ATTAAATATTA-AT
1 ATTAATTATTATAT
* *
25053 -TTAATTAATATCT
1 ATTAATTATTATAT
25066 ATTAATAATATTATAT
1 ATTAAT--TATTATAT
* * *
25082 AATATATAATTGGT-T
1 ATTA-ATTATT-ATAT
*
25097 ATTAATTATTTTAT
1 ATTAATTATTATAT
25111 ATTAATTATTATAT
1 ATTAATTATTATAT
*
25125 A-TAA-TAATATAT
1 ATTAATTATTATAT
*
25137 A-TAAATATTATA
1 ATTAATTATTATA
25149 CAATTATATA
Statistics
Matches: 74, Mismatches: 14, Indels: 16
0.71 0.13 0.15
Matches are distributed among these distances:
12 19 0.26
13 11 0.15
14 25 0.34
15 7 0.09
16 10 0.14
17 2 0.03
ACGTcount: A:0.47, C:0.01, G:0.02, T:0.50
Consensus pattern (14 bp):
ATTAATTATTATAT
Found at i:25467 original size:13 final size:13
Alignment explanation
Indices: 25405--25482 Score: 61
Period size: 13 Copynumber: 5.8 Consensus size: 13
25395 TAATTAAGAT
25405 ATATAATTATATA
1 ATATAATTATATA
*
25418 ATATAATTAGGTAAA
1 ATATAATTA--TATA
25433 ATAATAATTAT-TA
1 AT-ATAATTATATA
* * *
25446 GTTTAAATTATATT
1 ATAT-AATTATATA
*
25460 ATATAATT-TAAA
1 ATATAATTATATA
25472 ATATAATTATA
1 ATATAATTATA
25483 ACTTAATTAT
Statistics
Matches: 50, Mismatches: 9, Indels: 12
0.70 0.13 0.17
Matches are distributed among these distances:
12 11 0.22
13 23 0.46
14 4 0.08
15 5 0.10
16 7 0.14
ACGTcount: A:0.51, C:0.00, G:0.04, T:0.45
Consensus pattern (13 bp):
ATATAATTATATA
Found at i:25480 original size:20 final size:20
Alignment explanation
Indices: 25429--25482 Score: 67
Period size: 19 Copynumber: 2.8 Consensus size: 20
25419 TATAATTAGG
*
25429 TAAAATAATAATTAT-TAGTT
1 TAAAAT-ATAATTATATAATT
*
25449 TAAATTAT-ATTATATAATT
1 TAAAATATAATTATATAATT
25468 TAAAATATAATTATA
1 TAAAATATAATTATA
25483 ACTTAATTAT
Statistics
Matches: 29, Mismatches: 3, Indels: 4
0.81 0.08 0.11
Matches are distributed among these distances:
18 5 0.17
19 13 0.45
20 11 0.38
ACGTcount: A:0.52, C:0.00, G:0.02, T:0.46
Consensus pattern (20 bp):
TAAAATATAATTATATAATT
Found at i:26068 original size:15 final size:15
Alignment explanation
Indices: 26050--26083 Score: 52
Period size: 15 Copynumber: 2.3 Consensus size: 15
26040 TCTATTTTTT
26050 ATTATTATATTAT-AA
1 ATTATT-TATTATCAA
26065 ATTATTTATTATCAA
1 ATTATTTATTATCAA
26080 ATTA
1 ATTA
26084 AACGAGGTGA
Statistics
Matches: 18, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
14 6 0.33
15 12 0.67
ACGTcount: A:0.44, C:0.03, G:0.00, T:0.53
Consensus pattern (15 bp):
ATTATTTATTATCAA
Found at i:26173 original size:23 final size:21
Alignment explanation
Indices: 26134--26178 Score: 56
Period size: 22 Copynumber: 2.0 Consensus size: 21
26124 ATATAAACTT
26134 ATTTATATAATTAATTATAATA
1 ATTTATATAATTAATTA-AATA
26156 ATTTAATATAA-TATATTAAATA
1 ATTT-ATATAATTA-ATTAAATA
26178 A
1 A
26179 AATATAAACT
Statistics
Matches: 21, Mismatches: 0, Indels: 4
0.84 0.00 0.16
Matches are distributed among these distances:
22 11 0.52
23 10 0.48
ACGTcount: A:0.53, C:0.00, G:0.00, T:0.47
Consensus pattern (21 bp):
ATTTATATAATTAATTAAATA
Found at i:26177 original size:14 final size:14
Alignment explanation
Indices: 26138--26184 Score: 51
Period size: 14 Copynumber: 3.4 Consensus size: 14
26128 AAACTTATTT
*
26138 ATATAATTAATTATA
1 ATAT-ATTAAATATA
*
26153 ATA-ATTTAATATA
1 ATATATTAAATATA
*
26166 ATATATTAAATAAA
1 ATATATTAAATATA
26180 ATATA
1 ATATA
26185 AACTTAGTAT
Statistics
Matches: 27, Mismatches: 4, Indels: 3
0.79 0.12 0.09
Matches are distributed among these distances:
13 11 0.41
14 13 0.48
15 3 0.11
ACGTcount: A:0.57, C:0.00, G:0.00, T:0.43
Consensus pattern (14 bp):
ATATATTAAATATA
Found at i:26404 original size:25 final size:23
Alignment explanation
Indices: 26352--26405 Score: 56
Period size: 25 Copynumber: 2.3 Consensus size: 23
26342 ATATTCATTA
26352 AATAT-ATATTAAAATTATTAAG
1 AATATAATATTAAAATTATTAAG
* * *
26374 ATTATAATATATATAATTATATAAT
1 AATATAATAT-TAAAATTAT-TAAG
26399 AATATAA
1 AATATAA
26406 GATCATTAAA
Statistics
Matches: 25, Mismatches: 4, Indels: 3
0.78 0.12 0.09
Matches are distributed among these distances:
22 4 0.16
23 4 0.16
24 8 0.32
25 9 0.36
ACGTcount: A:0.56, C:0.00, G:0.02, T:0.43
Consensus pattern (23 bp):
AATATAATATTAAAATTATTAAG
Found at i:26544 original size:27 final size:24
Alignment explanation
Indices: 26485--26544 Score: 57
Period size: 27 Copynumber: 2.3 Consensus size: 24
26475 ATATATCTTA
26485 ATAATATTAATTTAATAAATTAATT
1 ATAATA-TAATTTAATAAATTAATT
* * *
26510 AGATTATAATTTCAAATAACTATAATT
1 ATAATATAATTT--AATAAAT-TAATT
26537 ATAATATA
1 ATAATATA
26545 CTTATTTTGA
Statistics
Matches: 27, Mismatches: 5, Indels: 4
0.75 0.14 0.11
Matches are distributed among these distances:
24 6 0.22
25 4 0.15
26 6 0.22
27 11 0.41
ACGTcount: A:0.52, C:0.03, G:0.02, T:0.43
Consensus pattern (24 bp):
ATAATATAATTTAATAAATTAATT
Found at i:26601 original size:29 final size:29
Alignment explanation
Indices: 26564--26619 Score: 69
Period size: 29 Copynumber: 1.9 Consensus size: 29
26554 AAATTATTGC
* *
26564 TTATTATAATTAAATACATTA-TAATATAT
1 TTATCATAAATAAATA-ATTATTAATATAT
*
26593 TTATCATAAATAATTAATTATTAATAT
1 TTATCATAAATAAATAATTATTAATAT
26620 TAAATTATTA
Statistics
Matches: 23, Mismatches: 3, Indels: 2
0.82 0.11 0.07
Matches are distributed among these distances:
28 4 0.17
29 19 0.83
ACGTcount: A:0.48, C:0.04, G:0.00, T:0.48
Consensus pattern (29 bp):
TTATCATAAATAAATAATTATTAATATAT
Found at i:26837 original size:13 final size:13
Alignment explanation
Indices: 26804--26877 Score: 60
Period size: 13 Copynumber: 5.4 Consensus size: 13
26794 ATCAACCACA
26804 TTATATTAATATAT
1 TTATATTAATA-AT
*
26818 TTAATATTTATAAT
1 TT-ATATTAATAAT
*
26832 TTATATTAATAAA
1 TTATATTAATAAT
*
26845 TTATA-AAATAAT
1 TTATATTAATAAT
*
26857 TGTATAATTGTATAAT
1 T-TAT-ATT-AATAAT
26873 TTATA
1 TTATA
26878 AATTAATCAA
Statistics
Matches: 48, Mismatches: 7, Indels: 10
0.74 0.11 0.15
Matches are distributed among these distances:
12 6 0.12
13 17 0.35
14 8 0.17
15 11 0.23
16 6 0.12
ACGTcount: A:0.46, C:0.00, G:0.03, T:0.51
Consensus pattern (13 bp):
TTATATTAATAAT
Found at i:26984 original size:22 final size:21
Alignment explanation
Indices: 26959--27009 Score: 50
Period size: 22 Copynumber: 2.3 Consensus size: 21
26949 TAATTATTTA
26959 ATTTTAAATAATTAG-TATAATT
1 ATTTTAAA-AATTAGAT-TAATT
*
26981 ATTTATACAAATTAGATTAATT
1 ATTT-TAAAAATTAGATTAATT
*
27003 ATATTAA
1 ATTTTAA
27010 GTTAATTATT
Statistics
Matches: 24, Mismatches: 3, Indels: 5
0.75 0.09 0.16
Matches are distributed among these distances:
21 2 0.08
22 18 0.75
23 4 0.17
ACGTcount: A:0.47, C:0.02, G:0.04, T:0.47
Consensus pattern (21 bp):
ATTTTAAAAATTAGATTAATT
Found at i:27207 original size:14 final size:15
Alignment explanation
Indices: 27179--27208 Score: 53
Period size: 15 Copynumber: 2.1 Consensus size: 15
27169 TATTAATTGT
27179 TTAAAATTGTTATAA
1 TTAAAATTGTTATAA
27194 TTAAAATT-TTATAA
1 TTAAAATTGTTATAA
27208 T
1 T
27209 AATATTAACA
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
14 7 0.47
15 8 0.53
ACGTcount: A:0.47, C:0.00, G:0.03, T:0.50
Consensus pattern (15 bp):
TTAAAATTGTTATAA
Found at i:27377 original size:20 final size:21
Alignment explanation
Indices: 27323--27380 Score: 75
Period size: 20 Copynumber: 2.9 Consensus size: 21
27313 TTAGTATCAT
* *
27323 TATAAAATTAATA-ATTTATA
1 TATAATATTAATATATTAATA
*
27343 TATAATATAAATATATTAATA
1 TATAATATTAATATATTAATA
27364 TATAAT-TTAATATATTA
1 TATAATATTAATATATTA
27381 TATTTATTAA
Statistics
Matches: 33, Mismatches: 4, Indels: 2
0.85 0.10 0.05
Matches are distributed among these distances:
20 21 0.64
21 12 0.36
ACGTcount: A:0.53, C:0.00, G:0.00, T:0.47
Consensus pattern (21 bp):
TATAATATTAATATATTAATA
Found at i:27399 original size:31 final size:34
Alignment explanation
Indices: 27328--27401 Score: 86
Period size: 29 Copynumber: 2.3 Consensus size: 34
27318 ATCATTATAA
27328 AATTAATAATTTATATATAATATAAATATATTAAT
1 AATT-ATAATTTATATATAATATAAATATATTAAT
* *
27363 -A-TATAATTTA-ATAT-AT-TATATTTATTAAT
1 AATTATAATTTATATATAATATAAATATATTAAT
27392 AATTATAATT
1 AATTATAATT
27402 ATTTGATTTT
Statistics
Matches: 35, Mismatches: 2, Indels: 8
0.78 0.04 0.18
Matches are distributed among these distances:
29 11 0.31
30 3 0.09
31 11 0.31
32 8 0.23
33 1 0.03
34 1 0.03
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (34 bp):
AATTATAATTTATATATAATATAAATATATTAAT
Found at i:27400 original size:26 final size:26
Alignment explanation
Indices: 27343--27438 Score: 69
Period size: 26 Copynumber: 3.7 Consensus size: 26
27333 ATAATTTATA
* *
27343 TATAATATA-AATATATTAATATATAAT
1 TATAATATATTATAT-TTATTA-ATAAT
27370 T-TAATATATTATATTTATTAATAAT
1 TATAATATATTATATTTATTAATAAT
27395 TATAAT-TATT-TGA-TT-TTAATAAT
1 TATAATATATTAT-ATTTATTAATAAT
* *
27418 GATTATTAGTATTATATTTAT
1 TA-TAATA-TATTATATTTAT
27439 ATTATAAATT
Statistics
Matches: 56, Mismatches: 4, Indels: 17
0.73 0.05 0.22
Matches are distributed among these distances:
23 9 0.16
24 6 0.11
25 11 0.20
26 21 0.38
27 8 0.14
28 1 0.02
ACGTcount: A:0.44, C:0.00, G:0.03, T:0.53
Consensus pattern (26 bp):
TATAATATATTATATTTATTAATAAT
Found at i:27403 original size:16 final size:17
Alignment explanation
Indices: 27306--27404 Score: 67
Period size: 20 Copynumber: 5.5 Consensus size: 17
27296 AAGCTAATAC
*
27306 ATAATTATTAGTATCATT
1 ATAATTATTAATAT-ATT
* *
27324 ATAAAATTAATAATTTATAT
1 AT--AATTATTAATATAT-T
*
27344 ATAA-TATAAATATATT
1 ATAATTATTAATATATT
*
27360 AATATATAATTTAATATATT
1 -ATA-ATTA-TTAATATATT
*
27380 ATATTTATTAATA-ATT
1 ATAATTATTAATATATT
27396 ATAATTATT
1 ATAATTATT
27405 TGATTTTAAT
Statistics
Matches: 63, Mismatches: 11, Indels: 16
0.70 0.12 0.18
Matches are distributed among these distances:
16 12 0.19
17 17 0.27
18 7 0.11
19 6 0.10
20 21 0.33
ACGTcount: A:0.48, C:0.01, G:0.01, T:0.49
Consensus pattern (17 bp):
ATAATTATTAATATATT
Found at i:27612 original size:22 final size:24
Alignment explanation
Indices: 27572--27636 Score: 68
Period size: 22 Copynumber: 2.9 Consensus size: 24
27562 TTAAGTTATT
*
27572 AATA-TAATATTA-AAATAATA-C
1 AATATTAATATTATAATTAATATC
*
27593 AAATATTTATATT-T-ATTAATATC
1 -AATATTAATATTATAATTAATATC
27616 AATATTAATATTATAATTAAT
1 AATATTAATATTATAATTAAT
27637 TAGATTAATA
Statistics
Matches: 35, Mismatches: 3, Indels: 8
0.76 0.07 0.17
Matches are distributed among these distances:
22 21 0.60
23 8 0.23
24 6 0.17
ACGTcount: A:0.52, C:0.03, G:0.00, T:0.45
Consensus pattern (24 bp):
AATATTAATATTATAATTAATATC
Found at i:28449 original size:178 final size:181
Alignment explanation
Indices: 28130--28687 Score: 546
Period size: 182 Copynumber: 3.1 Consensus size: 181
28120 AGAATATTGC
* * *
28130 TAAATTAGTATTATTTTATTTCGAATAAGCTTGTATGAATAGAAACAATTGTTTTATGATAGAAC
1 TAAATTAGTATTATTTTATTTCGAATAAGCTTGTATG-ATAAAAACAATTGTTTTATGACAAAAC
** * * * *
28195 AAAAGGTTGTAACAATTTGAAATAGAAAATTGTTCAAATAGTC-ATAACTATTTGAACTAGTTCA
65 -AAAGGTAATAACAATTTAAAATAGATAATTGTTCAAATAGGCTATAATTATTTGAACTAGTTCA
28259 ATAAACTGATTTATT-TTTTAAAAT-G-T-CTTATTAATTCTTAAAATATTAA
129 ATAAACTGATTTATTCTTTTAAAATAGTTACTTATTAATTCTTAAAATATTAA
* * * *
28308 TAAATTGGTATTATTTTATTTCAAATGAGCTTGTATGTTGAAAAACAATTGTTTTATGACAAAAC
1 TAAATTAGTATTATTTTATTTCGAATAAGCTTGTATGAT-AAAAACAATTGTTTTATGACAAAAC
* * *
28373 GAAAGGTAATAACAATTTAAAATAGATAGTTGTTTAAA-AGGCTATAATTATTTGAACT-GATTG
65 -AAAGGTAATAACAATTTAAAATAGATAATTGTTCAAATAGGCTATAATTATTTGAACTAG-TTC
** * * * * *
28436 GGTAAATTGATTTATTCTTTTAAATTAGTTACTTATTAATTTTTGAAATATTAC
128 AATAAACTGATTTATTCTTTTAAAATAGTTACTTATTAATTCTTAAAATATTAA
* * * * *
28490 TAAAGTAGTATTATTTTATTTTGGATAAACTTTTATGA-ACTAAAACAATTGTTTTATGACAAAA
1 TAAATTAGTATTATTTTATTTCGAATAAGCTTGTATGATA--AAAACAATTGTTTTATGACAAAA
* ** * * * *
28554 CAAATGGTCATAATTATTTTAAATAAATAATTGTTCAAATA-GCTATAATTATTCGAACTTGTTC
64 CAAA-GGTAATAACAATTTAAAATAGATAATTGTTCAAATAGGCTATAATTATTTGAACTAGTTC
* * ** * * ** *
28618 AATAAAC-AATTTATTTTTTTAAGTCTCA-TGA-TTATTAATTTTTTGAATGTTAA
128 AATAAACTGATTTATTCTTTTAA-AAT-AGTTACTTATTAATTCTTAAAATATTAA
28671 TAAATTAGTATTATTTT
1 TAAATTAGTATTATTTT
28688 CTTCCAAATA
Statistics
Matches: 311, Mismatches: 55, Indels: 25
0.80 0.14 0.06
Matches are distributed among these distances:
177 5 0.02
178 116 0.37
179 8 0.03
180 2 0.01
181 51 0.16
182 126 0.41
183 3 0.01
ACGTcount: A:0.39, C:0.07, G:0.11, T:0.43
Consensus pattern (181 bp):
TAAATTAGTATTATTTTATTTCGAATAAGCTTGTATGATAAAAACAATTGTTTTATGACAAAACA
AAGGTAATAACAATTTAAAATAGATAATTGTTCAAATAGGCTATAATTATTTGAACTAGTTCAAT
AAACTGATTTATTCTTTTAAAATAGTTACTTATTAATTCTTAAAATATTAA
Found at i:28544 original size:182 final size:176
Alignment explanation
Indices: 28108--28720 Score: 565
Period size: 178 Copynumber: 3.4 Consensus size: 176
28098 AATCTCTTAG
* *
28108 TTATTCATTTTTAGAATATTGCTAAATTAGTATTATTTTATTTCGAATAAGCTTGTATGAATAGA
1 TTATTAATTTTTA-AATATTACTAAATTAGTATTATTTTATTTCGAATAAGCTTGTATGAATA-A
* * ** * * *
28173 AACAATTGTTTTATGATAGAACAAAAGGTTGTAACAATTTGAAATAGAAAATTGTTCAAATAGTC
64 AACAATTGTTTTATGACAAAAC-AAAGGTAATAACAATTTAAAATAGATAATTGTTCAAATAGGC
*
28238 -ATAACTATTTGAACTAGTTCAATAAACTGATTTATTTTTTAAAATGTC
128 TATAATTATTTGAACTAGTTCAATAAACTGATTTATTTTTTAAAATGTC
* * * * * *
28286 TTATTAATTCTTAAAATATTAATAAATTGGTATTATTTTATTTCAAATGAGCTTGTATG-TTGAA
1 TTATTAATT-TTTAAATATTACTAAATTAGTATTATTTTATTTCGAATAAGCTTGTATGAAT--A
* *
28350 AAACAATTGTTTTATGACAAAACGAAAGGTAATAACAATTTAAAATAGATAGTTGTTTAAA-AGG
63 AAACAATTGTTTTATGACAAAAC-AAAGGTAATAACAATTTAAAATAGATAATTGTTCAAATAGG
*** * *
28414 CTATAATTATTTGAACT-GATTGGGTAAATTGATTTATTCTTTTAAATTAGTTAC
127 CTATAATTATTTGAACTAG-TTCAATAAACTGATTTATT-TTTTAAAAT-G-T-C
* * * * *
28468 TTATTAATTTTTGAAATATTACTAAAGTAGTATTATTTTATTTTGGATAAACTTTTATGAACTAA
1 TTATTAATTTTT-AAATATTACTAAATTAGTATTATTTTATTTCGAATAAGCTTGTATGAA-TAA
* ** * *
28533 AACAATTGTTTTATGACAAAACAAATGGTCATAATTATTTTAAATAAATAATTGTTCAAATA-GC
64 AACAATTGTTTTATGACAAAACAAA-GGTAATAACAATTTAAAATAGATAATTGTTCAAATAGGC
* * * * * *
28597 TATAATTATTCGAACTTGTTCAATAAAC-AATTTATTTTTTTAAGTCTC
128 TATAATTATTTGAACTAGTTCAATAAACTGATTTATTTTTTAAAATGTC
* * * * * *
28645 ATGATTATTAATTTTTTGAATGTTAATAAATTAGTATTATTTTCTTCCAAATAAG-TGTGTATGA
1 ----TTATTAA-TTTTTAAATATTACTAAATTAGTATTATTTTATTTCGAATAAGCT-TGTATGA
*
28709 ACTGAAACAATT
60 A-TAAAACAATT
28721 ATTACACGAC
Statistics
Matches: 351, Mismatches: 63, Indels: 39
0.77 0.14 0.09
Matches are distributed among these distances:
177 6 0.02
178 130 0.37
179 12 0.03
180 9 0.03
181 65 0.19
182 126 0.36
183 2 0.01
184 1 0.00
ACGTcount: A:0.39, C:0.07, G:0.11, T:0.43
Consensus pattern (176 bp):
TTATTAATTTTTAAATATTACTAAATTAGTATTATTTTATTTCGAATAAGCTTGTATGAATAAAA
CAATTGTTTTATGACAAAACAAAGGTAATAACAATTTAAAATAGATAATTGTTCAAATAGGCTAT
AATTATTTGAACTAGTTCAATAAACTGATTTATTTTTTAAAATGTC
Found at i:29837 original size:182 final size:181
Alignment explanation
Indices: 29554--29967 Score: 503
Period size: 181 Copynumber: 2.3 Consensus size: 181
29544 ATAATTTTGC
* *
29554 ATGAACAGAAACAATTGTTTTATGACAAAA-AAAAGGTCATAACTATTTGAAATAGATAATTGTT
1 ATGAACAGAAACAATTGTTTTATGACAAAACAAAAGGTCATAACTATTTGAAATAAAAAATTGTT
* * * * * * *
29618 CAAATGAACATGACTATTTGGACTTATTCAGTAAATAGATTTATTTTTTAAATCCCTTACCTACT
66 CAAATCAACATAACGATTTGGAATTACTCAATAAATAGATTTATTTTTAAAATCCCTTACCTACT
* *
29683 AA-CTTTCAAAGTATTAAATCAATTAGTATTATTTTATTCCAAGCAAACTTGT
131 AATCTTTCAAA-T-TTAAATAAATTAGTATTATTTTATTCCAAACAAACTTGT
* * *
29735 ATGAATAGAAACAATTGTTTTAGGACAAAACAAAAGATCATAACTATTTGAAATAAAAAATTGTT
1 ATGAACAGAAACAATTGTTTTATGACAAAACAAAAGGTCATAACTATTTGAAATAAAAAATTGTT
*** *
29800 CAAA-CAATCATAACGATTT-GAATTAGCTCAATAAATAGATTTATTTTTAAAATTTTTTACTTA
66 CAAATCAA-CATAACGATTTGGAATTA-CTCAATAAATAGATTTATTTTTAAAATCCCTTACCTA
* * * * * * **
29863 TTAATTTTTGAAATTTTAATAAATTAGTATTATTTTATTTCAAATATGCTTGT
129 CTAATCTTTCAAATTTAAATAAATTAGTATTATTTTATTCCAAACAAACTTGT
* * *
29916 ATGAACAGAAACAATTGGTTTATGATAAAACAAAGGGTCATAACTATTTGAA
1 ATGAACAGAAACAATTGTTTTATGACAAAACAAAAGGTCATAACTATTTGAA
29968 CATGTTTAGA
Statistics
Matches: 197, Mismatches: 32, Indels: 8
0.83 0.14 0.03
Matches are distributed among these distances:
181 113 0.57
182 78 0.40
183 6 0.03
ACGTcount: A:0.42, C:0.10, G:0.11, T:0.37
Consensus pattern (181 bp):
ATGAACAGAAACAATTGTTTTATGACAAAACAAAAGGTCATAACTATTTGAAATAAAAAATTGTT
CAAATCAACATAACGATTTGGAATTACTCAATAAATAGATTTATTTTTAAAATCCCTTACCTACT
AATCTTTCAAATTTAAATAAATTAGTATTATTTTATTCCAAACAAACTTGT
Found at i:30071 original size:145 final size:146
Alignment explanation
Indices: 29838--30110 Score: 399
Period size: 145 Copynumber: 1.9 Consensus size: 146
29828 CAATAAATAG
*
29838 ATTTATTTTTAAAATTTTTTACTTATTAATTTTTGAAATTTTAATAAATTAGTATTATTTTATTT
1 ATTTATTTTTAAAATTTTTTACTTATTAATTTTTGAAATATTAATAAATTAGTATTATTTTATTT
* * * * * *
29903 CAAATATGCTTGTATGAACAGAAACAATTGGTTTATGATAAAACAAAGGGTCATAACTATTTGAA
66 CAAATAAGCTTGTATGAACAGAAACAAATGGTTTAGGACAAAACAAAAGGTCATAACAATTTGAA
29968 CATGTTTAGAAAACAT
131 CATGTTTAGAAAACAT
*
29984 ATTTATTTTTTAAA-TTTTTACTTATTAATTTTTGAAATATTAATAAATTTA-TATTATTTTA-T
1 ATTTATTTTTAAAATTTTTTACTTATTAATTTTTGAAATATTAATAAA-TTAGTATTATTTTATT
* * * *
30046 TCAAAATAAGCTTGTTTGAATAGAAACAAATGTTTTAGGACAAAACAAAATGTCATAACAATTTG
65 TC-AAATAAGCTTGTATGAACAGAAACAAATGGTTTAGGACAAAACAAAAGGTCATAACAATTTG
30111 TAATAGATAA
Statistics
Matches: 113, Mismatches: 12, Indels: 5
0.87 0.09 0.04
Matches are distributed among these distances:
144 3 0.03
145 94 0.83
146 16 0.14
ACGTcount: A:0.40, C:0.07, G:0.09, T:0.44
Consensus pattern (146 bp):
ATTTATTTTTAAAATTTTTTACTTATTAATTTTTGAAATATTAATAAATTAGTATTATTTTATTT
CAAATAAGCTTGTATGAACAGAAACAAATGGTTTAGGACAAAACAAAAGGTCATAACAATTTGAA
CATGTTTAGAAAACAT
Found at i:30330 original size:138 final size:136
Alignment explanation
Indices: 30151--30408 Score: 385
Period size: 138 Copynumber: 1.9 Consensus size: 136
30141 ATTTAAATTT
* *
30151 GTTTGGTAAACAATTTTTTTTTAAATCTCTAACTTATTAATTTTTAGAATATTAATT-GATTAGT
1 GTTTGGTAAACAATTTTTTTTTAAATCTCTAACTTACTAATTTTTAGAATATT-ATTAAATTAGT
* * *
30215 ATTATTTTATTTTGAATAAACTTGTATGAATAGAAAC-ATATGTTTTATGACAAAATCTAACTAT
65 ATTATTTTAATATGAATAAACTTGTATGAAAAGAAACAAT-TGTTTTATGACAAAATCTAACTAT
30279 TTGAACTG
129 TTGAACTG
* *
30287 GTTTGGTAAACAAATTTATTTTTTAAATCTCTTACTTACTAATTTTTGGAATATTATTAAATTAG
1 GTTTGGTAAAC-AATTT-TTTTTTAAATCTCTAACTTACTAATTTTTAGAATATTATTAAATTAG
* *
30352 TATTATTTTAATATGAATAAGCTTGTATGAAAAGAAACAATTGTTTTATGATAAAAT
64 TATTATTTTAATATGAATAAACTTGTATGAAAAGAAACAATTGTTTTATGACAAAAT
30409 AAAAATCATA
Statistics
Matches: 109, Mismatches: 9, Indels: 6
0.88 0.07 0.05
Matches are distributed among these distances:
136 11 0.10
137 8 0.07
138 88 0.81
139 2 0.02
ACGTcount: A:0.37, C:0.07, G:0.10, T:0.46
Consensus pattern (136 bp):
GTTTGGTAAACAATTTTTTTTTAAATCTCTAACTTACTAATTTTTAGAATATTATTAAATTAGTA
TTATTTTAATATGAATAAACTTGTATGAAAAGAAACAATTGTTTTATGACAAAATCTAACTATTT
GAACTG
Found at i:30460 original size:316 final size:324
Alignment explanation
Indices: 29656--30490 Score: 862
Period size: 326 Copynumber: 2.6 Consensus size: 324
29646 CAGTAAATAG
* * * * * *
29656 ATTTATTTTTTAAATCCCTTACCTACTAA-CTTTCAAAGTATTAAATCAATTAGTATTATTTTAT
1 ATTTATTTTTTAAATCTCTTACTTACTAATTTTTGAAA-TATT-AATAAATTAGTATTATTTTAA
** ** * *
29720 TCCAAGCAAACTTGTATGAATAGAAACAATTGTTTTAGGACAAAACAAAAGATCATAACTATTTG
64 TATAAATAAGCTTGTATGAATAGAAACAATTGTTTTAGGACAAAACAAAAGATCATAACAATTTG
* * * * * * * * * * *** *
29785 AAATAAAAAATTGTTCAAACAATCATAACGATTTGAATTAGCTCAATAAATAGATTTATTTTTAA
129 ATATAGATAATTATTCAAATAGTCATAACTATTTAAATTTGTTTGGTAAACA-ATTTATTTTTAA
* * * * **
29850 AATTTTTTACTTATTAATTTTTGAAATTTTAATAAATTAGTATTATTTTATTTCAAATATGCTTG
193 AATCTCTAACTTATTAATTTTTGAAATATTAATAAATTAGTATTATTTTATTTCAAATAAACTTG
*
29915 TATGAACAGAAACAATTGGTTTATGATAAAACAAAGGGTCATAACTATTTGAACATGTTTAGAAA
258 TATGAACAGAAACAATTGGTTTATGAT-AAACAAA-GATCATAACTATTTGAACATGTTTAGAAA
*
29980 ACAT
321 ACAA
* * *
29984 ATTTATTTTTTAAAT-TTTTACTTATTAATTTTTGAAATATTAATAAATTTA-TATTATTTTATT
1 ATTTATTTTTTAAATCTCTTACTTACTAATTTTTGAAATATTAATAAA-TTAGTATTATTTTAAT
* *
30047 CA-AAATAAGCTTGTTTGAATAGAAACAAATGTTTTAGGACAAAACAAAATG-TCATAACAATTT
65 -ATAAATAAGCTTGTATGAATAGAAACAATTGTTTTAGGACAAAACAAAA-GATCATAACAATTT
* * *
30110 G-TAATAGATAA-TAGTTCAAATGGACATGACTATTTAAATTTGTTTGGTAAACAATTT-TTTTT
128 GAT-ATAGATAATTA-TTCAAATAGTCATAACTATTTAAATTTGTTTGGTAAACAATTTATTTTT
* ** **
30172 TAAATCTCTAACTTATTAATTTTT-AGAATATTAATTGATTAGTATTATTTTATTTTGAATAAAC
191 AAAATCTCTAACTTATTAATTTTTGA-AATATTAATAAATTAGTATTATTTTATTTCAAATAAAC
* * *
30236 TTGTATGAATAGAAAC-ATAT-GTTT-T-AT-GACAAA-ATC-TAACTATTTGAAC-TGGTTTGG
255 TTGTATGAACAGAAACAAT-TGGTTTATGATAAACAAAGATCATAACTATTTGAACAT-GTTTAG
*
30293 TAAACAA
318 AAAACAA
* *
30300 ATTTATTTTTTAAATCTCTTACTTACTAATTTTTGGAATATTATTAAATTAGTATTATTTTAATA
1 ATTTATTTTTTAAATCTCTTACTTACTAATTTTTGAAATATTAATAAATTAGTATTATTTTAATA
* * * * *
30365 TGAATAAGCTTGTATGAAAAGAAACAATTGTTTTATGATAAAATAAAA-ATCATAACAATTTGAT
66 TAAATAAGCTTGTATGAATAGAAACAATTGTTTTAGGACAAAACAAAAGATCATAACAATTTGAT
* *
30429 ATAGATAATTATTCAAATAGTCATAACTATTTAAACTAT-TTTGGTAAACAAATTTAGTTTTA
131 ATAGATAATTATTCAAATAGTCATAACTATTTAAA-TTTGTTTGGTAAAC-AATTTATTTTTA
30491 TTAATTTTCA
Statistics
Matches: 423, Mismatches: 66, Indels: 46
0.79 0.12 0.09
Matches are distributed among these distances:
315 1 0.00
316 94 0.22
317 91 0.22
318 4 0.01
319 5 0.01
321 2 0.00
322 1 0.00
323 7 0.02
324 72 0.17
325 5 0.01
326 103 0.24
327 17 0.04
328 21 0.05
ACGTcount: A:0.40, C:0.08, G:0.09, T:0.42
Consensus pattern (324 bp):
ATTTATTTTTTAAATCTCTTACTTACTAATTTTTGAAATATTAATAAATTAGTATTATTTTAATA
TAAATAAGCTTGTATGAATAGAAACAATTGTTTTAGGACAAAACAAAAGATCATAACAATTTGAT
ATAGATAATTATTCAAATAGTCATAACTATTTAAATTTGTTTGGTAAACAATTTATTTTTAAAAT
CTCTAACTTATTAATTTTTGAAATATTAATAAATTAGTATTATTTTATTTCAAATAAACTTGTAT
GAACAGAAACAATTGGTTTATGATAAACAAAGATCATAACTATTTGAACATGTTTAGAAAACAA
Found at i:31256 original size:22 final size:21
Alignment explanation
Indices: 31225--31265 Score: 64
Period size: 22 Copynumber: 1.9 Consensus size: 21
31215 GATTTTAATT
31225 ATTATATATTAATATTTATCA
1 ATTATATATTAATATTTATCA
*
31246 ATTATATTATTAATGTTTAT
1 ATTATA-TATTAATATTTAT
31266 AATATTTTCA
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
21 6 0.33
22 12 0.67
ACGTcount: A:0.39, C:0.02, G:0.02, T:0.56
Consensus pattern (21 bp):
ATTATATATTAATATTTATCA
Found at i:31675 original size:18 final size:20
Alignment explanation
Indices: 31654--31733 Score: 69
Period size: 21 Copynumber: 4.0 Consensus size: 20
31644 AATTAATACA
*
31654 TAAATTATTATAT-ATA-AT
1 TAAATTAATATATAATATAT
31672 TAAATTAATATATCAATATAT
1 TAAATTAATATAT-AATATAT
* *
31693 TAAATTTAT-TTTAATAATAT
1 TAAATTAATATATAAT-ATAT
31713 TATAA-TAATAATATAATATAT
1 TA-AATTAAT-ATATAATATAT
31734 ATAATAATTT
Statistics
Matches: 50, Mismatches: 5, Indels: 11
0.76 0.08 0.17
Matches are distributed among these distances:
18 12 0.24
19 3 0.06
20 14 0.28
21 16 0.32
22 5 0.10
ACGTcount: A:0.51, C:0.01, G:0.00, T:0.47
Consensus pattern (20 bp):
TAAATTAATATATAATATAT
Found at i:31694 original size:16 final size:15
Alignment explanation
Indices: 31645--31739 Score: 51
Period size: 16 Copynumber: 6.5 Consensus size: 15
31635 AATAATTTTA
*
31645 ATTAATACATAA-ATT
1 ATTAATATATAATA-T
*
31660 ATT-ATATATAATTAA
1 ATTAATATATAA-TAT
31675 ATTAATATATCAATAT
1 ATTAATATAT-AATAT
31691 ATTAA-AT-T--TAT
1 ATTAATATATAATAT
* *
31702 TTTAATA-ATATTAT
1 ATTAATATATAATAT
*
31716 AATAATAATATAATAT
1 ATTAAT-ATATAATAT
31732 ATATAATA
1 AT-TAATA
31740 ATTTATGGTT
Statistics
Matches: 61, Mismatches: 8, Indels: 21
0.68 0.09 0.23
Matches are distributed among these distances:
11 7 0.11
12 2 0.03
14 15 0.25
15 9 0.15
16 22 0.36
17 6 0.10
ACGTcount: A:0.53, C:0.02, G:0.00, T:0.45
Consensus pattern (15 bp):
ATTAATATATAATAT
Found at i:31713 original size:11 final size:11
Alignment explanation
Indices: 31699--31745 Score: 55
Period size: 11 Copynumber: 4.5 Consensus size: 11
31689 ATATTAAATT
*
31699 TATTTTAATAA
1 TATTATAATAA
31710 TATTATAATAA
1 TATTATAATAA
*
31721 TAATATAAT-A
1 TATTATAATAA
31731 TA-TATAATAA
1 TATTATAATAA
31741 T-TTAT
1 TATTAT
31746 GGTTAATTAA
Statistics
Matches: 32, Mismatches: 2, Indels: 5
0.82 0.05 0.13
Matches are distributed among these distances:
9 6 0.19
10 8 0.25
11 18 0.56
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (11 bp):
TATTATAATAA
Found at i:31721 original size:14 final size:15
Alignment explanation
Indices: 31704--31745 Score: 52
Period size: 14 Copynumber: 2.8 Consensus size: 15
31694 AAATTTATTT
31704 TAATAATATTATA-A
1 TAATAATATTATATA
31718 TAATAATATAATATATA
1 TAATAATAT--TATATA
31735 TAATAAT-TTAT
1 TAATAATATTAT
31746 GGTTAATTAA
Statistics
Matches: 25, Mismatches: 0, Indels: 6
0.81 0.00 0.19
Matches are distributed among these distances:
14 12 0.48
16 5 0.20
17 8 0.32
ACGTcount: A:0.55, C:0.00, G:0.00, T:0.45
Consensus pattern (15 bp):
TAATAATATTATATA
Found at i:32141 original size:181 final size:180
Alignment explanation
Indices: 31838--32222 Score: 405
Period size: 181 Copynumber: 2.1 Consensus size: 180
31828 TAATATAATA
** * * *
31838 ATTATTAAATTAGTATTATTTTAATGCAAATAAGCTTGTATGAACAAAACAATTGTTTTACGACA
1 ATTATTAAATTAGTATTATTTTAATGCAAATAAAATAGTATAAACAAAACAATTGTTTGACGACA
* * * ** *
31903 AAAGAAAAAGGTCATAACGATTTGAAATAGATAATCATTCATATAGTCTTAACTATTTCAACTGG
66 AAAGAAAAAGGTCATAACGATTCGAAATAGATAATCATTAAAATAGTCAAAACTATTTCAAATGG
* * *
31968 TTCGGCAATTAGATTTATTTTTTAATTTTGTTGGTTATTAAGTTTAGAAT
131 TTCGGAAAGTAGATTTACTTTTTAATTTTGTTGGTTATTAAGTTTAGAAT
* * * * *
32018 ATTATTAAATTAGTTTTATTTT-ATTCTGAATAAAATAGTATAAACAGAACCAATTGTTTGATGA
1 ATTATTAAATTAGTATTATTTTAATGC-AAATAAAATAGTATAAACA-AAACAATTGTTTGACGA
* * * * ** *
32082 TAAAATAAAAAGGTTATAATGATTCGAAATAGATAATTTTTAAAATAGTCAAAACTATTTGAAAT
64 CAAAAGAAAAAGGTCATAACGATTCGAAATAGATAATCATTAAAATAGTCAAAACTATTTCAAAT
* * * * ** * * *
32147 GGTTTGGAAAGTAGATTTACTTTTTAAATCTCTTACTGATTAATTTTTAAAAT
129 GGTTCGGAAAGTAGATTTACTTTTTAATTTTGTTGGTTATTAA-GTTTAGAAT
32200 ATT-TATAAATTAGTATTATTTTA
1 ATTAT-TAAATTAGTATTATTTTA
32223 TTTCAAACAA
Statistics
Matches: 164, Mismatches: 36, Indels: 7
0.79 0.17 0.03
Matches are distributed among these distances:
179 3 0.02
180 35 0.21
181 100 0.61
182 26 0.16
ACGTcount: A:0.40, C:0.07, G:0.12, T:0.41
Consensus pattern (180 bp):
ATTATTAAATTAGTATTATTTTAATGCAAATAAAATAGTATAAACAAAACAATTGTTTGACGACA
AAAGAAAAAGGTCATAACGATTCGAAATAGATAATCATTAAAATAGTCAAAACTATTTCAAATGG
TTCGGAAAGTAGATTTACTTTTTAATTTTGTTGGTTATTAAGTTTAGAAT
Found at i:32622 original size:10 final size:10
Alignment explanation
Indices: 32587--32626 Score: 53
Period size: 10 Copynumber: 3.8 Consensus size: 10
32577 TAATTTTGTA
32587 TTATAAATAAT
1 TTAT-AATAAT
*
32598 TTATTATAAT
1 TTATAATAAT
32608 ATTATAATAAT
1 -TTATAATAAT
32619 TTATAATA
1 TTATAATA
32627 TAAATTTATA
Statistics
Matches: 26, Mismatches: 2, Indels: 3
0.84 0.06 0.10
Matches are distributed among these distances:
10 13 0.50
11 13 0.50
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (10 bp):
TTATAATAAT
Found at i:32648 original size:23 final size:23
Alignment explanation
Indices: 32609--32670 Score: 55
Period size: 20 Copynumber: 2.9 Consensus size: 23
32599 TATTATAATA
*
32609 TTATAATAATTTA-TAATATAAAT
1 TTAT-ATAATTAATTAATATAAAT
32632 TTATATAATTAATTAAT-T--AT
1 TTATATAATTAATTAATATAAAT
*
32652 TTATATTA-TAATTAA-ATAA
1 TTATATAATTAATTAATATAA
32671 TGAATAAATT
Statistics
Matches: 33, Mismatches: 2, Indels: 10
0.73 0.04 0.22
Matches are distributed among these distances:
19 8 0.24
20 9 0.27
22 8 0.24
23 8 0.24
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (23 bp):
TTATATAATTAATTAATATAAAT
Found at i:32655 original size:20 final size:19
Alignment explanation
Indices: 32630--32704 Score: 57
Period size: 20 Copynumber: 3.9 Consensus size: 19
32620 TATAATATAA
32630 ATTTATATAATTAATTAATT
1 ATTTATATAATTAATTAA-T
*
32650 ATTTATATTA-TAATTAAAT
1 ATTTATATAATTAATT-AAT
* * *
32669 AATGA-ATAAATTATTTGAAT
1 ATTTATAT-AATTAATT-AAT
32689 A-TTATATAATTAATTA
1 ATTTATATAATTAATTA
32705 TAATATATAC
Statistics
Matches: 43, Mismatches: 8, Indels: 10
0.70 0.13 0.16
Matches are distributed among these distances:
18 3 0.07
19 19 0.44
20 21 0.49
ACGTcount: A:0.48, C:0.00, G:0.03, T:0.49
Consensus pattern (19 bp):
ATTTATATAATTAATTAAT
Found at i:32665 original size:15 final size:15
Alignment explanation
Indices: 32606--32665 Score: 50
Period size: 15 Copynumber: 3.8 Consensus size: 15
32596 ATTTATTATA
*
32606 ATATTATAATAATTT
1 ATATTATAATTATTT
* *
32621 ATAATATAAATT-TAT
1 ATATTAT-AATTATTT
32636 ATAATTAATTAATTATTT
1 AT-ATT-A-TAATTATTT
32654 ATATTATAATTA
1 ATATTATAATTA
32666 AATAATGAAT
Statistics
Matches: 35, Mismatches: 5, Indels: 10
0.70 0.10 0.20
Matches are distributed among these distances:
15 16 0.46
16 6 0.17
17 8 0.23
18 5 0.14
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (15 bp):
ATATTATAATTATTT
Found at i:32681 original size:31 final size:32
Alignment explanation
Indices: 32617--32694 Score: 86
Period size: 31 Copynumber: 2.4 Consensus size: 32
32607 TATTATAATA
* * * *
32617 ATTTATAATATAAATTTATATAATTAATTAATT
1 ATTTATATTAT-AATTTAAATAATGAATAAATT
32650 ATTTATATTATAA-TTAAATAATGAATAAATT
1 ATTTATATTATAATTTAAATAATGAATAAATT
32681 ATTTGAATATTATA
1 ATTT--ATATTATA
32695 TAATTAATTA
Statistics
Matches: 39, Mismatches: 4, Indels: 4
0.83 0.09 0.09
Matches are distributed among these distances:
31 19 0.49
32 2 0.05
33 18 0.46
ACGTcount: A:0.49, C:0.00, G:0.03, T:0.49
Consensus pattern (32 bp):
ATTTATATTATAATTTAAATAATGAATAAATT
Found at i:32692 original size:103 final size:101
Alignment explanation
Indices: 32521--32747 Score: 243
Period size: 103 Copynumber: 2.2 Consensus size: 101
32511 ATTATTAAAA
* * * * *
32521 AATAATTATATAACAATTAATATTATTATTTAATATTTATTAAATAATAATATTATTAATTTTGT
1 AATAATAATTTAATAATTAAT-TAATTATTTAATATTTATTAAATAATAATATAATTAATTTTGT
*
32586 ATTATAAATAATTTATTATAATAT-TA-TAATAATTTAT
65 ATTAT--ATAATTAATTATAATATATACTAATAATTTAT
32623 AAT-ATAAATTTATATAATTAATTAATTATTT-ATATTATAATTAAATAATGAATA-AATT-A-T
1 AATAAT-AATTTA-ATAATTAATTAATTATTTAATATT-T-ATTAAATAAT-AATATAATTAATT
*
32683 TTGAATATTATATAATTAATTATAATATATACTTATAATTTAT
61 TTG--TATTATATAATTAATTATAATATATACTAATAATTTAT
*
32726 TATAATAATTTAATAATTAATT
1 AATAATAATTTAATAATTAATT
32748 CAAATACTAT
Statistics
Matches: 107, Mismatches: 8, Indels: 20
0.79 0.06 0.15
Matches are distributed among these distances:
101 27 0.25
102 29 0.27
103 45 0.42
104 6 0.06
ACGTcount: A:0.48, C:0.01, G:0.01, T:0.50
Consensus pattern (101 bp):
AATAATAATTTAATAATTAATTAATTATTTAATATTTATTAAATAATAATATAATTAATTTTGTA
TTATATAATTAATTATAATATATACTAATAATTTAT
Found at i:32719 original size:23 final size:20
Alignment explanation
Indices: 32586--32747 Score: 78
Period size: 21 Copynumber: 8.2 Consensus size: 20
32576 TTAATTTTGT
* *
32586 ATTATAAATAATTTATTATAA
1 ATTAT-AATAATTTATAATTA
32607 TATTATAATAATTTATAA-T-
1 -ATTATAATAATTTATAATTA
32626 A-TA-AAT--TTATATAATTA
1 ATTATAATAATT-TATAATTA
* *
32643 A-T-TAATTATTTATATTATA
1 ATTATAATAATTTATAAT-TA
**
32662 ATTA-AATAATGAATAAATT-
1 ATTATAATAATTTAT-AATTA
32681 ATT-TGAAT-ATTATATAATTA
1 ATTAT-AATAATT-TATAATTA
*
32701 ATTATAATATATACTTATAATTT
1 ATTATAATA-AT--TTATAATTA
32724 ATTATAATAATTTAATAATTA
1 ATTATAATAATTT-ATAATTA
32745 ATT
1 ATT
32748 CAAATACTAT
Statistics
Matches: 109, Mismatches: 11, Indels: 41
0.68 0.07 0.25
Matches are distributed among these distances:
14 2 0.02
15 5 0.05
16 4 0.04
17 7 0.06
18 6 0.06
19 14 0.13
20 22 0.20
21 23 0.21
22 9 0.08
23 16 0.15
24 1 0.01
ACGTcount: A:0.49, C:0.01, G:0.01, T:0.49
Consensus pattern (20 bp):
ATTATAATAATTTATAATTA
Found at i:33150 original size:17 final size:18
Alignment explanation
Indices: 33115--33179 Score: 57
Period size: 17 Copynumber: 3.8 Consensus size: 18
33105 ATAATTAGGT
*
33115 TATTATAAATAAATTATA
1 TATTATAAATAAATAATA
*
33133 TATTA-AAATATATAATA
1 TATTATAAATAAATAATA
* *
33150 TTTTAT-AATAATTAAT-
1 TATTATAAATAAATAATA
*
33166 TATT-TAATTAAATA
1 TATTATAAATAAATA
33180 TTTGTTATTT
Statistics
Matches: 37, Mismatches: 8, Indels: 6
0.73 0.16 0.12
Matches are distributed among these distances:
15 1 0.03
16 9 0.24
17 22 0.59
18 5 0.14
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (18 bp):
TATTATAAATAAATAATA
Found at i:33236 original size:20 final size:19
Alignment explanation
Indices: 33185--33248 Score: 60
Period size: 20 Copynumber: 3.3 Consensus size: 19
33175 AAATATTTGT
*
33185 TATT-TAATAATTATCAAT
1 TATTATAATAATTATCAAA
33203 TA-TATCAATAAATTATCCAAA
1 TATTAT-AAT-AATTAT-CAAA
*
33224 TATTATAATAATTATAATAA
1 TATTATAATAATTATCA-AA
33244 TATTA
1 TATTA
33249 GTTACAAAAC
Statistics
Matches: 38, Mismatches: 2, Indels: 10
0.76 0.04 0.20
Matches are distributed among these distances:
17 1 0.03
18 3 0.08
19 4 0.11
20 19 0.50
21 8 0.21
22 3 0.08
ACGTcount: A:0.50, C:0.06, G:0.00, T:0.44
Consensus pattern (19 bp):
TATTATAATAATTATCAAA
Found at i:33394 original size:17 final size:17
Alignment explanation
Indices: 33368--33407 Score: 55
Period size: 17 Copynumber: 2.4 Consensus size: 17
33358 AATAATTATT
*
33368 TATT-ATTTATTATAAA
1 TATTAATTTATCATAAA
*
33384 TTTTAATTTATCATAAA
1 TATTAATTTATCATAAA
33401 TATTAAT
1 TATTAAT
33408 AATTACTATT
Statistics
Matches: 20, Mismatches: 3, Indels: 1
0.83 0.12 0.04
Matches are distributed among these distances:
16 3 0.15
17 17 0.85
ACGTcount: A:0.42, C:0.03, G:0.00, T:0.55
Consensus pattern (17 bp):
TATTAATTTATCATAAA
Found at i:33487 original size:18 final size:19
Alignment explanation
Indices: 33466--33507 Score: 52
Period size: 18 Copynumber: 2.3 Consensus size: 19
33456 TTAAACTAAA
* *
33466 AATAATTAAT-ATTTTTTT
1 AATAATTAATAACTTTATT
33484 AAT-ATTAATAACTTTATT
1 AATAATTAATAACTTTATT
33502 AATAAT
1 AATAAT
33508 GTTTATCCAA
Statistics
Matches: 20, Mismatches: 2, Indels: 3
0.80 0.08 0.12
Matches are distributed among these distances:
17 6 0.30
18 12 0.60
19 2 0.10
ACGTcount: A:0.45, C:0.02, G:0.00, T:0.52
Consensus pattern (19 bp):
AATAATTAATAACTTTATT
Found at i:34002 original size:17 final size:18
Alignment explanation
Indices: 33980--34020 Score: 59
Period size: 18 Copynumber: 2.3 Consensus size: 18
33970 TATTATTATT
33980 AATTTT-ATTAATTT-TGA
1 AATTTTAATTAATTTGT-A
33997 AATTTTAATTAATTTGTA
1 AATTTTAATTAATTTGTA
34015 AATTTT
1 AATTTT
34021 CTAATTTAAC
Statistics
Matches: 22, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
17 6 0.27
18 15 0.68
19 1 0.05
ACGTcount: A:0.37, C:0.00, G:0.05, T:0.59
Consensus pattern (18 bp):
AATTTTAATTAATTTGTA
Found at i:34140 original size:35 final size:32
Alignment explanation
Indices: 34100--34177 Score: 120
Period size: 35 Copynumber: 2.3 Consensus size: 32
34090 TTAATTAACA
*
34100 ATATATATATTACTTAAATTTTATAAATAAATTAC
1 ATATATCTATTACTTAAA-TTTATAAAT-AATT-C
34135 ATATATCTATTACTTAAATTTATAAATAATTC
1 ATATATCTATTACTTAAATTTATAAATAATTC
34167 ATATATCTATT
1 ATATATCTATT
34178 CAAATTATAT
Statistics
Matches: 42, Mismatches: 1, Indels: 3
0.91 0.02 0.07
Matches are distributed among these distances:
32 12 0.29
33 4 0.10
34 9 0.21
35 17 0.40
ACGTcount: A:0.45, C:0.08, G:0.00, T:0.47
Consensus pattern (32 bp):
ATATATCTATTACTTAAATTTATAAATAATTC
Found at i:35356 original size:32 final size:32
Alignment explanation
Indices: 35286--35356 Score: 83
Period size: 32 Copynumber: 2.2 Consensus size: 32
35276 TAATATTTAG
* *
35286 TATAATTATTGTTATAATTAATATTATATAAT
1 TATAATTATTGTTATAATTAATATAATATAAC
*
35318 TATAATTAATTG-TATAATTAATA-AATTTAAC
1 TATAATT-ATTGTTATAATTAATATAATATAAC
35349 TATTAATT
1 TA-TAATT
35357 TAACTAATTT
Statistics
Matches: 34, Mismatches: 3, Indels: 4
0.83 0.07 0.10
Matches are distributed among these distances:
31 7 0.21
32 23 0.68
33 4 0.12
ACGTcount: A:0.45, C:0.01, G:0.03, T:0.51
Consensus pattern (32 bp):
TATAATTATTGTTATAATTAATATAATATAAC
Found at i:35525 original size:23 final size:24
Alignment explanation
Indices: 35481--35530 Score: 59
Period size: 23 Copynumber: 2.1 Consensus size: 24
35471 AAGTTCACTG
35481 AATATATAAATTTATAAGT-AAAT
1 AATATATAAATTTATAAGTAAAAT
**
35504 AATAT-TAGAATTTATATTTAAAAT
1 AATATATA-AATTTATAAGTAAAAT
35528 AAT
1 AAT
35531 TGATATTAGT
Statistics
Matches: 23, Mismatches: 2, Indels: 3
0.82 0.07 0.11
Matches are distributed among these distances:
22 2 0.09
23 14 0.61
24 7 0.30
ACGTcount: A:0.54, C:0.00, G:0.04, T:0.42
Consensus pattern (24 bp):
AATATATAAATTTATAAGTAAAAT
Found at i:35708 original size:13 final size:13
Alignment explanation
Indices: 35690--35714 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
35680 TTAGTAAAAT
35690 TAATAATTTTATC
1 TAATAATTTTATC
35703 TAATAATTTTAT
1 TAATAATTTTAT
35715 AATAAATCCT
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:0.04, G:0.00, T:0.56
Consensus pattern (13 bp):
TAATAATTTTATC
Done.