Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: chr3
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: 36364294
ACGTcount: A:0.31, C:0.16, G:0.16, T:0.31
Warning! 2168405 characters in sequence are not A, C, G, or T
File 4 of 91
Found at i:941946 original size:2 final size:2
Alignment explanation
Indices: 941939--941991 Score: 106
Period size: 2 Copynumber: 26.5 Consensus size: 2
941929 NNNNNNNNNN
941939 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
941981 AT AT AT AT AT A
1 AT AT AT AT AT A
941992 CATACATGTG
Statistics
Matches: 51, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 51 1.00
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (2 bp):
AT
Found at i:942003 original size:2 final size:2
Alignment explanation
Indices: 941998--942027 Score: 60
Period size: 2 Copynumber: 15.0 Consensus size: 2
941988 TATACATACA
941998 TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG
1 TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG
942028 ATTTTAGTTG
Statistics
Matches: 28, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 28 1.00
ACGTcount: A:0.00, C:0.00, G:0.50, T:0.50
Consensus pattern (2 bp):
TG
Found at i:946391 original size:26 final size:25
Alignment explanation
Indices: 946333--946391 Score: 66
Period size: 26 Copynumber: 2.3 Consensus size: 25
946323 TATAATTATA
*
946333 ATATTTTTTCAACATGGTGTGAAAC
1 ATATTTTTTCAACATGGCGTGAAAC
* *
946358 AAACTTTTTT-AACCATGGCGTGTAAC
1 ATA-TTTTTTCAA-CATGGCGTGAAAC
946384 ATATTTTT
1 ATATTTTT
946392 GTACATGACA
Statistics
Matches: 28, Mismatches: 4, Indels: 4
0.78 0.11 0.11
Matches are distributed among these distances:
25 9 0.32
26 19 0.68
ACGTcount: A:0.31, C:0.14, G:0.14, T:0.42
Consensus pattern (25 bp):
ATATTTTTTCAACATGGCGTGAAAC
Found at i:946418 original size:24 final size:24
Alignment explanation
Indices: 946371--946639 Score: 189
Period size: 24 Copynumber: 11.2 Consensus size: 24
946361 CTTTTTTAAC
* * * *
946371 CATGGCGTGTAACATATTTTTGTA
1 CATGACGTGTCACATGTTTCTGTA
* *
946395 CATGACATGTCATATGTTTCTGTA
1 CATGACGTGTCACATGTTTCTGTA
*
946419 TATGACGTGTCACATGTTTCTGTATA
1 CATGACGTGTCACATGTTTCTG--TA
* *
946445 TATGACGTGTCACATGTTTCTTTA
1 CATGACGTGTCACATGTTTCTGTA
* * *
946469 TATGACGTGTCACATGTTCCTTTA
1 CATGACGTGTCACATGTTTCTGTA
* *
946493 CATGACGTGTCACAAGTTTTTGTA
1 CATGACGTGTCACATGTTTCTGTA
* ** *
946517 TATGGTGTGTCACATGTTTTTGTA
1 CATGACGTGTCACATGTTTCTGTA
* ** * *
946541 TATGGTGTGTCACATGTTCCTTTA
1 CATGACGTGTCACATGTTTCTGTA
*** * *
946565 CATGGTATGTCACA-GTTCCTTTA
1 CATGACGTGTCACATGTTTCTGTA
*** * * *
946588 CATGGTATGTCACATATTTTTATA
1 CATGACGTGTCACATGTTTCTGTA
* *
946612 CATGGCGTGTCATATGTTTCTGTA
1 CATGACGTGTCACATGTTTCTGTA
946636 CATG
1 CATG
946640 TAAGAGTTAA
Statistics
Matches: 207, Mismatches: 35, Indels: 6
0.83 0.14 0.02
Matches are distributed among these distances:
23 23 0.11
24 161 0.78
26 23 0.11
ACGTcount: A:0.22, C:0.16, G:0.19, T:0.43
Consensus pattern (24 bp):
CATGACGTGTCACATGTTTCTGTA
Found at i:946456 original size:50 final size:50
Alignment explanation
Indices: 946396--946543 Score: 192
Period size: 50 Copynumber: 3.0 Consensus size: 50
946386 ATTTTTGTAC
* *
946396 ATGACATGTCATATGTTTCTGTATATGACGTGTCACATGTTTCTGTATAT
1 ATGACGTGTCACATGTTTCTGTATATGACGTGTCACATGTTTCTGTATAT
* * *
946446 ATGACGTGTCACATGTTTCTTTATATGACGTGTCACATGTTCCT-T-TAC
1 ATGACGTGTCACATGTTTCTGTATATGACGTGTCACATGTTTCTGTATAT
* * ** *
946494 ATGACGTGTCACAAGTTTTTGTATATGGTGTGTCACATGTTTTTGTATAT
1 ATGACGTGTCACATGTTTCTGTATATGACGTGTCACATGTTTCTGTATAT
946544 GGTGTGTCAC
Statistics
Matches: 83, Mismatches: 13, Indels: 4
0.83 0.13 0.04
Matches are distributed among these distances:
48 39 0.47
49 2 0.02
50 42 0.51
ACGTcount: A:0.22, C:0.15, G:0.19, T:0.44
Consensus pattern (50 bp):
ATGACGTGTCACATGTTTCTGTATATGACGTGTCACATGTTTCTGTATAT
Found at i:946551 original size:72 final size:70
Alignment explanation
Indices: 946402--946639 Score: 217
Period size: 72 Copynumber: 3.3 Consensus size: 70
946392 GTACATGACA
* * * * **
946402 TGTCATATGTTTCTGTATATGACGTGTCACATGTTTCTGTATATATGACGTGTCACATGTTTCTT
1 TGTCACATGTTCCTGTACATGACGTGTCACAAGTTT-T-T-TATATGGTGTGTCACATGTTT-TT
*
946467 TATATGACG
62 TATATGGCG
*
946476 TGTCACATGTTCCTTTACATGACGTGTCACAAGTTTTTGTATATGGTGTGTCACATGTTTTTGTA
1 TGTCACATGTTCCTGTACATGACGTGTCACAAGTTTTT-TATATGGTGTGTCACATGTTTTT-TA
*
946541 TATGGTG
64 TATGGCG
* *** * * * *
946548 TGTCACATGTTCCTTTACATGGTATGTCAC-AGTTCCTTTACATGGTATGTCACATATTTTTATA
1 TGTCACATGTTCCTGTACATGACGTGTCACAAGTT-TTTTATATGGTGTGTCACATGTTTTT-TA
*
946612 CATGGCG
64 TATGGCG
* *
946619 TGTCATATGTTTCTGTACATG
1 TGTCACATGTTCCTGTACATG
946640 TAAGAGTTAA
Statistics
Matches: 139, Mismatches: 23, Indels: 7
0.82 0.14 0.04
Matches are distributed among these distances:
71 51 0.37
72 56 0.40
73 1 0.01
74 31 0.22
ACGTcount: A:0.21, C:0.16, G:0.19, T:0.44
Consensus pattern (70 bp):
TGTCACATGTTCCTGTACATGACGTGTCACAAGTTTTTTATATGGTGTGTCACATGTTTTTTATA
TGGCG
Found at i:947256 original size:28 final size:30
Alignment explanation
Indices: 947190--947257 Score: 72
Period size: 29 Copynumber: 2.3 Consensus size: 30
947180 AAGAAATTAT
*
947190 ATTAAAAATAAAAAAATATATATACTTGTA
1 ATTAAAAATAAAAAAATATAAATACTTGTA
*
947220 A-TAAGAAAT-GAAAAATA-AAATACATT-TA
1 ATTAA-AAATAAAAAAATATAAATAC-TTGTA
947248 ATTAAAAATA
1 ATTAAAAATA
947258 TATTTAAAAA
Statistics
Matches: 32, Mismatches: 2, Indels: 9
0.74 0.05 0.21
Matches are distributed among these distances:
28 12 0.38
29 15 0.47
30 5 0.16
ACGTcount: A:0.63, C:0.03, G:0.04, T:0.29
Consensus pattern (30 bp):
ATTAAAAATAAAAAAATATAAATACTTGTA
Found at i:947492 original size:15 final size:15
Alignment explanation
Indices: 947459--947514 Score: 67
Period size: 15 Copynumber: 3.7 Consensus size: 15
947449 TTTTTCCTGC
* *
947459 AATCACATTGCTTGC
1 AATCACATTACTTGT
*
947474 AATCACATTATTTGT
1 AATCACATTACTTGT
* *
947489 AATCATATTACCTGT
1 AATCACATTACTTGT
947504 AATCACATTAC
1 AATCACATTAC
947515 ATTATAAAGT
Statistics
Matches: 34, Mismatches: 7, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
15 34 1.00
ACGTcount: A:0.34, C:0.21, G:0.07, T:0.38
Consensus pattern (15 bp):
AATCACATTACTTGT
Found at i:947727 original size:17 final size:17
Alignment explanation
Indices: 947679--947727 Score: 53
Period size: 17 Copynumber: 2.9 Consensus size: 17
947669 TTTTAAACTT
*
947679 ATTTAGTTTATTTTTAA
1 ATTTATTTTATTTTTAA
* * *
947696 AATTATTTAACTTTTAA
1 ATTTATTTTATTTTTAA
*
947713 TTTTATTTTATTTTT
1 ATTTATTTTATTTTT
947728 TACTTTAAAC
Statistics
Matches: 24, Mismatches: 8, Indels: 0
0.75 0.25 0.00
Matches are distributed among these distances:
17 24 1.00
ACGTcount: A:0.29, C:0.02, G:0.02, T:0.67
Consensus pattern (17 bp):
ATTTATTTTATTTTTAA
Found at i:948171 original size:252 final size:250
Alignment explanation
Indices: 947855--949082 Score: 1464
Period size: 252 Copynumber: 4.9 Consensus size: 250
947845 AAATTTATTT
* * * *
947855 GTTTTTACAT-AATTCTTACAGTTTTACGTCAA-AGTTTTTCTATATCAACTTTGAACTATAATT
1 GTTTTTACGTCAATTCTTACAGTTTTACGTTAAGA-CTTTTCTATATCAATTTTGAACTATAATT
* *
947918 ATTTTTATCCTTATTATTCTTTATTTAATAGTTAAAATTTGTATATCGTTAAACACTTTTAATCT
65 ATTTTTATCCTTATTATTCTTTATTTAAAAATTAAAATTTGTATATCGTTAAACACTTTTAA-CT
* * * * *
947983 GAGAATAAAAATTTAAATATTTGTATTTCACTAAAATTAGATTTTTTTCACTTAATTAACTTGTT
129 GAGAATATAAATTTAAATATTTATTTTTCATTAAAATTAGATTTTTTT-ACTTAATTAACTTATT
* * * *
948048 ACATTAACACTCACACATTTACATTAAAATTTAAAATTTAGTTATTCCACCTTTATAA
193 ACGTTAACTCTCACACATTTACGTTAAGATTTAAAATTTAGTTATTCCACCTTTATAA
* * * * * *
948106 GTTTTTATGCCAATTTTTATAGTTTTACGTTAAGACTTTTTTATGTCAATTTTGAACTATAATTA
1 GTTTTTACGTCAATTCTTACAGTTTTACGTTAAGACTTTTCTATATCAATTTTGAACTATAATTA
* * *
948171 TTTTTACCCTCATTATTCTTTATTTAAAAATTAAAATTTGTATATTGTTAAACACTTTTAACTCG
66 TTTTTATCCTTATTATTCTTTATTTAAAAATTAAAATTTGTATATCGTTAAACACTTTTAACT-G
* * * *
948236 AAAATATAAATTTAAATATTTATTTTTCATTAAAATTAGATTTTTGTATTTAATTGACTTATTAC
130 AGAATATAAATTTAAATATTTATTTTTCATTAAAATTAGATTTTTTTACTTAATTAACTTATTAC
* * * * *
948301 GTTAACTCTCAAATATTTACGTTAAGATTTAAAATTTATTTATTCTACCTGTATAA
195 GTTAACTCTCACACATTTACGTTAAGATTTAAAATTTAGTTATTCCACCTTTATAA
* * * ** *
948357 GTTTTTACGTCAATTCTTACAGTTTTACATCAAGGCTTTTCTATATC-GGTTTGAAATATAATTA
1 GTTTTTACGTCAATTCTTACAGTTTTACGTTAAGACTTTTCTATATCAATTTTGAACTATAATTA
* * * * * * *
948421 TCTTTATCCTTATTATTCTTCATTTAAAAATAAAAATTTGTATATCGTTAAATAGTTTTAGCCGA
66 TTTTTATCCTTATTATTCTTTATTTAAAAATTAAAATTTGTATATCGTTAAACACTTTTAACTGA
* * *
948486 GAATA-AAATTCAACTATTTATTTTTTATTAAAATTAGATTTTTTTACTTAATTAACTTATTACG
131 GAATATAAATTTAAATATTTATTTTTCATTAAAATTAGATTTTTTTACTTAATTAACTTATTACG
* * * *
948550 TTAACTTTCATACATTTACGTTAAGATTTAAAATTTAATTATTTCACCTTTATAA
196 TTAACTCTCACACATTTACGTTAAGATTTAAAATTTAGTTATTCCACCTTTATAA
* * *
948605 GTTTTTACGTCAATTCTTACAATTTTAC-TTCAA-AGCTTATCTATATCAAATTTGAACTATAAT
1 GTTTTTACGTCAATTCTTACAGTTTTACGTT-AAGA-CTTTTCTATATCAATTTTGAACTATAAT
* * * * **
948668 TATTTTTATCCTTATTATTCTTTATTCAAAAATTAAAAATTT-TCTATTGTTAAACTCTTTTAGT
64 TATTTTTATCCTTATTATTCTTTATTTAAAAATT-AAAATTTGTATATCGTTAAACACTTTTAAC
* * * * * * * * *
948732 TCAAGAATATACATTTAAATGTTTGTTTTTCACTAAGATTAAGTTTTTTTTACTTAATTGACTTG
128 T-GAGAATATAAATTTAAATATTTATTTTTCATTAAAATT-AGATTTTTTTACTTAATTAACTTA
* * * *
948797 TTAAGCTAACTCTCACACATTTATGTTAAGATTTAAAATTTAGTTATTCCACTTTTATAA
191 TTACGTTAACTCTCACACATTTACGTTAAGATTTAAAATTTAGTTATTCCACCTTTATAA
* ** * * *
948857 GGTTTTACGTCAATTCTTATGGTTTTACGATAAGGCTTTTCTATA-CTAGTTTTGAACTATAATT
1 GTTTTTACGTCAATTCTTACAGTTTTACGTTAAGACTTTTCTATATC-AATTTTGAACTATAATT
* * * * *
948921 ATCTTTATCCTTATTATTTTTTATTTAAAAATAAAAATTTATATATCGTTAAACACTTTTGACAT
65 ATTTTTATCCTTATTATTCTTTATTTAAAAATTAAAATTTGTATATCGTTAAACACTTTTAAC-T
* * * *
948986 AAAAATATAAATTTAAATATTTATTTCTCATTCAAATTAGATTTTTTTACTTAATTAACTTATTA
129 GAGAATATAAATTTAAATATTTATTTTTCATTAAAATTAGATTTTTTTACTTAATTAACTTATTA
* **
949051 CGTTAACTGTCACACATTTATATTAAGATTTA
194 CGTTAACTCTCACACATTTACGTTAAGATTTA
949083 TGTCACGATC
Statistics
Matches: 821, Mismatches: 141, Indels: 30
0.83 0.14 0.03
Matches are distributed among these distances:
247 1 0.00
248 141 0.17
249 64 0.08
250 80 0.10
251 191 0.23
252 341 0.42
253 3 0.00
ACGTcount: A:0.34, C:0.12, G:0.07, T:0.48
Consensus pattern (250 bp):
GTTTTTACGTCAATTCTTACAGTTTTACGTTAAGACTTTTCTATATCAATTTTGAACTATAATTA
TTTTTATCCTTATTATTCTTTATTTAAAAATTAAAATTTGTATATCGTTAAACACTTTTAACTGA
GAATATAAATTTAAATATTTATTTTTCATTAAAATTAGATTTTTTTACTTAATTAACTTATTACG
TTAACTCTCACACATTTACGTTAAGATTTAAAATTTAGTTATTCCACCTTTATAA
Found at i:948665 original size:499 final size:500
Alignment explanation
Indices: 947855--949082 Score: 1581
Period size: 499 Copynumber: 2.4 Consensus size: 500
947845 AAATTTATTT
* * * * *
947855 GTTTTTACAT-AATTCTTACAGTTTTACGTCAAAGTTTTTCTATATCAACTTTGAACTATAATTA
1 GTTTTTACGTCAATTCTTACAGTTTTACATCAAGGCTTTTCTATATC-GCTTTGAACTATAATTA
* * * * *
947919 TTTTTATCCTTATTATTCTTTATTTAATAGTTAAAATTTGTATATCGTTAAACACTTTTAATCTG
65 TCTTTATCCTTATTATTCTTTATTTAAAAATAAAAATTTGTATATCGTTAAACACTTTT-AGCTG
* * * *
947984 AGAATAAAAATTTAAATATTTGTATTTCACTAAAATTAGATTTTTTTCACTTAATTAACTTGTTA
129 AGAAT-AAAATTTAAATATTTATTTTTCATTAAAATTAGATTTTTTT-ACTTAATTAACTTATTA
* * * * *
948049 CATTAACACTCACACATTTACATTAAAATTTAAAATTTAGTTATTCCACCTTTATAAGTTTTTAT
192 CGTTAACTCTCACACATTTACATTAAGATTTAAAATTTAATTATTCCACCTTTATAAGTTTTTAC
* * * * * * *
948114 GCCAATTTTTATAGTTTTACGTTAAGACTTTTTTATGTCAATTTTGAACTATAATTATTTTTACC
257 GCCAATTCTTACAATTTTACGTTAAGACTTATCTATATCAAATTTGAACTATAATTATTTTTACC
*
948179 CTCATTATTCTTTATTTAAAAATT-AAAATTTGTATATTGTTAAACACTTTTAACTCGAA-AATA
322 CTCATTATTCTTTATTCAAAAATTAAAAATTT-TATATTGTTAAACACTTTTAACTC-AAGAATA
* * * *
948242 TAAATTTAAATATTTATTTTTCATTAAAATT-AGATTTTTGTATTTAATTGACTTATTACGTTAA
385 TAAATTTAAATATTTATTTTTCACTAAAATTAAGATTTTTGTACTTAATTGACTTATTAAGCTAA
* * *
948306 CTCTCAAATATTTACGTTAAGATTTAAAATTTATTTATTCTACCTGTATAA
450 CTCTCAAACATTTACGTTAAGATTTAAAATTTAGTTATTCCACCTGTATAA
* *
948357 GTTTTTACGTCAATTCTTACAGTTTTACATCAAGGCTTTTCTATATCGGTTTGAAATATAATTAT
1 GTTTTTACGTCAATTCTTACAGTTTTACATCAAGGCTTTTCTATATCGCTTTGAACTATAATTAT
* * * *
948422 CTTTATCCTTATTATTCTTCATTTAAAAATAAAAATTTGTATATCGTTAAATAGTTTTAGCCGAG
66 CTTTATCCTTATTATTCTTTATTTAAAAATAAAAATTTGTATATCGTTAAACACTTTTAGCTGAG
* * *
948487 AATAAAATTCAACTATTTATTTTTTATTAAAATTAGATTTTTTTACTTAATTAACTTATTACGTT
131 AATAAAATTTAAATATTTATTTTTCATTAAAATTAGATTTTTTTACTTAATTAACTTATTACGTT
* * * * *
948552 AACTTTCATACATTTACGTTAAGATTTAAAATTTAATTATTTCACCTTTATAAGTTTTTACGTCA
196 AACTCTCACACATTTACATTAAGATTTAAAATTTAATTATTCCACCTTTATAAGTTTTTACGCCA
*
948617 ATTCTTACAATTTTAC-TTCAA-AGCTTATCTATATCAAATTTGAACTATAATTATTTTTATCCT
261 ATTCTTACAATTTTACGTT-AAGA-CTTATCTATATCAAATTTGAACTATAATTATTTTTACCCT
* * * ** *
948680 TATTATTCTTTATTCAAAAATTAAAAATTTTCTATTGTTAAACTCTTTTAGTTCAAGAATATACA
324 CATTATTCTTTATTCAAAAATTAAAAATTTTATATTGTTAAACACTTTTAACTCAAGAATATAAA
* * * * * *
948745 TTTAAATGTTTGTTTTTCACTAAGATTAAGTTTTTTTTACTTAATTGACTTGTTAAGCTAACTCT
389 TTTAAATATTTATTTTTCACTAAAATTAAGATTTTTGTACTTAATTGACTTATTAAGCTAACTCT
* * * *
948810 CACACATTTATGTTAAGATTTAAAATTTAGTTATTCCACTTTTATAA
454 CAAACATTTACGTTAAGATTTAAAATTTAGTTATTCCACCTGTATAA
* ** * *
948857 GGTTTTACGTCAATTCTTATGGTTTTACGAT-AAGGCTTTTCTATACTAGTTTTGAACTATAATT
1 GTTTTTACGTCAATTCTTACAGTTTTAC-ATCAAGGCTTTTCTATA-TCGCTTTGAACTATAATT
* *
948921 ATCTTTATCCTTATTATTTTTTATTTAAAAATAAAAATTTATATATCGTTAAACACTTTT-GACA
64 ATCTTTATCCTTATTATTCTTTATTTAAAAATAAAAATTTGTATATCGTTAAACACTTTTAG-C-
* * * *
948985 TAAAAATATAAATTTAAATATTTATTTCTCATTCAAATTAGATTTTTTTACTTAATTAACTTATT
127 TGAGAATA-AAATTTAAATATTTATTTTTCATTAAAATTAGATTTTTTTACTTAATTAACTTATT
* *
949050 ACGTTAACTGTCACACATTTATATTAAGATTTA
191 ACGTTAACTCTCACACATTTACATTAAGATTTA
949083 TGTCACGATC
Statistics
Matches: 627, Mismatches: 88, Indels: 21
0.85 0.12 0.03
Matches are distributed among these distances:
498 5 0.01
499 195 0.31
500 153 0.24
501 81 0.13
502 80 0.13
503 113 0.18
ACGTcount: A:0.34, C:0.12, G:0.07, T:0.48
Consensus pattern (500 bp):
GTTTTTACGTCAATTCTTACAGTTTTACATCAAGGCTTTTCTATATCGCTTTGAACTATAATTAT
CTTTATCCTTATTATTCTTTATTTAAAAATAAAAATTTGTATATCGTTAAACACTTTTAGCTGAG
AATAAAATTTAAATATTTATTTTTCATTAAAATTAGATTTTTTTACTTAATTAACTTATTACGTT
AACTCTCACACATTTACATTAAGATTTAAAATTTAATTATTCCACCTTTATAAGTTTTTACGCCA
ATTCTTACAATTTTACGTTAAGACTTATCTATATCAAATTTGAACTATAATTATTTTTACCCTCA
TTATTCTTTATTCAAAAATTAAAAATTTTATATTGTTAAACACTTTTAACTCAAGAATATAAATT
TAAATATTTATTTTTCACTAAAATTAAGATTTTTGTACTTAATTGACTTATTAAGCTAACTCTCA
AACATTTACGTTAAGATTTAAAATTTAGTTATTCCACCTGTATAA
Found at i:950258 original size:13 final size:13
Alignment explanation
Indices: 950240--950264 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
950230 TTTCAGAAAA
950240 TTTATAAAATCAT
1 TTTATAAAATCAT
950253 TTTATAAAATCA
1 TTTATAAAATCA
950265 CAATTTCTCC
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:0.48, C:0.08, G:0.00, T:0.44
Consensus pattern (13 bp):
TTTATAAAATCAT
Found at i:953221 original size:251 final size:250
Alignment explanation
Indices: 952261--954006 Score: 1876
Period size: 251 Copynumber: 7.0 Consensus size: 250
952251 AAAAATTTAA
* * * * * * *
952261 ATAAAAATAATTATAGTTGAAAATTAACATA-AAAATGCCTTGACATAAAACTGTAAAAATTGAT
1 ATAAAAATAATTATAGTTCAAAATTGACATAGAAAA-ACCTTGACGTAAAACTATAAGAATTGAC
* * * * * *
952325 GTAAAAACTTCTAAAAGTGGAATAGCTAAATTTTAAATCTTAATGTAAATATGTAAGAGTTAACG
65 GTAAAAACTTATAAAGGTGGAATAACTAAATTTTAAATCTTAACGTAAATGTGTGAGAGTTAACG
* * * * * *
952390 TAACAAGTCATTTAAGTAAAAAAATCTAATTTTAATGAAAACAAACATTTAAATTTATATTTTCG
130 TAATAAGTCAATTAAGTAAAAAAATCTAATTTTAATGAAAAAAAATATTTAAATTTATATTCTCA
* * * * *
952455 GATTAAAAGTATTTAACAATATACAAATTTTAATTTTAAAATAAAAAATAATAAAG
195 GACTAAAAGTGTTTAACGATATACAAATTTTAATTTTTAAATAAAGAATAATAAAG
* * *
952511 ATAAAAATAATTATAATTGAAAATTGACATA-AAATAACCTTGAAGTAAAAC--------TTGAC
1 ATAAAAATAATTATAGTTCAAAATTGACATAGAAA-AACCTTGACGTAAAACTATAAGAATTGAC
* * * *
952567 ATAAAAACTTATAAAGGTGGAATAACTAAGTTTT-ATTCTTAACGTAAATGTGTGAGAGTTAATG
65 GTAAAAACTTATAAAGGTGGAATAACTAAATTTTAAATCTTAACGTAAATGTGTGAGAGTTAACG
* * * *
952631 TAATAAGTCAATTAAGT-AAAAAATAATAATTTTAATGAAAAAAAAATTTTTGAATTTATATTTT
130 TAATAAGTCAATTAAGTAAAAAAAT-CTAATTTTAATG-AAAAAAAATATTTAAATTTATA-TTC
* * * * * *
952695 TC-GGCTAAAAGTGTTTAACGTTGTATAAATTTTTATTTTTAAATGAAGAATAATAAAG
192 TCAGACTAAAAGTGTTTAACGATATACAAATTTTAATTTTTAAATAAAGAATAATAAAG
* * * * * * * *
952753 ATAAAGATAATTATAGCTCAAAACTGACATACAAAAGCTTTGACGTAAAACTGTAAGAATTGATG
1 ATAAAAATAATTATAGTTCAAAATTGACATAGAAAAACCTTGACGTAAAACTATAAGAATTGACG
* * * * *
952818 T----A-TTATACAGGTCGAATAAAC-AAATTTTAAATGTTAACGTAAATATCTGAGAGTTAACG
66 TAAAAACTTATAAAGGTGGAAT-AACTAAATTTTAAATCTTAACGTAAATGTGTGAGAGTTAACG
* * *
952877 TAACACGTCAATTAAGTAAAAAAAATCTCATTTTAAT-AAAAAATAAGTATTTAAATTTATATTC
130 TAATAAGTCAATTAAGT-AAAAAAATCTAATTTTAATGAAAAAA-AA-TATTTAAATTTATATTC
* ** * **
952941 TCGGGTTAAAAGTGTTTAACGATATACAAATTTTAATTTTTAAGTAAAGAATAATGAGGG
192 TCAGACTAAAAGTGTTTAACGATATACAAATTTTAATTTTTAAATAAAGAATAAT-AAAG
* *
953001 A-AAAAATAATTATAGTTCAAAATTTACATAGAAAAATCTTGACGTAAAACTATAAGAATTGACG
1 ATAAAAATAATTATAGTTCAAAATTGACATAGAAAAACCTTGACGTAAAACTATAAGAATTGACG
* * *
953065 TAAAAACTTATAAAGGTGGAATAACTAAATTTTAAATCTTAGCGTAAATGTGTGAGAATTAACAT
66 TAAAAACTTATAAAGGTGGAATAACTAAATTTTAAATCTTAACGTAAATGTGTGAGAGTTAACGT
* * *
953130 AATAAGCCAATTAAGTAAAAAAATCTAATTTTAGTGGAAAAAAAACATTTAAATTTATATTCTCA
131 AATAAGTCAATTAAGTAAAAAAATCTAATTTTAAT-GAAAAAAAATATTTAAATTTATATTCTCA
* * * *
953195 GACTAAAAGTATTTAACGATATACAAATTTTAATTTTAAAATAAAAAATAATAAGG
195 GACTAAAAGTGTTTAACGATATACAAATTTTAATTTTTAAATAAAGAATAATAAAG
** * *
953251 ATAAAAATAATTATAGTTC-AAATTGACATAGAAAAATTTTAACGTAAAACTATAAGAATTGAGG
1 ATAAAAATAATTATAGTTCAAAATTGACATAGAAAAACCTTGACGTAAAACTATAAGAATTGACG
* * * *
953315 TAAAAACTTATAAAGGTGGAATACCTAAATTTTAAATCTTAACATAGATGTGTAAGAGTTAACGT
66 TAAAAACTTATAAAGGTGGAATAACTAAATTTTAAATCTTAACGTAAATGTGTGAGAGTTAACGT
* * *
953380 AATAAGTTAATTAAGTAAAAAAATCTAATTTTAATGAGAAATAAATATTTAAATTTATATTTTTC
131 AATAAGTCAATTAAGTAAAAAAATCTAATTTTAATGA-AAAAAAATATTTAAATTTATA-TTCTC
* *
953445 A-ATTAAAAGTGTTTAACGATATACAAATTTTTATTTTTAAATAAAGAATAATAAAG
194 AGACTAAAAGTGTTTAACGATATACAAATTTTAATTTTTAAATAAAGAATAATAAAG
** * * * *
953501 ATAAAAATAATTATAAATCAAAACT-AGTATAGACAAACCTT-ATCGTAAAATTATAAGAATTGA
1 ATAAAAATAATTATAGTTCAAAATTGA-CATAGAAAAACCTTGA-CGTAAAACTATAAGAATTGA
* * ** * * *
953564 CGTAAAACCTTGTAAAAATAGAATAATTAAATTTTAAATCTTAACATAAATGTGTGAGAGTTAAC
64 CGTAAAAACTTATAAAGGTGGAATAACTAAATTTTAAATCTTAACGTAAATGTGTGAGAGTTAAC
* * * * * *
953629 CTAACAAGTCAATTAGGTAAAAAAA-CTTAATCTTAGTGAAAAACAAACATTTAAATTTATATTC
129 GTAATAAGTCAATTAAGTAAAAAAATC-TAATTTTAATGAAAAA-AAATATTTAAATTTATATTC
* * * ** * *
953693 T-TGAACTAAAAGTGTTTAGCGATATAAAAATTTTAATTTTCCAATACAGAATAATAATG
192 TCAG-ACTAAAAGTGTTTAACGATATACAAATTTTAATTTTTAAATAAAGAATAATAAAG
* * * * * * * * * * *
953752 ATGAAATTAATTATAGTTCAAAATTGATATAGAGAAGCCTTTAAGTAAAACTGTAAGTATTAACA
1 ATAAAAATAATTATAGTTCAAAATTGACATAGAAAAACCTTGACGTAAAACTATAAGAATTGACG
* * * * * *
953817 TAACAACTTATAAAAGTGAAATAATTAAATTTTAAATCTTAACGTAAATGTGTTAAAGTTAACGT
66 TAAAAACTTATAAAGGTGGAATAACTAAATTTTAAATCTTAACGTAAATGTGTGAGAGTTAACGT
* *
953882 AATAAGTCAATTAAGTAAAAAAATCTAATTTTAATGAAAAACAAATATTTGAATTTATATTCTTA
131 AATAAGTCAATTAAGTAAAAAAATCTAATTTTAATGAAAAA-AAATATTTAAATTTATATTCTCA
* * * *
953947 G-CTAAATGTGTTTAACGATATATAAAATTTT-ATTTTTAAATGAAGAATAATAAGG
195 GACTAAAAGTGTTTAACGATATA-CAAATTTTAATTTTTAAATAAAGAATAATAAAG
954002 ATAAA
1 ATAAA
954007 TGATAATTCT
Statistics
Matches: 1255, Mismatches: 197, Indels: 88
0.81 0.13 0.06
Matches are distributed among these distances:
240 7 0.01
241 51 0.04
242 135 0.11
243 8 0.01
245 25 0.02
246 50 0.04
247 120 0.10
248 10 0.01
249 2 0.00
250 320 0.25
251 456 0.36
252 65 0.05
253 6 0.00
ACGTcount: A:0.48, C:0.07, G:0.11, T:0.34
Consensus pattern (250 bp):
ATAAAAATAATTATAGTTCAAAATTGACATAGAAAAACCTTGACGTAAAACTATAAGAATTGACG
TAAAAACTTATAAAGGTGGAATAACTAAATTTTAAATCTTAACGTAAATGTGTGAGAGTTAACGT
AATAAGTCAATTAAGTAAAAAAATCTAATTTTAATGAAAAAAAATATTTAAATTTATATTCTCAG
ACTAAAAGTGTTTAACGATATACAAATTTTAATTTTTAAATAAAGAATAATAAAG
Found at i:953558 original size:501 final size:500
Alignment explanation
Indices: 952261--954006 Score: 1943
Period size: 501 Copynumber: 3.5 Consensus size: 500
952251 AAAAATTTAA
* * * * * * *
952261 ATAAAAATAATTATAGTTGAAAATTAACATA-AAAATGCCTTGACATAAAACTGTAAAAATTGAT
1 ATAAAAATAATTATAGTTCAAAATTGACATAGAAAA-ACTTTAACGTAAAACTGTAAGAATTGAT
* * *
952325 GTAAAAACTTCTAAAAGTGGAATAGCTAAATTTTAAATCTTAATGTAAATATGTAAGAGTTAACG
65 GTAAAAACTTATAAAAGTGGAATAACTAAATTTTAAATCTTAACGTAAATATGTAAGAGTTAACG
* *
952390 TAACAAGTCATTTAAGTAAAAAAATCTAATTTTAATG-AAAACAAACATTTAAATTTATATTTTC
130 TAACAAGTCAATTAAGTAAAAAAATCTAATTTTAATGAAAAACAAATATTTAAATTTATATTTTC
* * * * *
952454 GGATTAAAAGTATTTAACAATATACAAATTTTAATTTTAAAATAAAAAATAATAAAGATAAAAAT
195 GAATTAAAAGTGTTTAACGATATACAAATTTTAATTTTTAAATAAAGAATAATAAAGATAAAAAT
* * * * *
952519 AATTATAATTGAAAATTGACATA-AAATAACC-T-T-G---AAGTA-AA-ACTTGACATAAAAAC
260 AATTATAATTCAAAATAG-CATAGAAA-AACCTTATCGTAAAACTATAAGAATTGACGTAAAAAC
* * **
952575 TTATAAAGGTGGAATAACTAAGTTTT-ATTCTTAACGTAAATGTGTGAGAGTTAATGTAATAAGT
323 TTATAAAGGTGGAATAACTAAATTTTAAATCTTAACGTAAATGTGTGAGAGTTAACATAATAAGT
* * * ** * * *
952639 CAATTAAGT-AAAAAATAATAATTTTAATGAAAAAAAAATTTTTGAATTTATATTTTTCGGCTAA
388 CAATTAAGTAAAAAAAT-CTAATTTTAGTGGAAAAAAAACATTTAAATTTATA-TTCTCGACTAA
* * * * * *
952703 AAGTGTTTAACGTTGTATAAATTTTTATTTTTAAATGAAGAATAATAAAG
451 AAGTGTTTAACGATATAAAAATTTTAATTTTAAAATAAAGAATAATAAAG
* * * * * *
952753 ATAAAGATAATTATAGCTCAAAACTGACATACAAAAGCTTTGACGTAAAACTGTAAGAATTGATG
1 ATAAAAATAATTATAGTTCAAAATTGACATAGAAAAACTTTAACGTAAAACTGTAAGAATTGATG
* * * * * *
952818 T----A-TTATACAGGTCGAATAAAC-AAATTTTAAATGTTAACGTAAATATCTGAGAGTTAACG
66 TAAAAACTTATAAAAGTGGAAT-AACTAAATTTTAAATCTTAACGTAAATATGTAAGAGTTAACG
* * * * * *
952877 TAACACGTCAATTAAGTAAAAAAAATCTCATTTTAATAAAAAATAAGTATTTAAATTTATATTCT
130 TAACAAGTCAATTAAGT-AAAAAAATCTAATTTTAATGAAAAACAAATATTTAAATTTATATTTT
** * **
952942 CGGGTTAAAAGTGTTTAACGATATACAAATTTTAATTTTTAAGTAAAGAATAATGAGGGA-AAAA
194 CGAATTAAAAGTGTTTAACGATATACAAATTTTAATTTTTAAATAAAGAATAAT-AAAGATAAAA
* *
953006 ATAATTATAGTTCAAAATTTA-CATAGAAAAATCTTGA-CGTAAAACTATAAGAATTGACGTAAA
258 ATAATTATAATTCAAAA--TAGCATAGAAAAACCTT-ATCGTAAAACTATAAGAATTGACGTAAA
* *
953069 AACTTATAAAGGTGGAATAACTAAATTTTAAATCTTAGCGTAAATGTGTGAGAATTAACATAATA
320 AACTTATAAAGGTGGAATAACTAAATTTTAAATCTTAACGTAAATGTGTGAGAGTTAACATAATA
*
953134 AGCCAATTAAGTAAAAAAATCTAATTTTAGTGGAAAAAAAACATTTAAATTTATATTCTCAGACT
385 AGTCAATTAAGTAAAAAAATCTAATTTTAGTGGAAAAAAAACATTTAAATTTATATTCTC-GACT
* * * *
953199 AAAAGTATTTAACGATATACAAATTTTAATTTTAAAATAAAAAATAATAAGG
449 AAAAGTGTTTAACGATATAAAAATTTTAATTTTAAAATAAAGAATAATAAAG
* * *
953251 ATAAAAATAATTATAGTTC-AAATTGACATAGAAAAATTTTAACGTAAAACTATAAGAATTGAGG
1 ATAAAAATAATTATAGTTCAAAATTGACATAGAAAAACTTTAACGTAAAACTGTAAGAATTGATG
* * * * *
953315 TAAAAACTTATAAAGGTGGAATACCTAAATTTTAAATCTTAACATAGATGTGTAAGAGTTAACGT
66 TAAAAACTTATAAAAGTGGAATAACTAAATTTTAAATCTTAACGTAAATATGTAAGAGTTAACGT
* * * *
953380 AATAAGTTAATTAAGTAAAAAAATCTAATTTTAATGAGAAATAAATATTTAAATTTATATTTTTC
131 AACAAGTCAATTAAGTAAAAAAATCTAATTTTAATGAAAAACAAATATTTAAATTTATA-TTTTC
*
953445 -AATTAAAAGTGTTTAACGATATACAAATTTTTATTTTTAAATAAAGAATAATAAAGATAAAAAT
195 GAATTAAAAGTGTTTAACGATATACAAATTTTAATTTTTAAATAAAGAATAATAAAGATAAAAAT
* * * * *
953509 AATTATAAATCAAAACTAGTATAGACAAACCTTATCGTAAAATTATAAGAATTGACGTAAAACCT
260 AATTATAATTCAAAA-TAGCATAGAAAAACCTTATCGTAAAACTATAAGAATTGACGTAAAAACT
* ** * * * * *
953574 TGTAAAAATAGAATAATTAAATTTTAAATCTTAACATAAATGTGTGAGAGTTAACCTAACAAGTC
324 TATAAAGGTGGAATAACTAAATTTTAAATCTTAACGTAAATGTGTGAGAGTTAACATAATAAGTC
* * *
953639 AATTAGGTAAAAAAA-CTTAATCTTAGT-GAAAAACAAACATTTAAATTTATATTCTTGAACTAA
389 AATTAAGTAAAAAAATC-TAATTTTAGTGGAAAAA-AAACATTTAAATTTATATTCTCG-ACTAA
* ** * *
953702 AAGTGTTTAGCGATATAAAAATTTTAATTTTCCAATACAGAATAATAATG
451 AAGTGTTTAACGATATAAAAATTTTAATTTTAAAATAAAGAATAATAAAG
* * * ** * * *
953752 ATGAAATTAATTATAGTTCAAAATTGATATAGAGAAGCCTTTAA-GTAAAACTGTAAGTATTAAC
1 ATAAAAATAATTATAGTTCAAAATTGACATAGA-AAAACTTTAACGTAAAACTGTAAGAATTGAT
* * * * *
953816 ATAACAACTTATAAAAGTGAAATAATTAAATTTTAAATCTTAACGTAAATGTGTTAA-AGTTAAC
65 GTAAAAACTTATAAAAGTGGAATAACTAAATTTTAAATCTTAACGTAAATATG-TAAGAGTTAAC
* *
953880 GTAATAAGTCAATTAAGTAAAAAAATCTAATTTTAATGAAAAACAAATATTTGAATTTATATTCT
129 GTAACAAGTCAATTAAGTAAAAAAATCTAATTTTAATGAAAAACAAATATTTAAATTTATATT-T
** * * * *
953945 T--AGCTAAATGTGTTTAACGATATATAAAATTTT-ATTTTTAAATGAAGAATAATAAGGATAAA
193 TCGAATTAAAAGTGTTTAACGATATA-CAAATTTTAATTTTTAAATAAAGAATAATAAAGATAAA
954007 TGATAATTCT
Statistics
Matches: 1062, Mismatches: 154, Indels: 67
0.83 0.12 0.05
Matches are distributed among these distances:
487 60 0.06
488 21 0.02
489 96 0.09
490 7 0.01
491 1 0.00
492 54 0.05
493 4 0.00
495 4 0.00
496 2 0.00
497 81 0.08
498 133 0.13
499 7 0.01
500 14 0.01
501 359 0.34
502 209 0.20
503 10 0.01
ACGTcount: A:0.48, C:0.07, G:0.11, T:0.34
Consensus pattern (500 bp):
ATAAAAATAATTATAGTTCAAAATTGACATAGAAAAACTTTAACGTAAAACTGTAAGAATTGATG
TAAAAACTTATAAAAGTGGAATAACTAAATTTTAAATCTTAACGTAAATATGTAAGAGTTAACGT
AACAAGTCAATTAAGTAAAAAAATCTAATTTTAATGAAAAACAAATATTTAAATTTATATTTTCG
AATTAAAAGTGTTTAACGATATACAAATTTTAATTTTTAAATAAAGAATAATAAAGATAAAAATA
ATTATAATTCAAAATAGCATAGAAAAACCTTATCGTAAAACTATAAGAATTGACGTAAAAACTTA
TAAAGGTGGAATAACTAAATTTTAAATCTTAACGTAAATGTGTGAGAGTTAACATAATAAGTCAA
TTAAGTAAAAAAATCTAATTTTAGTGGAAAAAAAACATTTAAATTTATATTCTCGACTAAAAGTG
TTTAACGATATAAAAATTTTAATTTTAAAATAAAGAATAATAAAG
Found at i:955066 original size:14 final size:14
Alignment explanation
Indices: 955047--955076 Score: 60
Period size: 14 Copynumber: 2.1 Consensus size: 14
955037 AATCACATAG
955047 GGATATAGTGTTTT
1 GGATATAGTGTTTT
955061 GGATATAGTGTTTT
1 GGATATAGTGTTTT
955075 GG
1 GG
955077 TTAAAATAGA
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 16 1.00
ACGTcount: A:0.20, C:0.00, G:0.33, T:0.47
Consensus pattern (14 bp):
GGATATAGTGTTTT
Found at i:978169 original size:199 final size:201
Alignment explanation
Indices: 977779--978172 Score: 463
Period size: 199 Copynumber: 2.0 Consensus size: 201
977769 TATATCCATA
* * * * *
977779 ATAGTTTTGAAATGAAAATTTTAAGTTCGAAATCTCTTTATTGCATGAATAAAATGTTTGATTCG
1 ATAGTTTTGAAATGAAAAATTTAAGTTCGAAATCTCTTTACTGAATGAACAAAATGTTTGATTCA
* * * * * * * * *
977844 GACGGTTAATTTGTTTGTTTTAATAGTATATAGTATTAGATTTGAGTATTAATGATACTTTATCG
66 AACAGTTAATTTGTCTGCTTTAATAGTAAATAGTATTACATTCGAGTACTAATGATACTTCATCG
* * * * *
977909 ACGTGATTCAAAATATAAGTTCTTTTCATGTTTCACGTGTTACAATATTTTATAATTTATATCAA
131 AAGTGATTCAAAATATAAGTTCTTTTCATGCTGCACGCGTTACAATATTGTATAATTTATATCAA
977974 TGATCT
196 TGATCT
* *
977980 ATAGTTTTGAAATGAAAAATTTATGTTTGAAATCT-TTCT-CT-AATGAACAAAATGTTTGATTC
1 ATAGTTTTGAAATGAAAAATTTAAGTTCGAAATCTCTT-TACTGAATGAACAAAATGTTTGATTC
* **
978042 AAATAGTTAATTTGTCTGCTTTAATAGTAAATAGTATTACATTCGAGTACTAATGATTGTTCATC
65 AAACAGTTAATTTGTCTGCTTTAATAGTAAATAGTATTACATTCGAGTACTAATGATACTTCATC
* * * ** * *
978107 GAAGTTATTCAAGATGTAAGTTC-TTTCTATGCTGCACGCGTTGTAATGTTGTATAGTTTATATC
130 GAAGTGATTCAAAATATAAGTTCTTTTC-ATGCTGCACGCGTTACAATATTGTATAATTTATATC
978171 AA
194 AA
978173 CAACATATAT
Statistics
Matches: 160, Mismatches: 31, Indels: 6
0.81 0.16 0.03
Matches are distributed among these distances:
198 4 0.03
199 120 0.75
200 3 0.02
201 33 0.21
ACGTcount: A:0.32, C:0.09, G:0.15, T:0.43
Consensus pattern (201 bp):
ATAGTTTTGAAATGAAAAATTTAAGTTCGAAATCTCTTTACTGAATGAACAAAATGTTTGATTCA
AACAGTTAATTTGTCTGCTTTAATAGTAAATAGTATTACATTCGAGTACTAATGATACTTCATCG
AAGTGATTCAAAATATAAGTTCTTTTCATGCTGCACGCGTTACAATATTGTATAATTTATATCAA
TGATCT
Found at i:980227 original size:38 final size:38
Alignment explanation
Indices: 980185--980263 Score: 131
Period size: 38 Copynumber: 2.1 Consensus size: 38
980175 TATTTTAAAT
*
980185 ATACGAGGATATATAAGAATGGATGTATACTAATGAAC
1 ATACGAGGATATATAAGAATGAATGTATACTAATGAAC
* *
980223 ATACGAGGATATATAAGAATGAATGTATGCTAATTAAC
1 ATACGAGGATATATAAGAATGAATGTATACTAATGAAC
980261 ATA
1 ATA
980264 ATGGTTATAC
Statistics
Matches: 38, Mismatches: 3, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
38 38 1.00
ACGTcount: A:0.46, C:0.08, G:0.19, T:0.28
Consensus pattern (38 bp):
ATACGAGGATATATAAGAATGAATGTATACTAATGAAC
Found at i:996546 original size:18 final size:19
Alignment explanation
Indices: 996525--996561 Score: 58
Period size: 19 Copynumber: 2.0 Consensus size: 19
996515 TTTATTTAAA
*
996525 ATTAAA-TAAAATTTTATT
1 ATTAAATTAAAATATTATT
996543 ATTAAATTAAAATATTATT
1 ATTAAATTAAAATATTATT
996562 TATCGTTTTA
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
18 6 0.35
19 11 0.65
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (19 bp):
ATTAAATTAAAATATTATT
Found at i:1031200 original size:20 final size:20
Alignment explanation
Indices: 1031177--1031225 Score: 64
Period size: 21 Copynumber: 2.4 Consensus size: 20
1031167 TTACCTTTTT
1031177 TTTTCACTTATTTC-CTTGAA
1 TTTTCACTT-TTTCTCTTGAA
*
1031197 TTTTCACACTTTTCTCTTGAA
1 TTTTCAC-TTTTTCTCTTGAA
1031218 TTTTCACT
1 TTTTCACT
1031226 CTAGGGTTTT
Statistics
Matches: 25, Mismatches: 2, Indels: 4
0.81 0.06 0.13
Matches are distributed among these distances:
20 11 0.44
21 14 0.56
ACGTcount: A:0.18, C:0.22, G:0.04, T:0.55
Consensus pattern (20 bp):
TTTTCACTTTTTCTCTTGAA
Found at i:1032714 original size:28 final size:28
Alignment explanation
Indices: 1032644--1032713 Score: 97
Period size: 28 Copynumber: 2.5 Consensus size: 28
1032634 ATCTTTACAT
* *
1032644 TATTCATCCATTTATAGTGGGTTAATAG
1 TATTCATCCATTTTTGGTGGGTTAATAG
*
1032672 TATTTATCCATTTTTGGTGGGTTAA-AG
1 TATTCATCCATTTTTGGTGGGTTAATAG
*
1032699 TATTCATCTATTTTT
1 TATTCATCCATTTTT
1032714 TACAAAACAA
Statistics
Matches: 37, Mismatches: 5, Indels: 1
0.86 0.12 0.02
Matches are distributed among these distances:
27 15 0.41
28 22 0.59
ACGTcount: A:0.24, C:0.10, G:0.16, T:0.50
Consensus pattern (28 bp):
TATTCATCCATTTTTGGTGGGTTAATAG
Found at i:1033604 original size:50 final size:50
Alignment explanation
Indices: 1033545--1033644 Score: 128
Period size: 50 Copynumber: 2.0 Consensus size: 50
1033535 GATCTAAACC
** * * *
1033545 CCACAAATGGTAAAATTTTGAAGCAAAAATAATCAAGTCATGCCACCACA
1 CCACAAATGGTAAAATTCCGAAGCAAAAATAACCAAGCCATACCACCACA
***
1033595 CCACAAATGGTTGGATTCCGAAGCAAAAATAACCAAGCCATACCACCACA
1 CCACAAATGGTAAAATTCCGAAGCAAAAATAACCAAGCCATACCACCACA
1033645 TTAACCAATG
Statistics
Matches: 42, Mismatches: 8, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
50 42 1.00
ACGTcount: A:0.44, C:0.26, G:0.13, T:0.17
Consensus pattern (50 bp):
CCACAAATGGTAAAATTCCGAAGCAAAAATAACCAAGCCATACCACCACA
Found at i:1037411 original size:55 final size:55
Alignment explanation
Indices: 1037347--1037456 Score: 211
Period size: 55 Copynumber: 2.0 Consensus size: 55
1037337 TAGATAAGCT
1037347 CCTATCCTATGATTTGTATCCAAATAAGCCCTTATGTTGATGAAAAGATGTCACA
1 CCTATCCTATGATTTGTATCCAAATAAGCCCTTATGTTGATGAAAAGATGTCACA
*
1037402 CCTATCCTATGATTTGTATCCAAATTAGCCCTTATGTTGATGAAAAGATGTCACA
1 CCTATCCTATGATTTGTATCCAAATAAGCCCTTATGTTGATGAAAAGATGTCACA
1037457 TGACCTTAAC
Statistics
Matches: 54, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
55 54 1.00
ACGTcount: A:0.32, C:0.20, G:0.15, T:0.34
Consensus pattern (55 bp):
CCTATCCTATGATTTGTATCCAAATAAGCCCTTATGTTGATGAAAAGATGTCACA
Found at i:1038966 original size:137 final size:138
Alignment explanation
Indices: 1038800--1039049 Score: 412
Period size: 137 Copynumber: 1.8 Consensus size: 138
1038790 ATTGCAAAAC
**
1038800 TTGGTTAATTTGGTATGTATAACAGTTTCCTCTTAGCTATAGTATTTTTTGCTGGGTGTTTTTTA
1 TTGGTTAATTTGGTATGTATAACAGTTTCCTCTTAGCTATAGTATTTTTTGCTGGCCGTTTTTTA
*
1038865 AAATTAA-TTTATATTTTTATAATATTTTTCTTATAAGGAAAAAGTACTGAACATAACATTTGCA
66 AAATTAATTTTATATTTTCATAATATTTTTCTTATAAGGAAAAAGTACTGAACATAACATTTGCA
1038929 AAACCTGG
131 AAACCTGG
*** * *
1038937 TTGGTTAATTTGGTATGTATGTTATTTTCCTGTTAGCTATAGTATTTTTTGCTGGCCGTTTTTTA
1 TTGGTTAATTTGGTATGTATAACAGTTTCCTCTTAGCTATAGTATTTTTTGCTGGCCGTTTTTTA
*
1039002 AAATTAATTTTATATTTTCATGATATTTTTCTTATAAGGAAAAAGTAC
66 AAATTAATTTTATATTTTCATAATATTTTTCTTATAAGGAAAAAGTAC
1039050 AAAAAATCAT
Statistics
Matches: 103, Mismatches: 9, Indels: 1
0.91 0.08 0.01
Matches are distributed among these distances:
137 65 0.63
138 38 0.37
ACGTcount: A:0.28, C:0.09, G:0.15, T:0.48
Consensus pattern (138 bp):
TTGGTTAATTTGGTATGTATAACAGTTTCCTCTTAGCTATAGTATTTTTTGCTGGCCGTTTTTTA
AAATTAATTTTATATTTTCATAATATTTTTCTTATAAGGAAAAAGTACTGAACATAACATTTGCA
AAACCTGG
Found at i:1041748 original size:137 final size:136
Alignment explanation
Indices: 1041502--1041774 Score: 519
Period size: 137 Copynumber: 2.0 Consensus size: 136
1041492 TGGTTCCCAT
1041502 GGCACAAAAATTATTATCTACAATTTATGGCTCAATAATGATCGGGATTCGGAGCTAGACTTTGA
1 GGCACAAAAATTATTATCTACAATTTATGGCTCAATAATGATCGGGATTCGGAGCTAGACTTTGA
*
1041567 TTCTGATCCAAAGGTTGAAATTTCTTTTTGCATCCTCTCCTTCTCTCTCTCTCTCTCTCTCAGTC
66 TTCTGATCCAAAGGTTGAAATTTCTTTTTGCATCCTCTCCTTCTCTCTCTCTCTCTCTCTCACTC
1041632 TGAATA
131 TGAATA
1041638 NGGCACAAAAATTATTATCTACAATTTATGGCTCAATAATGATCGGGATTCGGAGCTAGACTTTG
1 -GGCACAAAAATTATTATCTACAATTTATGGCTCAATAATGATCGGGATTCGGAGCTAGACTTTG
*
1041703 ATTCTGATCCAAAGGTTGAAATTTCTTTTTGCATCCTCTCCTTCTCTCTCTCTCTCTCTCTCTCT
65 ATTCTGATCCAAAGGTTGAAATTTCTTTTTGCATCCTCTCCTTCTCTCTCTCTCTCTCTCTCACT
1041768 CTGAATA
130 CTGAATA
1041775 TGTTGCAATA
Statistics
Matches: 134, Mismatches: 2, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
137 134 1.00
ACGTcount: A:0.25, C:0.23, G:0.14, T:0.38
Consensus pattern (136 bp):
GGCACAAAAATTATTATCTACAATTTATGGCTCAATAATGATCGGGATTCGGAGCTAGACTTTGA
TTCTGATCCAAAGGTTGAAATTTCTTTTTGCATCCTCTCCTTCTCTCTCTCTCTCTCTCTCACTC
TGAATA
Found at i:1041752 original size:2 final size:2
Alignment explanation
Indices: 1041745--1041769 Score: 50
Period size: 2 Copynumber: 12.5 Consensus size: 2
1041735 ATCCTCTCCT
1041745 TC TC TC TC TC TC TC TC TC TC TC TC T
1 TC TC TC TC TC TC TC TC TC TC TC TC T
1041770 GAATATGTTG
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 23 1.00
ACGTcount: A:0.00, C:0.48, G:0.00, T:0.52
Consensus pattern (2 bp):
TC
Found at i:1051743 original size:18 final size:16
Alignment explanation
Indices: 1051722--1051755 Score: 50
Period size: 18 Copynumber: 2.0 Consensus size: 16
1051712 TCTTTTTTCA
1051722 ATTTATAATATTATTTTT
1 ATTTAT-ATATT-TTTTT
1051740 ATTTATATATTTTTTT
1 ATTTATATATTTTTTT
1051756 GTTTCTATTC
Statistics
Matches: 16, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
16 5 0.31
17 5 0.31
18 6 0.38
ACGTcount: A:0.29, C:0.00, G:0.00, T:0.71
Consensus pattern (16 bp):
ATTTATATATTTTTTT
Found at i:1056141 original size:52 final size:51
Alignment explanation
Indices: 1056079--1056191 Score: 181
Period size: 52 Copynumber: 2.2 Consensus size: 51
1056069 CTTACTTAGT
* * *
1056079 TATGTCAAGATGTGAATGGTACAATGAGTCTACTGATAAGAATATTAATAG
1 TATGTCAAGATGTGAACGGTACAATGAGTCTACTAATAAAAATATTAATAG
1056130 CTATGTCAAGATGTGAACGGTACAATGAGTCTACTAATAAAAATATTAATAG
1 -TATGTCAAGATGTGAACGGTACAATGAGTCTACTAATAAAAATATTAATAG
1056182 TCATGTCAAG
1 T-ATGTCAAG
1056192 GTTTGTTAAT
Statistics
Matches: 57, Mismatches: 3, Indels: 2
0.92 0.05 0.03
Matches are distributed among these distances:
51 1 0.02
52 56 0.98
ACGTcount: A:0.40, C:0.11, G:0.19, T:0.30
Consensus pattern (51 bp):
TATGTCAAGATGTGAACGGTACAATGAGTCTACTAATAAAAATATTAATAG
Found at i:1057192 original size:7 final size:7
Alignment explanation
Indices: 1057182--1057214 Score: 59
Period size: 7 Copynumber: 4.9 Consensus size: 7
1057172 TTTTATAATT
1057182 TATTAAA
1 TATTAAA
1057189 TATTAAA
1 TATTAAA
1057196 TATTAAA
1 TATTAAA
1057203 TATTAAA
1 TATTAAA
1057210 -ATTAA
1 TATTAA
1057215 TTTTTCTAAT
Statistics
Matches: 26, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
6 5 0.19
7 21 0.81
ACGTcount: A:0.58, C:0.00, G:0.00, T:0.42
Consensus pattern (7 bp):
TATTAAA
Found at i:1057863 original size:52 final size:52
Alignment explanation
Indices: 1057719--1057865 Score: 204
Period size: 52 Copynumber: 2.8 Consensus size: 52
1057709 ATTTCTTACT
* * * *
1057719 TAGCCATGTCAAGATGTGAATGGTGCAATGAGTTTATTGATAAGAATATTAA
1 TAGCCATGTCAAGATGTGAATGGTACAATGAGTATACTGATAAAAATATTAA
* * *
1057771 TAGCCATATCAAGATGTGAATGGTACAATGAGTCTTCTGATAAAAATATTAA
1 TAGCCATGTCAAGATGTGAATGGTACAATGAGTATACTGATAAAAATATTAA
* * *
1057823 TAGCCATGTCAAGATGTGAATGATATAGTGAGTATACTGATAA
1 TAGCCATGTCAAGATGTGAATGGTACAATGAGTATACTGATAA
1057866 GTCAAGGTTT
Statistics
Matches: 83, Mismatches: 12, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
52 83 1.00
ACGTcount: A:0.38, C:0.10, G:0.21, T:0.31
Consensus pattern (52 bp):
TAGCCATGTCAAGATGTGAATGGTACAATGAGTATACTGATAAAAATATTAA
Found at i:1058313 original size:12 final size:13
Alignment explanation
Indices: 1058293--1058348 Score: 62
Period size: 13 Copynumber: 4.3 Consensus size: 13
1058283 TAACCACCTC
*
1058293 AAAAAATAA-AAT
1 AAAATATAATAAT
1058305 AAAATATAA-AAT
1 AAAATATAATAAT
*
1058317 AATATATATAATAAA
1 AA-A-ATATAATAAT
1058332 AAAATATAATAAT
1 AAAATATAATAAT
1058345 AAAA
1 AAAA
1058349 AAAAGAGGAA
Statistics
Matches: 38, Mismatches: 3, Indels: 5
0.83 0.07 0.11
Matches are distributed among these distances:
12 13 0.34
13 14 0.37
14 7 0.18
15 4 0.11
ACGTcount: A:0.75, C:0.00, G:0.00, T:0.25
Consensus pattern (13 bp):
AAAATATAATAAT
Found at i:1058317 original size:17 final size:16
Alignment explanation
Indices: 1058293--1058352 Score: 50
Period size: 17 Copynumber: 3.5 Consensus size: 16
1058283 TAACCACCTC
*
1058293 AAAAAATAAAATAAAAT
1 AAAAAA-AATATAAAAT
*
1058310 ATAAAATAATATATATAAT
1 A-AAAA-AA-ATATAAAAT
1058329 -AAAAAAATATAATAAT
1 AAAAAAAATATAA-AAT
1058345 AAAAAAAA
1 AAAAAAAA
1058353 GAGGAATGGC
Statistics
Matches: 35, Mismatches: 3, Indels: 10
0.73 0.06 0.21
Matches are distributed among these distances:
15 5 0.14
16 5 0.14
17 12 0.34
18 5 0.14
19 8 0.23
ACGTcount: A:0.77, C:0.00, G:0.00, T:0.23
Consensus pattern (16 bp):
AAAAAAAATATAAAAT
Found at i:1058345 original size:16 final size:16
Alignment explanation
Indices: 1058300--1058351 Score: 70
Period size: 16 Copynumber: 3.2 Consensus size: 16
1058290 CTCAAAAAAT
*
1058300 AAAATAAAAT-ATAAA
1 AAAATATAATAATAAA
*
1058315 ATAATATATATAATAAA
1 AAAATATA-ATAATAAA
1058332 AAAATATAATAATAAA
1 AAAATATAATAATAAA
1058348 AAAA
1 AAAA
1058352 AGAGGAATGG
Statistics
Matches: 32, Mismatches: 3, Indels: 3
0.84 0.08 0.08
Matches are distributed among these distances:
15 6 0.19
16 14 0.44
17 12 0.38
ACGTcount: A:0.75, C:0.00, G:0.00, T:0.25
Consensus pattern (16 bp):
AAAATATAATAATAAA
Found at i:1059541 original size:3 final size:3
Alignment explanation
Indices: 1059533--1059559 Score: 54
Period size: 3 Copynumber: 9.0 Consensus size: 3
1059523 CAAATAATGA
1059533 AAT AAT AAT AAT AAT AAT AAT AAT AAT
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT
1059560 TCATGATACA
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 24 1.00
ACGTcount: A:0.67, C:0.00, G:0.00, T:0.33
Consensus pattern (3 bp):
AAT
Found at i:1060901 original size:18 final size:18
Alignment explanation
Indices: 1060866--1060912 Score: 60
Period size: 19 Copynumber: 2.6 Consensus size: 18
1060856 TTTTTTTATG
*
1060866 ATTTTTTAAAAAAGAATTT
1 ATTTTTT-AAAAAGAATTA
1060885 ATTCTTTTAAAAA-AATTA
1 ATT-TTTTAAAAAGAATTA
1060903 ATTTTTTAAA
1 ATTTTTTAAA
1060913 TTTTTTTATA
Statistics
Matches: 26, Mismatches: 1, Indels: 4
0.84 0.03 0.13
Matches are distributed among these distances:
17 7 0.27
18 7 0.27
19 8 0.31
20 4 0.15
ACGTcount: A:0.47, C:0.02, G:0.02, T:0.49
Consensus pattern (18 bp):
ATTTTTTAAAAAGAATTA
Found at i:1069885 original size:2 final size:2
Alignment explanation
Indices: 1069878--1069915 Score: 62
Period size: 2 Copynumber: 20.0 Consensus size: 2
1069868 AAATGCCTTT
1069878 GA GA GA GA GA GA GA GA GA GA GA GA GA G- GA GA GA -A GA GA
1 GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA
1069916 NNNNNNNNNN
Statistics
Matches: 34, Mismatches: 0, Indels: 4
0.89 0.00 0.11
Matches are distributed among these distances:
1 2 0.06
2 32 0.94
ACGTcount: A:0.50, C:0.00, G:0.50, T:0.00
Consensus pattern (2 bp):
GA
Found at i:1071097 original size:21 final size:21
Alignment explanation
Indices: 1071057--1071097 Score: 55
Period size: 21 Copynumber: 2.0 Consensus size: 21
1071047 AATAAATTTT
* *
1071057 TATTAATTAAAATAATAAATA
1 TATTAATTAAAAGAAAAAATA
*
1071078 TATTAATTAAGAGAAAAAAT
1 TATTAATTAAAAGAAAAAAT
1071098 TGAACCAAAT
Statistics
Matches: 17, Mismatches: 3, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
21 17 1.00
ACGTcount: A:0.61, C:0.00, G:0.05, T:0.34
Consensus pattern (21 bp):
TATTAATTAAAAGAAAAAATA
Found at i:1095642 original size:124 final size:124
Alignment explanation
Indices: 1095422--1095699 Score: 369
Period size: 124 Copynumber: 2.2 Consensus size: 124
1095412 GGTGCCCTGT
* *
1095422 TTCTCGCTGCAGCAAAAATCATTCTCGCTGCAACGAGAAACCCTCGGGTTTTGGAGCGGTAAACT
1 TTCTCGCTGCAGCGAAAATCATTCTCGCTGCAACAAGAAACCCTCGGGTTTTGGAGCGGTAAACT
* ** * * * * *
1095487 GGCTGAAAACTCGCTGTAGAGAGAATGCATTTTCGCTGCAGTGAGAATGACACTGTAGC
66 GGCTGAAAACTCACTACAAAGAGAATGCATTTTCGCTACAGCGAGAATGACACTGCAAC
* * * * **
1095546 TTCTCGCTACAGCGAAAATCATTCTCGCTGCAGCAAGAAATCCTTGGGTTTTGGAG-GGATAGGC
1 TTCTCGCTGCAGCGAAAATCATTCTCGCTGCAACAAGAAACCCTCGGGTTTTGGAGCGG-TAAAC
*
1095610 TGGCTGAAAACTCACTACAAAGAGGATGCATTTTCGCTACAGCGAGAATGACACTGCAAC
65 TGGCTGAAAACTCACTACAAAGAGAATGCATTTTCGCTACAGCGAGAATGACACTGCAAC
* *
1095670 TTCTCGCTGCAGTGAAATTCATTCTCGCTG
1 TTCTCGCTGCAGCGAAAATCATTCTCGCTG
1095700 TAGCGACAAA
Statistics
Matches: 133, Mismatches: 20, Indels: 2
0.86 0.13 0.01
Matches are distributed among these distances:
123 2 0.02
124 131 0.98
ACGTcount: A:0.27, C:0.23, G:0.24, T:0.25
Consensus pattern (124 bp):
TTCTCGCTGCAGCGAAAATCATTCTCGCTGCAACAAGAAACCCTCGGGTTTTGGAGCGGTAAACT
GGCTGAAAACTCACTACAAAGAGAATGCATTTTCGCTACAGCGAGAATGACACTGCAAC
Found at i:1095797 original size:39 final size:39
Alignment explanation
Indices: 1095701--1095799 Score: 135
Period size: 39 Copynumber: 2.5 Consensus size: 39
1095691 TTCTCGCTGT
* * * * *
1095701 AGCGACAAACTTTTTATTTCTGGGTTGCAATTTTGCTAC
1 AGCGAAAAACTTTTTGTTTTTGGGTTACAATTTCGCTAC
*
1095740 AGCGAGAAACTTTTTGTTTTTGGGTTACAATTTCGCTAC
1 AGCGAAAAACTTTTTGTTTTTGGGTTACAATTTCGCTAC
*
1095779 AGCGAAAAACTTTCTGTTTTT
1 AGCGAAAAACTTTTTGTTTTT
1095800 ATCTCTTATT
Statistics
Matches: 53, Mismatches: 7, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
39 53 1.00
ACGTcount: A:0.24, C:0.16, G:0.18, T:0.41
Consensus pattern (39 bp):
AGCGAAAAACTTTTTGTTTTTGGGTTACAATTTCGCTAC
Found at i:1103978 original size:22 final size:22
Alignment explanation
Indices: 1103953--1103994 Score: 75
Period size: 22 Copynumber: 1.9 Consensus size: 22
1103943 AGCAGAGAGT
1103953 TTCTCGCTACAGTGAGAAACCG
1 TTCTCGCTACAGTGAGAAACCG
*
1103975 TTCTCGCTACAGTTAGAAAC
1 TTCTCGCTACAGTGAGAAAC
1103995 AGGGCACTAA
Statistics
Matches: 19, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
22 19 1.00
ACGTcount: A:0.29, C:0.26, G:0.19, T:0.26
Consensus pattern (22 bp):
TTCTCGCTACAGTGAGAAACCG
Found at i:1110205 original size:2 final size:2
Alignment explanation
Indices: 1110200--1110238 Score: 71
Period size: 2 Copynumber: 20.0 Consensus size: 2
1110190 CTATTTCTTT
1110200 TA TA TA TA TA TA TA TA TA TA TA TA TA TA T- TA TA TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
1110239 AGAATACTAT
Statistics
Matches: 36, Mismatches: 0, Indels: 2
0.95 0.00 0.05
Matches are distributed among these distances:
1 1 0.03
2 35 0.97
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (2 bp):
TA
Found at i:1110249 original size:17 final size:19
Alignment explanation
Indices: 1110200--1110249 Score: 52
Period size: 18 Copynumber: 2.8 Consensus size: 19
1110190 CTATTTCTTT
*
1110200 TATATATATA-TATATATA
1 TATAGATATACTATATATA
* *
1110218 TATATATATATTATATATA
1 TATAGATATACTATATATA
1110237 TA-AGA-ATACTATA
1 TATAGATATACTATA
1110250 AAAAAACTAT
Statistics
Matches: 29, Mismatches: 2, Indels: 3
0.85 0.06 0.09
Matches are distributed among these distances:
17 7 0.24
18 12 0.41
19 10 0.34
ACGTcount: A:0.50, C:0.02, G:0.02, T:0.46
Consensus pattern (19 bp):
TATAGATATACTATATATA
Found at i:1112073 original size:11 final size:11
Alignment explanation
Indices: 1112053--1112086 Score: 52
Period size: 11 Copynumber: 3.1 Consensus size: 11
1112043 AAACATGTAA
1112053 TTTT-TTTTAT
1 TTTTATTTTAT
1112063 TTTTATTTTAT
1 TTTTATTTTAT
1112074 TTTTATTTATAT
1 TTTTATTT-TAT
1112086 T
1 T
1112087 GACATATTGA
Statistics
Matches: 22, Mismatches: 0, Indels: 2
0.92 0.00 0.08
Matches are distributed among these distances:
10 4 0.18
11 14 0.64
12 4 0.18
ACGTcount: A:0.18, C:0.00, G:0.00, T:0.82
Consensus pattern (11 bp):
TTTTATTTTAT
Found at i:1114923 original size:17 final size:16
Alignment explanation
Indices: 1114901--1114942 Score: 50
Period size: 17 Copynumber: 2.6 Consensus size: 16
1114891 TCTGTCGTTC
*
1114901 AAAATACAAATCTTTTG
1 AAAATACAAAT-TGTTG
*
1114918 AAAATAAAAATTGTTG
1 AAAATACAAATTGTTG
1114934 AAAA-ACAAA
1 AAAATACAAA
1114943 ACATACAAGT
Statistics
Matches: 22, Mismatches: 3, Indels: 2
0.81 0.11 0.07
Matches are distributed among these distances:
15 4 0.18
16 8 0.36
17 10 0.45
ACGTcount: A:0.60, C:0.07, G:0.07, T:0.26
Consensus pattern (16 bp):
AAAATACAAATTGTTG
Found at i:1115051 original size:22 final size:23
Alignment explanation
Indices: 1115023--1115071 Score: 66
Period size: 22 Copynumber: 2.2 Consensus size: 23
1115013 TACTCTGTCA
1115023 AAAATTCA-ATCAAATTCCATC-G
1 AAAATTCATAT-AAATTCCATCAG
*
1115045 AAAATTCATATGAATTCCATCAG
1 AAAATTCATATAAATTCCATCAG
1115068 AAAA
1 AAAA
1115072 GCTTCATTTT
Statistics
Matches: 24, Mismatches: 1, Indels: 3
0.86 0.04 0.11
Matches are distributed among these distances:
22 17 0.71
23 7 0.29
ACGTcount: A:0.49, C:0.18, G:0.06, T:0.27
Consensus pattern (23 bp):
AAAATTCATATAAATTCCATCAG
Found at i:1115202 original size:20 final size:20
Alignment explanation
Indices: 1115165--1115203 Score: 51
Period size: 20 Copynumber: 1.9 Consensus size: 20
1115155 GAAATTGAGA
* *
1115165 TGTAAATAAATTAATTATTT
1 TGTAAAAAAAATAATTATTT
*
1115185 TGTAAAAAAAATATTTATT
1 TGTAAAAAAAATAATTATT
1115204 AAAAATAACG
Statistics
Matches: 16, Mismatches: 3, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
20 16 1.00
ACGTcount: A:0.49, C:0.00, G:0.05, T:0.46
Consensus pattern (20 bp):
TGTAAAAAAAATAATTATTT
Found at i:1115254 original size:24 final size:25
Alignment explanation
Indices: 1115193--1115255 Score: 67
Period size: 24 Copynumber: 2.6 Consensus size: 25
1115183 TTTGTAAAAA
1115193 AAATATTTATTAAAAATAACGATAC
1 AAATATTTATTAAAAATAACGATAC
* * * *
1115218 ATATATCTGTTAAAAA-AATC-ATAT
1 AAATATTTATTAAAAATAA-CGATAC
1115242 AAATATTTATTAAA
1 AAATATTTATTAAA
1115256 TTCAATAATC
Statistics
Matches: 30, Mismatches: 7, Indels: 3
0.75 0.17 0.08
Matches are distributed among these distances:
24 16 0.53
25 14 0.47
ACGTcount: A:0.54, C:0.06, G:0.03, T:0.37
Consensus pattern (25 bp):
AAATATTTATTAAAAATAACGATAC
Found at i:1118562 original size:51 final size:50
Alignment explanation
Indices: 1118476--1118619 Score: 163
Period size: 51 Copynumber: 2.9 Consensus size: 50
1118466 TATATAGCTT
* * *
1118476 TAACGACAGTATTTTTTTTCAGCATGGCGTGTAACAACCTAAACATGGCATG
1 TAAC-ACAGTA-TTTTTTTCAACATAGCGTGTAACAACCTAACCATGGCATG
* *
1118528 TAACAACAGTATTTTTTTCAACATAGCGTGTAACAGCCTAACCATGGCTTG
1 TAAC-ACAGTATTTTTTTCAACATAGCGTGTAACAACCTAACCATGGCATG
* *
1118579 T--CACA-TGTTTTTGT--ACATAGCGTGTAACAACCTAACCATGG
1 TAACACAGTATTTTTTTCAACATAGCGTGTAACAACCTAACCATGG
1118620 TGTATAACAT
Statistics
Matches: 83, Mismatches: 9, Indels: 7
0.84 0.09 0.07
Matches are distributed among these distances:
45 26 0.31
47 7 0.08
48 3 0.04
49 1 0.01
51 36 0.43
52 10 0.12
ACGTcount: A:0.31, C:0.21, G:0.17, T:0.31
Consensus pattern (50 bp):
TAACACAGTATTTTTTTCAACATAGCGTGTAACAACCTAACCATGGCATG
Found at i:1118605 original size:45 final size:45
Alignment explanation
Indices: 1118502--1118652 Score: 151
Period size: 45 Copynumber: 3.2 Consensus size: 45
1118492 TTTCAGCATG
* * * *
1118502 GCGTGTAACAACCTAAACATGGCATGTAACAACAGTATTTTTTTCAACATA
1 GCGTGTAACAACCTAACCATGG--TGT-ATAACA-TGTTTTTGT--ACATA
* * *
1118553 GCGTGTAACAGCCTAACCATGGCT-TGTCACATGTTTTTGTACATA
1 GCGTGTAACAACCTAACCATGG-TGTATAACATGTTTTTGTACATA
*
1118598 GCGTGTAACAACCTAACCATGGTGTATAACATGTTTTTGTACATG
1 GCGTGTAACAACCTAACCATGGTGTATAACATGTTTTTGTACATA
*
1118643 GCATGTAACA
1 GCGTGTAACA
1118653 TCATAGCATG
Statistics
Matches: 86, Mismatches: 13, Indels: 8
0.80 0.12 0.07
Matches are distributed among these distances:
44 1 0.01
45 53 0.62
47 7 0.08
48 3 0.03
49 1 0.01
50 1 0.01
51 20 0.23
ACGTcount: A:0.31, C:0.20, G:0.18, T:0.31
Consensus pattern (45 bp):
GCGTGTAACAACCTAACCATGGTGTATAACATGTTTTTGTACATA
Found at i:1128109 original size:19 final size:20
Alignment explanation
Indices: 1128071--1128109 Score: 53
Period size: 20 Copynumber: 2.0 Consensus size: 20
1128061 TGAGTAGTTA
*
1128071 AGAGAACATGTTTAATCATG
1 AGAGAACATGCTTAATCATG
*
1128091 AGAGAACGTGCTT-ATCATG
1 AGAGAACATGCTTAATCATG
1128110 GAAGAGTAGA
Statistics
Matches: 17, Mismatches: 2, Indels: 1
0.85 0.10 0.05
Matches are distributed among these distances:
19 6 0.35
20 11 0.65
ACGTcount: A:0.36, C:0.13, G:0.23, T:0.28
Consensus pattern (20 bp):
AGAGAACATGCTTAATCATG
Found at i:1128473 original size:27 final size:27
Alignment explanation
Indices: 1128467--1128605 Score: 154
Period size: 27 Copynumber: 5.1 Consensus size: 27
1128457 GAGTTTTCAT
* * *
1128467 GCTTGGAACACCCTTGGGCGCTTCCGC
1 GCTTGGAACACCCTTAGGTGCTTCCAC
* *
1128494 GCTTGGAACACCCTT-GTGTGTTTCCAT
1 GCTTGGAACACCCTTAG-GTGCTTCCAC
*
1128521 GCTTAGAACACCCTTAGGTGCTTCCAC
1 GCTTGGAACACCCTTAGGTGCTTCCAC
**
1128548 GCTTGGAACACCCTTAGGCACTTCCAC
1 GCTTGGAACACCCTTAGGTGCTTCCAC
* * * *
1128575 GCTTGGAATACCCTTGGGTGTTTCCGC
1 GCTTGGAACACCCTTAGGTGCTTCCAC
1128602 GCTT
1 GCTT
1128606 CCACGCTTGG
Statistics
Matches: 94, Mismatches: 16, Indels: 4
0.82 0.14 0.04
Matches are distributed among these distances:
26 1 0.01
27 92 0.98
28 1 0.01
ACGTcount: A:0.16, C:0.32, G:0.24, T:0.29
Consensus pattern (27 bp):
GCTTGGAACACCCTTAGGTGCTTCCAC
Found at i:1128530 original size:54 final size:53
Alignment explanation
Indices: 1128443--1128562 Score: 168
Period size: 54 Copynumber: 2.2 Consensus size: 53
1128433 ATTTTGCACC
* * * *
1128443 TGGAACACCCCTTGGAGTTTTCATGCTTGGAACACCCTTGGGCGCTTCCGCGCT
1 TGGAACA-CCCTTGGAGTTTCCATGCTTAGAACACCCTTAGGCGCTTCCACGCT
* *
1128497 TGGAACACCCTTGTGTGTTTCCATGCTTAGAACACCCTTAGGTGCTTCCACGCT
1 TGGAACACCCTTG-GAGTTTCCATGCTTAGAACACCCTTAGGCGCTTCCACGCT
1128551 TGGAACACCCTT
1 TGGAACACCCTT
1128563 AGGCACTTCC
Statistics
Matches: 59, Mismatches: 6, Indels: 2
0.88 0.09 0.03
Matches are distributed among these distances:
53 6 0.10
54 53 0.90
ACGTcount: A:0.17, C:0.31, G:0.23, T:0.29
Consensus pattern (53 bp):
TGGAACACCCTTGGAGTTTCCATGCTTAGAACACCCTTAGGCGCTTCCACGCT
Found at i:1128573 original size:54 final size:54
Alignment explanation
Indices: 1128464--1128605 Score: 178
Period size: 54 Copynumber: 2.6 Consensus size: 54
1128454 TTGGAGTTTT
* ***
1128464 CATGCTTGGAACACCCTTGGGCGCTTCCGCGCTTGGAACACCCTTGTGTGTTTC
1 CATGCTTGGAACACCCTTGGGTGCTTCCGCGCTTGGAACACCCTTGTGCACTTC
* * *
1128518 CATGCTTAGAACACCCTTAGGTGCTTCCACGCTTGGAACACCCTTAG-GCACTTC
1 CATGCTTGGAACACCCTTGGGTGCTTCCGCGCTTGGAACACCCTT-GTGCACTTC
* * *
1128572 CACGCTTGGAATACCCTTGGGTGTTTCCGCGCTT
1 CATGCTTGGAACACCCTTGGGTGCTTCCGCGCTT
1128606 CCACGCTTGG
Statistics
Matches: 74, Mismatches: 13, Indels: 2
0.83 0.15 0.02
Matches are distributed among these distances:
54 73 0.99
55 1 0.01
ACGTcount: A:0.16, C:0.32, G:0.23, T:0.29
Consensus pattern (54 bp):
CATGCTTGGAACACCCTTGGGTGCTTCCGCGCTTGGAACACCCTTGTGCACTTC
Found at i:1134161 original size:22 final size:23
Alignment explanation
Indices: 1134112--1134176 Score: 80
Period size: 22 Copynumber: 2.8 Consensus size: 23
1134102 TCTGACCGAC
*
1134112 TCCATAAAAAATTCA-ATCGAAT
1 TCCATCAAAAATTCATATCGAAT
1134134 TCCATCAAAAATTCATAT-GAAT
1 TCCATCAAAAATTCATATCGAAT
1134156 TCCATCAGAAAAGCTTCATAT
1 TCCATCA-AAAA--TTCATAT
1134177 TATGTCAATA
Statistics
Matches: 38, Mismatches: 1, Indels: 5
0.86 0.02 0.11
Matches are distributed among these distances:
22 25 0.66
23 6 0.16
25 7 0.18
ACGTcount: A:0.45, C:0.20, G:0.06, T:0.29
Consensus pattern (23 bp):
TCCATCAAAAATTCATATCGAAT
Found at i:1134321 original size:25 final size:25
Alignment explanation
Indices: 1134293--1134399 Score: 83
Period size: 25 Copynumber: 4.2 Consensus size: 25
1134283 TAAAAAACAA
*
1134293 ATATTTATTAAAAATAATGATACAT
1 ATATTTATTAAAAATAATCATACAT
* * *
1134318 ATATCTGTTAAAAA-AATCATACAG
1 ATATTTATTAAAAATAATCATACAT
* *
1134342 ATATTTAGTAAATTCAATAATCATAACGT
1 ATATTTATTAAA---AATAATCAT-ACAT
* *
1134371 ATATGTT-TAAAAAATAATAATACAT
1 ATAT-TTATTAAAAATAATCATACAT
1134396 ATAT
1 ATAT
1134400 ATATATTTTT
Statistics
Matches: 63, Mismatches: 13, Indels: 12
0.72 0.15 0.14
Matches are distributed among these distances:
24 17 0.27
25 19 0.30
26 8 0.13
27 2 0.03
28 6 0.10
29 9 0.14
30 2 0.03
ACGTcount: A:0.50, C:0.07, G:0.06, T:0.36
Consensus pattern (25 bp):
ATATTTATTAAAAATAATCATACAT
Found at i:1134353 original size:24 final size:25
Alignment explanation
Indices: 1134293--1134353 Score: 63
Period size: 24 Copynumber: 2.5 Consensus size: 25
1134283 TAAAAAACAA
* * *
1134293 ATATTTATTAAAAATAATGATACAT
1 ATATTTAGTAAAAATAATCATACAG
*
1134318 ATATCT-GTTAAAAA-AATCATACAG
1 ATATTTAG-TAAAAATAATCATACAG
1134342 ATATTTAGTAAA
1 ATATTTAGTAAA
1134354 TTCAATAATC
Statistics
Matches: 29, Mismatches: 5, Indels: 5
0.74 0.13 0.13
Matches are distributed among these distances:
24 17 0.59
25 12 0.41
ACGTcount: A:0.51, C:0.07, G:0.07, T:0.36
Consensus pattern (25 bp):
ATATTTAGTAAAAATAATCATACAG
Found at i:1150904 original size:15 final size:16
Alignment explanation
Indices: 1150884--1150921 Score: 62
Period size: 15 Copynumber: 2.5 Consensus size: 16
1150874 CCTTAAAACA
1150884 ACTTTAAAA-CCAAAG
1 ACTTTAAAATCCAAAG
1150899 ACTTTAAAATCCAAAG
1 ACTTTAAAATCCAAAG
1150915 -CTTTAAA
1 ACTTTAAA
1150922 TCAAAATATC
Statistics
Matches: 22, Mismatches: 0, Indels: 2
0.92 0.00 0.08
Matches are distributed among these distances:
15 16 0.73
16 6 0.27
ACGTcount: A:0.50, C:0.18, G:0.05, T:0.26
Consensus pattern (16 bp):
ACTTTAAAATCCAAAG
Found at i:1157852 original size:2 final size:2
Alignment explanation
Indices: 1157845--1157882 Score: 76
Period size: 2 Copynumber: 19.0 Consensus size: 2
1157835 ATAACATGAA
1157845 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1157883 TATTTAGGAA
Statistics
Matches: 36, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 36 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:1166008 original size:24 final size:24
Alignment explanation
Indices: 1165955--1166010 Score: 60
Period size: 24 Copynumber: 2.3 Consensus size: 24
1165945 TATTTTTTTT
*
1165955 TAAATTATTTTTATAATTTTATAA
1 TAAATTATTTTTATAATTTAATAA
* *
1165979 TAAAATTA-TTTTATGATTTAATTTA
1 T-AAATTATTTTTATAATTTAA-TAA
1166004 TAAATTA
1 TAAATTA
1166011 AAATTATTAA
Statistics
Matches: 27, Mismatches: 3, Indels: 4
0.79 0.09 0.12
Matches are distributed among these distances:
24 18 0.67
25 9 0.33
ACGTcount: A:0.43, C:0.00, G:0.02, T:0.55
Consensus pattern (24 bp):
TAAATTATTTTTATAATTTAATAA
Found at i:1166033 original size:21 final size:22
Alignment explanation
Indices: 1165996--1166038 Score: 54
Period size: 21 Copynumber: 2.0 Consensus size: 22
1165986 ATTTTATGAT
*
1165996 TTAATTTATAAATTAAA-ATTA
1 TTAATTTATAAAGTAAAGATTA
1166017 TTAATTTGAT-AAGTAAAGATTA
1 TTAATTT-ATAAAGTAAAGATTA
1166039 AACACATTAA
Statistics
Matches: 19, Mismatches: 1, Indels: 3
0.83 0.04 0.13
Matches are distributed among these distances:
21 13 0.68
22 6 0.32
ACGTcount: A:0.49, C:0.00, G:0.07, T:0.44
Consensus pattern (22 bp):
TTAATTTATAAAGTAAAGATTA
Found at i:1166118 original size:22 final size:21
Alignment explanation
Indices: 1166076--1166126 Score: 50
Period size: 22 Copynumber: 2.3 Consensus size: 21
1166066 ATATTATTGG
**
1166076 TAATTAAATTATTAATCTTAT
1 TAATTAAATTATTAAAATTAT
1166097 ATAATTAAA-TATATAAAATTAT
1 -TAATTAAATTAT-TAAAATTAT
1166119 TAAATTAA
1 T-AATTAA
1166127 TTAAAATTAT
Statistics
Matches: 25, Mismatches: 2, Indels: 4
0.81 0.06 0.13
Matches are distributed among these distances:
21 4 0.16
22 21 0.84
ACGTcount: A:0.53, C:0.02, G:0.00, T:0.45
Consensus pattern (21 bp):
TAATTAAATTATTAAAATTAT
Found at i:1169655 original size:10 final size:10
Alignment explanation
Indices: 1169627--1169665 Score: 51
Period size: 10 Copynumber: 3.8 Consensus size: 10
1169617 CCTCACCAAA
1169627 CATCAAATAT
1 CATCAAATAT
*
1169637 CACCAAAATAT
1 CATC-AAATAT
*
1169648 CATGAAATAT
1 CATCAAATAT
1169658 CATCAAAT
1 CATCAAAT
1169666 TCAGCCGCAA
Statistics
Matches: 24, Mismatches: 4, Indels: 2
0.80 0.13 0.07
Matches are distributed among these distances:
10 16 0.67
11 8 0.33
ACGTcount: A:0.51, C:0.21, G:0.03, T:0.26
Consensus pattern (10 bp):
CATCAAATAT
Found at i:1170859 original size:2 final size:2
Alignment explanation
Indices: 1170813--1170844 Score: 64
Period size: 2 Copynumber: 16.0 Consensus size: 2
1170803 AAATTGTTTG
1170813 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
1170845 GGTAAGCTAT
Statistics
Matches: 30, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 30 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
TA
Found at i:1172984 original size:200 final size:199
Alignment explanation
Indices: 1172641--1173039 Score: 789
Period size: 200 Copynumber: 2.0 Consensus size: 199
1172631 CTAATTTGAT
1172641 TCCCAAGCTACCTAATTTGCACCTAATATTAAGAATATATATGTGGAATTCCATATAATGAAGTT
1 TCCCAAGCTACCTAATTTGCACCTAATATTAAGAATATATATGTGGAATTCCATATAATGAAGTT
1172706 GTTAAAATACTCAACTTACAGGGATAAATAAAACGAGTCTTCTTTCTCAGTTCTTCAGTTCTTCG
66 GTTAAAATACTCAACTTACAGGGATAAATAAAACGAGTCTTCTTTCTCAGTTCTTCAGTTCTTCG
1172771 TCTACTCCCACTCCAGTTTTCAGTTCCCACACTCCATTTAAAGCCACTCAAAAGTTGCACGTATC
131 TCTACTCCCACTCCAGTTTTCAGTTCCCACACTCCATTTAAAGCCACTCAAAAGTTGCACGTATC
1172836 AAAA
196 AAAA
1172840 NTCCCAAGCTACCTAATTTGCACCTAATATTAAGAATATATATGTGGAATTCCATATAATGAAGT
1 -TCCCAAGCTACCTAATTTGCACCTAATATTAAGAATATATATGTGGAATTCCATATAATGAAGT
1172905 TGTTAAAATACTCAACTTACAGGGATAAATAAAACGAGTCTTCTTTCTCAGTTCTTCAGTTCTTC
65 TGTTAAAATACTCAACTTACAGGGATAAATAAAACGAGTCTTCTTTCTCAGTTCTTCAGTTCTTC
1172970 GTCTACTCCCACTCCAGTTTTCAGTTCCCACACTCCATTTAAAGCCACTCAAAAGTTGCACGTAT
130 GTCTACTCCCACTCCAGTTTTCAGTTCCCACACTCCATTTAAAGCCACTCAAAAGTTGCACGTAT
1173035 CAAAA
195 CAAAA
1173040 CTCGGAGTGC
Statistics
Matches: 199, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
200 199 1.00
ACGTcount: A:0.33, C:0.24, G:0.12, T:0.32
Consensus pattern (199 bp):
TCCCAAGCTACCTAATTTGCACCTAATATTAAGAATATATATGTGGAATTCCATATAATGAAGTT
GTTAAAATACTCAACTTACAGGGATAAATAAAACGAGTCTTCTTTCTCAGTTCTTCAGTTCTTCG
TCTACTCCCACTCCAGTTTTCAGTTCCCACACTCCATTTAAAGCCACTCAAAAGTTGCACGTATC
AAAA
Found at i:1173077 original size:10 final size:9
Alignment explanation
Indices: 1173062--1173086 Score: 50
Period size: 9 Copynumber: 2.8 Consensus size: 9
1173052 GCAGCTATAT
1173062 AAAAAAATA
1 AAAAAAATA
1173071 AAAAAAATA
1 AAAAAAATA
1173080 AAAAAAA
1 AAAAAAA
1173087 GAAGCATAAA
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
9 16 1.00
ACGTcount: A:0.92, C:0.00, G:0.00, T:0.08
Consensus pattern (9 bp):
AAAAAAATA
Found at i:1176275 original size:98 final size:99
Alignment explanation
Indices: 1176106--1176296 Score: 303
Period size: 98 Copynumber: 1.9 Consensus size: 99
1176096 TGTGTGAAAA
* * *
1176106 AATCTTAAGTGGGCCATCAATATTGATTATAAGTTTATGACCTAATTAAGTGGGACATCTAATTT
1 AATCTTAAGTGGGCCATCAATACTGACTATAAGTTTATGACCTAATTAAGTGGGACATCAAATTT
*
1176171 CAATATTTACTCGTTTCG-TTTTTATATGTAAAG
66 CAATATTTACTCATTTCGTTTTTTATATGTAAAG
* ** *
1176204 AATCTTAAGTGGGCCATCAATGCTGACTATGGGTTTATGACTTAATTAAGTGGGACATCAAATTT
1 AATCTTAAGTGGGCCATCAATACTGACTATAAGTTTATGACCTAATTAAGTGGGACATCAAATTT
1176269 CAATATTTACTCATTTCGTTTTTTATAT
66 CAATATTTACTCATTTCGTTTTTTATAT
1176297 TTTTCACTCC
Statistics
Matches: 84, Mismatches: 8, Indels: 1
0.90 0.09 0.01
Matches are distributed among these distances:
98 75 0.89
99 9 0.11
ACGTcount: A:0.30, C:0.13, G:0.16, T:0.41
Consensus pattern (99 bp):
AATCTTAAGTGGGCCATCAATACTGACTATAAGTTTATGACCTAATTAAGTGGGACATCAAATTT
CAATATTTACTCATTTCGTTTTTTATATGTAAAG
Found at i:1183035 original size:2 final size:2
Alignment explanation
Indices: 1183028--1183053 Score: 52
Period size: 2 Copynumber: 13.0 Consensus size: 2
1183018 ATTCAAGTAC
1183028 AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT
1183054 TACAGAAGAA
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 24 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:1187006 original size:20 final size:21
Alignment explanation
Indices: 1186983--1187032 Score: 66
Period size: 22 Copynumber: 2.4 Consensus size: 21
1186973 TTAATAATTT
*
1186983 ATAATTTAT-TTTAAATATTA
1 ATAATTTATATTCAAATATTA
1187003 ATAATTTATAATTCAAATATTA
1 ATAATTTAT-ATTCAAATATTA
*
1187025 ATATTTTA
1 ATAATTTA
1187033 CAATATGAAT
Statistics
Matches: 26, Mismatches: 2, Indels: 2
0.87 0.07 0.07
Matches are distributed among these distances:
20 9 0.35
22 17 0.65
ACGTcount: A:0.46, C:0.02, G:0.00, T:0.52
Consensus pattern (21 bp):
ATAATTTATATTCAAATATTA
Found at i:1187043 original size:22 final size:21
Alignment explanation
Indices: 1186993--1187138 Score: 87
Period size: 22 Copynumber: 7.2 Consensus size: 21
1186983 ATAATTTATT
*
1186993 TTAAATATTAATAATTTATAA
1 TTAAATATTAATATTTTATAA
*
1187014 TTCAAATATTAATATTTTACAA
1 TT-AAATATTAATATTTTATAA
* *
1187036 TATGAATATT--TTTTTTATAA
1 T-TAAATATTAATATTTTATAA
* * *
1187056 TTTAATATTAACATTTTAAAA
1 TTAAATATTAATATTTTATAA
* *
1187077 TATCAATATT-TTA-TTTATAAA
1 T-TAAATATTAATATTTTAT-AA
1187098 TTAAATATT-ATA----ATAA
1 TTAAATATTAATATTTTATAA
*
1187114 TTAAAATATTAATAATTT-TAA
1 TT-AAATATTAATATTTTATAA
1187135 TTAA
1 TTAA
1187139 TTTTAAATTT
Statistics
Matches: 98, Mismatches: 15, Indels: 25
0.71 0.11 0.18
Matches are distributed among these distances:
16 4 0.04
17 9 0.09
18 3 0.03
19 7 0.07
20 24 0.24
21 19 0.19
22 31 0.32
23 1 0.01
ACGTcount: A:0.47, C:0.03, G:0.01, T:0.49
Consensus pattern (21 bp):
TTAAATATTAATATTTTATAA
Found at i:1187072 original size:41 final size:41
Alignment explanation
Indices: 1187006--1187133 Score: 141
Period size: 41 Copynumber: 3.0 Consensus size: 41
1186996 AATATTAATA
* * *
1187006 ATTTATAATTCAAATATTAATATTTTACAATATGAATATTTT
1 ATTTATAATT-AAATATTAACATTTTAAAATATCAATATTTT
* *
1187048 TTTTATAATTTAATATTAACATTTTAAAATATCAATATTTT
1 ATTTATAATTAAATATTAACATTTTAAAATATCAATATTTT
* *
1187089 ATTTATAAATTAAATATTATA-ATAATTAAAATATTAATAATTTT
1 ATTTAT-AATTAAATATTA-ACAT-TTTAAAATATCAAT-ATTTT
1187133 A
1 A
1187134 ATTAATTTTA
Statistics
Matches: 73, Mismatches: 9, Indels: 6
0.83 0.10 0.07
Matches are distributed among these distances:
41 32 0.44
42 22 0.30
43 13 0.18
44 6 0.08
ACGTcount: A:0.46, C:0.03, G:0.01, T:0.50
Consensus pattern (41 bp):
ATTTATAATTAAATATTAACATTTTAAAATATCAATATTTT
Found at i:1187134 original size:17 final size:17
Alignment explanation
Indices: 1187096--1187129 Score: 52
Period size: 17 Copynumber: 2.0 Consensus size: 17
1187086 TTTATTTATA
1187096 AATT-AAATATTATAAT
1 AATTAAAATATTATAAT
1187112 AATTAAAATATTAATAAT
1 AATTAAAATATT-ATAAT
1187130 TTTAATTAAT
Statistics
Matches: 16, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
16 4 0.25
17 7 0.44
18 5 0.31
ACGTcount: A:0.59, C:0.00, G:0.00, T:0.41
Consensus pattern (17 bp):
AATTAAAATATTATAAT
Found at i:1187359 original size:29 final size:29
Alignment explanation
Indices: 1187278--1187360 Score: 82
Period size: 29 Copynumber: 2.8 Consensus size: 29
1187268 AAAATTAAGT
*
1187278 AAATTTATAATTTTTTAATTTT-TTAATTTA
1 AAATTTA-AATTTTTT-ATTTTAATAATTTA
*
1187308 AAATATT-AATTTTTTATAGTTAATAA-TTA
1 AAAT-TTAAATTTTTTAT-TTTAATAATTTA
1187337 AAATTTAAACTTTTTTATTTTAAT
1 AAATTTAAA-TTTTTTATTTTAAT
1187361 TTTTTTTTCC
Statistics
Matches: 45, Mismatches: 3, Indels: 11
0.76 0.05 0.19
Matches are distributed among these distances:
28 4 0.09
29 24 0.53
30 15 0.33
31 2 0.04
ACGTcount: A:0.40, C:0.01, G:0.01, T:0.58
Consensus pattern (29 bp):
AAATTTAAATTTTTTATTTTAATAATTTA
Found at i:1188495 original size:21 final size:21
Alignment explanation
Indices: 1188469--1188758 Score: 400
Period size: 21 Copynumber: 13.8 Consensus size: 21
1188459 AGAGACCTGG
* *
1188469 TATCTGTGCTGCATCTTCTGT
1 TATCTGTGGTGCATCTTCGGT
1188490 TATCTGTGGTGCATCTTCGGT
1 TATCTGTGGTGCATCTTCGGT
*
1188511 TATCTGTGGCGCATCTTCGGT
1 TATCTGTGGTGCATCTTCGGT
*
1188532 TATCTGTGGTGCATCTTCAGT
1 TATCTGTGGTGCATCTTCGGT
* *
1188553 TATCTGTGGCGCATCTTCAGT
1 TATCTGTGGTGCATCTTCGGT
*
1188574 TATCTGTGGCGCATCTTCGGT
1 TATCTGTGGTGCATCTTCGGT
*
1188595 TATCTGTGGCGCATCTTCGGT
1 TATCTGTGGTGCATCTTCGGT
**
1188616 TATCTGTGGTGCATCTTCGAC
1 TATCTGTGGTGCATCTTCGGT
* *
1188637 AATCTGTGGTGCATCTTCAGT
1 TATCTGTGGTGCATCTTCGGT
**
1188658 TATCTGTGGTGCATCTTCGAC
1 TATCTGTGGTGCATCTTCGGT
* * *
1188679 AATCTGTGGTGCGTCTTCGAT
1 TATCTGTGGTGCATCTTCGGT
*
1188700 AATCTGTGGTGCATCTTCGGT
1 TATCTGTGGTGCATCTTCGGT
*
1188721 TATCTGCGGTGCATCTTCGGT
1 TATCTGTGGTGCATCTTCGGT
*
1188742 TATCTGCGGTGCATCTT
1 TATCTGTGGTGCATCTT
1188759 GGGGCATAGG
Statistics
Matches: 244, Mismatches: 25, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
21 244 1.00
ACGTcount: A:0.12, C:0.22, G:0.26, T:0.40
Consensus pattern (21 bp):
TATCTGTGGTGCATCTTCGGT
Found at i:1188741 original size:11 final size:11
Alignment explanation
Indices: 1188707--1188758 Score: 54
Period size: 10 Copynumber: 4.9 Consensus size: 11
1188697 GATAATCTGT
1188707 GGTGCATCTTC
1 GGTGCATCTTC
* *
1188718 GGT-TATCTGC
1 GGTGCATCTTC
1188728 GGTGCATCTTC
1 GGTGCATCTTC
* *
1188739 GGT-TATCTGC
1 GGTGCATCTTC
1188749 GGTGCATCTT
1 GGTGCATCTT
1188759 GGGGCATAGG
Statistics
Matches: 31, Mismatches: 8, Indels: 4
0.72 0.19 0.09
Matches are distributed among these distances:
10 16 0.52
11 15 0.48
ACGTcount: A:0.10, C:0.23, G:0.29, T:0.38
Consensus pattern (11 bp):
GGTGCATCTTC
Found at i:1190025 original size:26 final size:26
Alignment explanation
Indices: 1189989--1190042 Score: 99
Period size: 26 Copynumber: 2.1 Consensus size: 26
1189979 GATTATCGCT
*
1189989 ACTCCAACTTCAAGTGAAAGTAGACA
1 ACTCCAACTTCAAGTGAAAATAGACA
1190015 ACTCCAACTTCAAGTGAAAATAGACA
1 ACTCCAACTTCAAGTGAAAATAGACA
1190041 AC
1 AC
1190043 AGACAAATCC
Statistics
Matches: 27, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
26 27 1.00
ACGTcount: A:0.44, C:0.24, G:0.13, T:0.19
Consensus pattern (26 bp):
ACTCCAACTTCAAGTGAAAATAGACA
Found at i:1191732 original size:13 final size:13
Alignment explanation
Indices: 1191714--1191739 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
1191704 ATCGCCAGAG
1191714 CAACATTATTTGA
1 CAACATTATTTGA
1191727 CAACATTATTTGA
1 CAACATTATTTGA
1191740 TATGATATAG
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.38, C:0.15, G:0.08, T:0.38
Consensus pattern (13 bp):
CAACATTATTTGA
Found at i:1192337 original size:35 final size:35
Alignment explanation
Indices: 1192266--1192337 Score: 85
Period size: 35 Copynumber: 2.1 Consensus size: 35
1192256 CATTTATTGT
* * *
1192266 ATTCATGTATTACTATTGCATACATGAATCAATAG
1 ATTCATGTATCACTATCGCATACATAAATCAATAG
1192301 ATTCATGTATCACTA-CGACATACATAAAT-AAGTAG
1 ATTCATGTATCACTATCG-CATACATAAATCAA-TAG
1192336 AT
1 AT
1192338 ATAATTATAG
Statistics
Matches: 32, Mismatches: 3, Indels: 4
0.82 0.08 0.10
Matches are distributed among these distances:
34 3 0.09
35 29 0.91
ACGTcount: A:0.40, C:0.15, G:0.11, T:0.33
Consensus pattern (35 bp):
ATTCATGTATCACTATCGCATACATAAATCAATAG
Found at i:1194057 original size:35 final size:35
Alignment explanation
Indices: 1194007--1194113 Score: 151
Period size: 35 Copynumber: 3.1 Consensus size: 35
1193997 ACATTATTGT
*
1194007 ATTCATGTATTACTATTGCATATATGAATCAATAG
1 ATTCATGTATCACTATTGCATATATGAATCAATAG
* *
1194042 ATTCATGTATCACTATTGCATACATGAATCAGTAG
1 ATTCATGTATCACTATTGCATATATGAATCAATAG
* * * *
1194077 ATCCATGTATCACTACTGCATATATTAATAAATAG
1 ATTCATGTATCACTATTGCATATATGAATCAATAG
1194112 AT
1 AT
1194114 CTAATTATAG
Statistics
Matches: 63, Mismatches: 9, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
35 63 1.00
ACGTcount: A:0.37, C:0.15, G:0.11, T:0.36
Consensus pattern (35 bp):
ATTCATGTATCACTATTGCATATATGAATCAATAG
Found at i:1202013 original size:15 final size:13
Alignment explanation
Indices: 1201981--1202006 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
1201971 AACCCACTTA
1201981 AGTTAAACTAAAT
1 AGTTAAACTAAAT
1201994 AGTTAAACTAAAT
1 AGTTAAACTAAAT
1202007 CTAGTTACAA
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.54, C:0.08, G:0.08, T:0.31
Consensus pattern (13 bp):
AGTTAAACTAAAT
Found at i:1236211 original size:26 final size:26
Alignment explanation
Indices: 1236162--1236210 Score: 73
Period size: 26 Copynumber: 1.9 Consensus size: 26
1236152 CTCTCTCCCT
* *
1236162 TTTTTTTCATTTCTTCTTTATTTTAA
1 TTTTTATCATTTCTTATTTATTTTAA
1236188 TTTTTATCATTT-TTATTTATTTT
1 TTTTTATCATTTCTTATTTATTTT
1236211 TCGTTTATGA
Statistics
Matches: 21, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
25 10 0.48
26 11 0.52
ACGTcount: A:0.16, C:0.08, G:0.00, T:0.76
Consensus pattern (26 bp):
TTTTTATCATTTCTTATTTATTTTAA
Found at i:1241118 original size:22 final size:22
Alignment explanation
Indices: 1241093--1241150 Score: 73
Period size: 22 Copynumber: 2.6 Consensus size: 22
1241083 ATTTTCGACT
*
1241093 AATTCTGTCAAAAATTCA-ATTG
1 AATTCTATCAAAAATTCATA-TG
*
1241115 AATTCCATCAAAAATTCATATG
1 AATTCTATCAAAAATTCATATG
*
1241137 AATTTTATCAAAAA
1 AATTCTATCAAAAA
1241151 AGCTTCATAT
Statistics
Matches: 31, Mismatches: 4, Indels: 2
0.84 0.11 0.05
Matches are distributed among these distances:
22 30 0.97
23 1 0.03
ACGTcount: A:0.47, C:0.14, G:0.05, T:0.34
Consensus pattern (22 bp):
AATTCTATCAAAAATTCATATG
Found at i:1242633 original size:60 final size:58
Alignment explanation
Indices: 1242565--1242686 Score: 192
Period size: 60 Copynumber: 2.1 Consensus size: 58
1242555 AGTTGAGATA
*
1242565 AAAATCTTAACAAGAACATTACATTACATGCCTATTTC-TTCTATAATCTAAAATCTTATC
1 AAAATCTTAACAAGAACATTACATTACATGCCTATTTCATT-T-TAAT-AAAAATCTTATC
*
1242625 AAAATCTTAACAAGAACATTACATTACATGCCTATTTCATTTTGATAAAAATCTTATC
1 AAAATCTTAACAAGAACATTACATTACATGCCTATTTCATTTTAATAAAAATCTTATC
1242683 AAAA
1 AAAA
1242687 GATTTTTAAG
Statistics
Matches: 59, Mismatches: 2, Indels: 4
0.91 0.03 0.06
Matches are distributed among these distances:
58 15 0.25
59 3 0.05
60 39 0.66
61 2 0.03
ACGTcount: A:0.43, C:0.18, G:0.04, T:0.35
Consensus pattern (58 bp):
AAAATCTTAACAAGAACATTACATTACATGCCTATTTCATTTTAATAAAAATCTTATC
Found at i:1244756 original size:2 final size:2
Alignment explanation
Indices: 1244751--1244788 Score: 69
Period size: 2 Copynumber: 19.5 Consensus size: 2
1244741 TATATATATA
1244751 TG TG TG TG TG -G TG TG TG TG TG TG TG TG TG TG TG TG TG T
1 TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG T
1244789 ACTTTAACAA
Statistics
Matches: 35, Mismatches: 0, Indels: 2
0.95 0.00 0.05
Matches are distributed among these distances:
1 1 0.03
2 34 0.97
ACGTcount: A:0.00, C:0.00, G:0.50, T:0.50
Consensus pattern (2 bp):
TG
Found at i:1244924 original size:2 final size:2
Alignment explanation
Indices: 1244917--1244955 Score: 78
Period size: 2 Copynumber: 19.5 Consensus size: 2
1244907 TATAGTTATA
1244917 TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG T
1 TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG T
1244956 ACTTTAACAA
Statistics
Matches: 37, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 37 1.00
ACGTcount: A:0.00, C:0.00, G:0.49, T:0.51
Consensus pattern (2 bp):
TG
Found at i:1245029 original size:167 final size:165
Alignment explanation
Indices: 1244747--1245070 Score: 630
Period size: 167 Copynumber: 2.0 Consensus size: 165
1244737 TTTATATATA
1244747 TATATGTGTGTGTGGTGTGTGTGTGTGTGTGTGTGTGTGTGTACTTTAACAAAACCTATAATTTG
1 TATATGTGTGTGTGGTGTGTGTGTGTGTGTGTGTGTGTGTGTACTTTAACAAAACCTATAATTTG
1244812 AGACATTTTCATATTATATGTTTATTAAAAATATCACTTGTAATATATGATTGAATTATCATTTC
66 AGACATTTTCATATTATATGTTTATTAAAAATATCACTTGTAATATATGATTGAATTATCATTTC
1244877 TAAATACTATTAGGTGATTTAATTTNTTTTTATAGT
131 TAAATACTATTAGGTGATTTAATTT-TTTTTATAGT
1244913 TATATGTGTGTGTGTGTGTGTGTGTGTGTGTGTGTGTGTGTGTACTTTAACAAAACCTATAATTT
1 TATATGTGTGTGTG-GTGTGTGTGTGTGTGTGTGTGTGTGTGTACTTTAACAAAACCTATAATTT
1244978 GAGACATTTTCATATTATATGTTTATTAAAAATATCACTTGTAATATATGATTGAATTATCATTT
65 GAGACATTTTCATATTATATGTTTATTAAAAATATCACTTGTAATATATGATTGAATTATCATTT
1245043 CTAAATACTATTAGGTGATTTAATTTTT
130 CTAAATACTATTAGGTGATTTAATTTTT
1245071 GAAAGTTAAA
Statistics
Matches: 157, Mismatches: 0, Indels: 2
0.99 0.00 0.01
Matches are distributed among these distances:
166 16 0.10
167 141 0.90
ACGTcount: A:0.28, C:0.07, G:0.18, T:0.47
Consensus pattern (165 bp):
TATATGTGTGTGTGGTGTGTGTGTGTGTGTGTGTGTGTGTGTACTTTAACAAAACCTATAATTTG
AGACATTTTCATATTATATGTTTATTAAAAATATCACTTGTAATATATGATTGAATTATCATTTC
TAAATACTATTAGGTGATTTAATTTTTTTTATAGT
Found at i:1246682 original size:11 final size:10
Alignment explanation
Indices: 1246661--1246694 Score: 50
Period size: 10 Copynumber: 3.3 Consensus size: 10
1246651 TTGAAACTAG
1246661 TATTTTTTTT
1 TATTTTTTTT
1246671 TATTTTTGTTT
1 TATTTTT-TTT
*
1246682 TATTTTTATT
1 TATTTTTTTT
1246692 TAT
1 TAT
1246695 ATTGACATAT
Statistics
Matches: 22, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
10 12 0.55
11 10 0.45
ACGTcount: A:0.15, C:0.00, G:0.03, T:0.82
Consensus pattern (10 bp):
TATTTTTTTT
Found at i:1249361 original size:16 final size:15
Alignment explanation
Indices: 1249342--1249385 Score: 54
Period size: 16 Copynumber: 2.9 Consensus size: 15
1249332 GAAAAAATTG
1249342 AAAATATTAAAATAGA
1 AAAATATTAAAA-AGA
*
1249358 AAAACTTTTAAAAAGA
1 AAAA-TATTAAAAAGA
1249374 AAAA-ATTAAAAA
1 AAAATATTAAAAA
1249386 AATATTTTAA
Statistics
Matches: 25, Mismatches: 2, Indels: 4
0.81 0.06 0.13
Matches are distributed among these distances:
14 7 0.28
16 11 0.44
17 7 0.28
ACGTcount: A:0.70, C:0.02, G:0.05, T:0.23
Consensus pattern (15 bp):
AAAATATTAAAAAGA
Found at i:1249541 original size:24 final size:26
Alignment explanation
Indices: 1249489--1249541 Score: 65
Period size: 27 Copynumber: 2.1 Consensus size: 26
1249479 TTAATTATCC
*
1249489 ATTATTAATATTTTAATTAAACTATAA
1 ATTATTAATATTTTAA-TAAAATATAA
*
1249516 ATTATTAATTTTTTAA-AAAATA-AA
1 ATTATTAATATTTTAATAAAATATAA
1249540 AT
1 AT
1249542 AAGTGATAAT
Statistics
Matches: 24, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
24 4 0.17
25 5 0.21
27 15 0.62
ACGTcount: A:0.51, C:0.02, G:0.00, T:0.47
Consensus pattern (26 bp):
ATTATTAATATTTTAATAAAATATAA
Found at i:1252532 original size:61 final size:61
Alignment explanation
Indices: 1252421--1252541 Score: 152
Period size: 61 Copynumber: 2.0 Consensus size: 61
1252411 AAATATCTTG
* * * *
1252421 AGTATTTTAGAGTAGTTTTTGATACATAAAGAAAAAATTTTGAGCGTTTTGAGCATTTTTA
1 AGTATTTTAGAGTAGCTTTTGATACATAAAGAAAAAACTTTAAGCATTTTGAGCATTTTTA
* * * * * *
1252482 AGTATTTTGGAGTGGCTTTTGATACATGAAGAAAAACCTTTAAGTATTTTGAGTATTTTT
1 AGTATTTTAGAGTAGCTTTTGATACATAAAGAAAAAACTTTAAGCATTTTGAGCATTTTT
1252542 TTATTGATTA
Statistics
Matches: 50, Mismatches: 10, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
61 50 1.00
ACGTcount: A:0.32, C:0.06, G:0.19, T:0.43
Consensus pattern (61 bp):
AGTATTTTAGAGTAGCTTTTGATACATAAAGAAAAAACTTTAAGCATTTTGAGCATTTTTA
Found at i:1252694 original size:22 final size:22
Alignment explanation
Indices: 1252669--1252724 Score: 76
Period size: 22 Copynumber: 2.5 Consensus size: 22
1252659 GTGTGATTAG
*
1252669 TTTTTAAGTATTACGTTACTAA
1 TTTTTAAGTATTACGTGACTAA
* *
1252691 TTTTTAAGTATTACGTGATTGA
1 TTTTTAAGTATTACGTGACTAA
*
1252713 TTTTTAAATATT
1 TTTTTAAGTATT
1252725 GAGTAACTGG
Statistics
Matches: 30, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
22 30 1.00
ACGTcount: A:0.30, C:0.05, G:0.11, T:0.54
Consensus pattern (22 bp):
TTTTTAAGTATTACGTGACTAA
Found at i:1252768 original size:23 final size:23
Alignment explanation
Indices: 1252742--1252800 Score: 66
Period size: 23 Copynumber: 2.6 Consensus size: 23
1252732 TGGTTGATAT
1252742 GACATTGTATGACTAGTTCGTAA
1 GACATTGTATGACTAGTTCGTAA
* * **
1252765 GACATTGCATGATTAGTTTTTAA
1 GACATTGTATGACTAGTTCGTAA
*
1252788 G-CATTGTGTGACT
1 GACATTGTATGACT
1252801 TAAGCATTAC
Statistics
Matches: 29, Mismatches: 7, Indels: 1
0.78 0.19 0.03
Matches are distributed among these distances:
22 9 0.31
23 20 0.69
ACGTcount: A:0.27, C:0.12, G:0.22, T:0.39
Consensus pattern (23 bp):
GACATTGTATGACTAGTTCGTAA
Found at i:1258728 original size:23 final size:23
Alignment explanation
Indices: 1258701--1258745 Score: 56
Period size: 22 Copynumber: 2.0 Consensus size: 23
1258691 ACCTTTCTCA
* *
1258701 TTTTTATTCTCT-CTCTGACTTT
1 TTTTTTTTCTCTGCTATGACTTT
*
1258723 TTTTTTTTGTCTGCTATGACTTT
1 TTTTTTTTCTCTGCTATGACTTT
1258746 ATTCTGTATT
Statistics
Matches: 19, Mismatches: 3, Indels: 1
0.83 0.13 0.04
Matches are distributed among these distances:
22 10 0.53
23 9 0.47
ACGTcount: A:0.09, C:0.18, G:0.09, T:0.64
Consensus pattern (23 bp):
TTTTTTTTCTCTGCTATGACTTT
Found at i:1269413 original size:2 final size:2
Alignment explanation
Indices: 1269406--1269433 Score: 56
Period size: 2 Copynumber: 14.0 Consensus size: 2
1269396 GGGAGCTGAC
1269406 AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1269434 GCACATACAC
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 26 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:1269445 original size:2 final size:2
Alignment explanation
Indices: 1269435--1269481 Score: 78
Period size: 2 Copynumber: 24.0 Consensus size: 2
1269425 TATATATATG
*
1269435 CA CA TA CA CA CA CA CA -A CA CA CA CA CA CA CA CA CA CA CA CA
1 CA CA CA CA CA CA CA CA CA CA CA CA CA CA CA CA CA CA CA CA CA
1269476 CA CA CA
1 CA CA CA
1269482 TATATATATA
Statistics
Matches: 42, Mismatches: 2, Indels: 2
0.91 0.04 0.04
Matches are distributed among these distances:
1 1 0.02
2 41 0.98
ACGTcount: A:0.51, C:0.47, G:0.00, T:0.02
Consensus pattern (2 bp):
CA
Found at i:1277600 original size:19 final size:19
Alignment explanation
Indices: 1277578--1277616 Score: 78
Period size: 19 Copynumber: 2.1 Consensus size: 19
1277568 TTACATAAAA
1277578 ACTCCTTCATTATCATTCT
1 ACTCCTTCATTATCATTCT
1277597 ACTCCTTCATTATCATTCT
1 ACTCCTTCATTATCATTCT
1277616 A
1 A
1277617 GCCTTCACAA
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
19 20 1.00
ACGTcount: A:0.23, C:0.31, G:0.00, T:0.46
Consensus pattern (19 bp):
ACTCCTTCATTATCATTCT
Found at i:1280233 original size:35 final size:35
Alignment explanation
Indices: 1280185--1280253 Score: 111
Period size: 35 Copynumber: 2.0 Consensus size: 35
1280175 TAGGCTTGTG
1280185 ATTTATAAACTTACTTAAACTCTATTTTTAAAATA
1 ATTTATAAACTTACTTAAACTCTATTTTTAAAATA
** *
1280220 ATTTATACGCTTACTTAAGCTCTATTTTTAAAAT
1 ATTTATAAACTTACTTAAACTCTATTTTTAAAAT
1280254 TTAAAGTTAA
Statistics
Matches: 31, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
35 31 1.00
ACGTcount: A:0.38, C:0.13, G:0.03, T:0.46
Consensus pattern (35 bp):
ATTTATAAACTTACTTAAACTCTATTTTTAAAATA
Found at i:1280643 original size:22 final size:22
Alignment explanation
Indices: 1280597--1280649 Score: 67
Period size: 20 Copynumber: 2.5 Consensus size: 22
1280587 TTTGTTTAAT
*
1280597 TAATTGT-ATGAAATTTTTTTG
1 TAATTGTAATTAAATTTTTTTG
*
1280618 --ATTGTAATTAATTTTTTTTG
1 TAATTGTAATTAAATTTTTTTG
1280638 TAATTGTAATTA
1 TAATTGTAATTA
1280650 CATAAAAAAA
Statistics
Matches: 27, Mismatches: 2, Indels: 5
0.79 0.06 0.15
Matches are distributed among these distances:
19 5 0.19
20 12 0.44
22 10 0.37
ACGTcount: A:0.30, C:0.00, G:0.11, T:0.58
Consensus pattern (22 bp):
TAATTGTAATTAAATTTTTTTG
Found at i:1281315 original size:18 final size:18
Alignment explanation
Indices: 1281274--1281315 Score: 50
Period size: 17 Copynumber: 2.4 Consensus size: 18
1281264 TTATATTTTT
* * *
1281274 AATTTTTAAAATTATTAT
1 AATTTTAAAAATTATAAG
1281292 AA-TTTAAAAATTATAAG
1 AATTTTAAAAATTATAAG
1281309 AATTTTA
1 AATTTTA
1281316 CCAAACATAT
Statistics
Matches: 20, Mismatches: 3, Indels: 2
0.80 0.12 0.08
Matches are distributed among these distances:
17 14 0.70
18 6 0.30
ACGTcount: A:0.50, C:0.00, G:0.02, T:0.48
Consensus pattern (18 bp):
AATTTTAAAAATTATAAG
Found at i:1286849 original size:23 final size:23
Alignment explanation
Indices: 1286802--1286855 Score: 69
Period size: 23 Copynumber: 2.4 Consensus size: 23
1286792 AAATAAATTT
1286802 AAAATT-AATTTATATATTAATA
1 AAAATTAAATTTATATATTAATA
1286824 AAAATTAAATTTA-ACTCATTAA-A
1 AAAATTAAATTTATA-T-ATTAATA
1286847 AAAATTAAA
1 AAAATTAAA
1286856 ATGTAAAACC
Statistics
Matches: 29, Mismatches: 0, Indels: 5
0.85 0.00 0.15
Matches are distributed among these distances:
22 7 0.24
23 17 0.59
24 5 0.17
ACGTcount: A:0.59, C:0.04, G:0.00, T:0.37
Consensus pattern (23 bp):
AAAATTAAATTTATATATTAATA
Found at i:1288406 original size:2 final size:2
Alignment explanation
Indices: 1288399--1288433 Score: 70
Period size: 2 Copynumber: 17.5 Consensus size: 2
1288389 AACAATGAGT
1288399 TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC T
1 TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC T
1288434 ACACACACAC
Statistics
Matches: 33, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 33 1.00
ACGTcount: A:0.00, C:0.49, G:0.00, T:0.51
Consensus pattern (2 bp):
TC
Found at i:1300495 original size:2 final size:2
Alignment explanation
Indices: 1300488--1300519 Score: 55
Period size: 2 Copynumber: 16.0 Consensus size: 2
1300478 CTGTATGAAA
*
1300488 TC TC TC TC TC TC TC TC TC TC TC TC TC TG TC TC
1 TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC
1300520 ACACACACAC
Statistics
Matches: 28, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
2 28 1.00
ACGTcount: A:0.00, C:0.47, G:0.03, T:0.50
Consensus pattern (2 bp):
TC
Found at i:1322285 original size:72 final size:72
Alignment explanation
Indices: 1322163--1322300 Score: 240
Period size: 72 Copynumber: 1.9 Consensus size: 72
1322153 GCTTAATTAA
* * *
1322163 TTAATTAATTAATTATAGACATATAGAGAATTAAATTAAGTTAGGGCATTGTACGATAACTCGAC
1 TTAATTAATTAACTATAAACATATAGAGAATTAAATTAAGTTAGGACATTGTACGATAACTCGAC
1322228 AGAAAGC
66 AGAAAGC
*
1322235 TTAATTAATTAGCTATAAACATATAGAGAATTAAATTAAGTTAGGACATTGTACGATAACTCGAC
1 TTAATTAATTAACTATAAACATATAGAGAATTAAATTAAGTTAGGACATTGTACGATAACTCGAC
1322300 A
66 A
1322301 AAGAATTGTA
Statistics
Matches: 62, Mismatches: 4, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
72 62 1.00
ACGTcount: A:0.43, C:0.10, G:0.15, T:0.31
Consensus pattern (72 bp):
TTAATTAATTAACTATAAACATATAGAGAATTAAATTAAGTTAGGACATTGTACGATAACTCGAC
AGAAAGC
Found at i:1335095 original size:12 final size:11
Alignment explanation
Indices: 1335078--1335112 Score: 54
Period size: 12 Copynumber: 3.2 Consensus size: 11
1335068 GCCCAAGTCT
1335078 TTTCCTTCTTC
1 TTTCCTTCTTC
1335089 TTCTCCTTCTTC
1 TT-TCCTTCTTC
1335101 TTT-CTTCTTC
1 TTTCCTTCTTC
1335111 TT
1 TT
1335113 GCTTCTTAAA
Statistics
Matches: 23, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
10 9 0.39
11 3 0.13
12 11 0.48
ACGTcount: A:0.00, C:0.34, G:0.00, T:0.66
Consensus pattern (11 bp):
TTTCCTTCTTC
Found at i:1338296 original size:15 final size:15
Alignment explanation
Indices: 1338276--1338307 Score: 55
Period size: 15 Copynumber: 2.1 Consensus size: 15
1338266 AGATTTCGAT
1338276 ATTATATTCTCGACA
1 ATTATATTCTCGACA
*
1338291 ATTATATTTTCGACA
1 ATTATATTCTCGACA
1338306 AT
1 AT
1338308 CATTTCACAA
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
15 16 1.00
ACGTcount: A:0.34, C:0.16, G:0.06, T:0.44
Consensus pattern (15 bp):
ATTATATTCTCGACA
Found at i:1338966 original size:85 final size:84
Alignment explanation
Indices: 1338696--1338969 Score: 293
Period size: 85 Copynumber: 3.2 Consensus size: 84
1338686 ATGTCAATTA
* * * * *
1338696 AGATTAAGTCTTATTTTTCGAGTCATATTATATGTAACGTGGATAGAAAATACTAGTTGAAATT-
1 AGATTAGGTCTTA-TTTTCGAGTCATATTATATATCACATGAATAGAAAATACTAGTTGAAATTA
1338760 AGATCTTTATTTTCCATTACTG
65 AG-TC-TTATTTTCCATTACTG
* * * * * * *
1338782 AGATTAGGTTTTATGTTTCGAGTCATATCACATCTCATAT-AGATAGAAAATACTAGTTGAGATC
1 AGATTAGGTCTTAT-TTTCGAGTCATATTATATATCACATGA-ATAGAAAATACTAGTTGAAATT
* *
1338846 AGGTCTTATTTTCCATTATTG
64 AAGTCTTATTTTCCATTACTG
* * * *
1338867 AGATTAGATTTTATTTCTCGAGTCATATTATATATCACATGAATAGAAAAT-GTCAATTGAAATT
1 AGATTAGGTCTTATTT-TCGAGTCATATTATATATCACATGAATAGAAAATACT-AGTTGAAATT
*
1338931 AAGTCTTATTTTCCGTTACTG
64 AAGTCTTATTTTCCATTACTG
1338952 AGATTAGGTCTTATTTTC
1 AGATTAGGTCTTATTTTC
1338970 CGTTAACATT
Statistics
Matches: 155, Mismatches: 27, Indels: 14
0.79 0.14 0.07
Matches are distributed among these distances:
84 5 0.03
85 96 0.62
86 53 0.34
87 1 0.01
ACGTcount: A:0.32, C:0.12, G:0.15, T:0.42
Consensus pattern (84 bp):
AGATTAGGTCTTATTTTCGAGTCATATTATATATCACATGAATAGAAAATACTAGTTGAAATTAA
GTCTTATTTTCCATTACTG
Found at i:1343710 original size:14 final size:13
Alignment explanation
Indices: 1343688--1343721 Score: 50
Period size: 13 Copynumber: 2.5 Consensus size: 13
1343678 AAATTATTCG
1343688 ATAAATTTTTTTTT
1 ATAAA-TTTTTTTT
*
1343702 ATAAGTTTTTTTT
1 ATAAATTTTTTTT
1343715 ATAAATT
1 ATAAATT
1343722 ATAATTTTAG
Statistics
Matches: 18, Mismatches: 2, Indels: 1
0.86 0.10 0.05
Matches are distributed among these distances:
13 14 0.78
14 4 0.22
ACGTcount: A:0.32, C:0.00, G:0.03, T:0.65
Consensus pattern (13 bp):
ATAAATTTTTTTT
Found at i:1358795 original size:18 final size:18
Alignment explanation
Indices: 1358761--1358795 Score: 52
Period size: 18 Copynumber: 1.9 Consensus size: 18
1358751 GACTCCCACC
**
1358761 TAAAAAATAATTTAAAAA
1 TAAAAAATAATACAAAAA
1358779 TAAAAAATAATACAAAA
1 TAAAAAATAATACAAAA
1358796 TATGTACTAA
Statistics
Matches: 15, Mismatches: 2, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
18 15 1.00
ACGTcount: A:0.74, C:0.03, G:0.00, T:0.23
Consensus pattern (18 bp):
TAAAAAATAATACAAAAA
Found at i:1378691 original size:21 final size:22
Alignment explanation
Indices: 1378650--1378691 Score: 59
Period size: 21 Copynumber: 2.0 Consensus size: 22
1378640 AAAAAAACCT
1378650 TTATTTTCAATAAAATTAAAAA
1 TTATTTTCAATAAAATTAAAAA
* *
1378672 TTATTTTTAA-AAATTTAAAA
1 TTATTTTCAATAAAATTAAAA
1378692 GCATTTCTTA
Statistics
Matches: 18, Mismatches: 2, Indels: 1
0.86 0.10 0.05
Matches are distributed among these distances:
21 9 0.50
22 9 0.50
ACGTcount: A:0.52, C:0.02, G:0.00, T:0.45
Consensus pattern (22 bp):
TTATTTTCAATAAAATTAAAAA
Found at i:1378759 original size:2 final size:2
Alignment explanation
Indices: 1378748--1378792 Score: 74
Period size: 2 Copynumber: 23.0 Consensus size: 2
1378738 ATAATAAATA
*
1378748 AT AT -T AT AT AT AT AT AT TT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1378789 AT AT
1 AT AT
1378793 GTGTGTGTGT
Statistics
Matches: 40, Mismatches: 2, Indels: 2
0.91 0.05 0.05
Matches are distributed among these distances:
1 1 0.03
2 39 0.98
ACGTcount: A:0.47, C:0.00, G:0.00, T:0.53
Consensus pattern (2 bp):
AT
Found at i:1378797 original size:2 final size:2
Alignment explanation
Indices: 1378792--1378832 Score: 59
Period size: 2 Copynumber: 21.5 Consensus size: 2
1378782 TATATATATA
*
1378792 TG TG TG TG TG TG TG TG TG T- TG TG T- TG TG TG TA TG TG TG TG
1 TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG
1378832 T
1 T
1378833 TAAGAAATAA
Statistics
Matches: 35, Mismatches: 2, Indels: 4
0.85 0.05 0.10
Matches are distributed among these distances:
1 2 0.06
2 33 0.94
ACGTcount: A:0.02, C:0.00, G:0.44, T:0.54
Consensus pattern (2 bp):
TG
Found at i:1379027 original size:24 final size:24
Alignment explanation
Indices: 1379000--1379048 Score: 98
Period size: 24 Copynumber: 2.0 Consensus size: 24
1378990 ATAAAGAGAT
1379000 TAAAATGGTTAAATTGAGATAGTA
1 TAAAATGGTTAAATTGAGATAGTA
1379024 TAAAATGGTTAAATTGAGATAGTA
1 TAAAATGGTTAAATTGAGATAGTA
1379048 T
1 T
1379049 TATATCGAAA
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
24 25 1.00
ACGTcount: A:0.45, C:0.00, G:0.20, T:0.35
Consensus pattern (24 bp):
TAAAATGGTTAAATTGAGATAGTA
Found at i:1394457 original size:59 final size:59
Alignment explanation
Indices: 1394377--1394492 Score: 214
Period size: 59 Copynumber: 2.0 Consensus size: 59
1394367 AGAAATTTCA
1394377 AAGAAAATATCTAAAACGAAAATATTTATCTCATAATTTTTAAAGTCAAGAAATTTTTG
1 AAGAAAATATCTAAAACGAAAATATTTATCTCATAATTTTTAAAGTCAAGAAATTTTTG
* *
1394436 AAGAAAATATCTGAAAGGAAAATATTTATCTCATAATTTTTAAAGTCAAGAAATTTT
1 AAGAAAATATCTAAAACGAAAATATTTATCTCATAATTTTTAAAGTCAAGAAATTTT
1394493 CGACGAGAAA
Statistics
Matches: 55, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
59 55 1.00
ACGTcount: A:0.47, C:0.08, G:0.09, T:0.35
Consensus pattern (59 bp):
AAGAAAATATCTAAAACGAAAATATTTATCTCATAATTTTTAAAGTCAAGAAATTTTTG
Found at i:1395660 original size:31 final size:30
Alignment explanation
Indices: 1395622--1395694 Score: 83
Period size: 31 Copynumber: 2.4 Consensus size: 30
1395612 AAAGATTATG
* *
1395622 AAAAAATTAAAATATATTTTTTAATTAATTT
1 AAAAAATTAAAATATATTTTTTAA-AAATAT
* *
1395653 AAAAAATTATTATTATATTTTTTAAAAATAT
1 AAAAAATTA-AAATATATTTTTTAAAAATAT
*
1395684 AAAAAAATAAA
1 AAAAAATTAAA
1395695 GAGCGCTGGT
Statistics
Matches: 35, Mismatches: 6, Indels: 3
0.80 0.14 0.07
Matches are distributed among these distances:
30 1 0.03
31 21 0.60
32 13 0.37
ACGTcount: A:0.58, C:0.00, G:0.00, T:0.42
Consensus pattern (30 bp):
AAAAAATTAAAATATATTTTTTAAAAATAT
Found at i:1403119 original size:20 final size:20
Alignment explanation
Indices: 1403087--1403126 Score: 55
Period size: 20 Copynumber: 2.0 Consensus size: 20
1403077 CTCCTGGCTG
*
1403087 TTTATGAATAAAGTACAATC
1 TTTATGAATAAAGTAAAATC
1403107 TTTATCGAA-AAAGTAAAATC
1 TTTAT-GAATAAAGTAAAATC
1403127 AGTAGTATCT
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
20 15 0.83
21 3 0.17
ACGTcount: A:0.47, C:0.10, G:0.10, T:0.33
Consensus pattern (20 bp):
TTTATGAATAAAGTAAAATC
Found at i:1405160 original size:17 final size:18
Alignment explanation
Indices: 1405138--1405176 Score: 62
Period size: 17 Copynumber: 2.2 Consensus size: 18
1405128 ATGTATTTTG
1405138 ATGTTAATTAG-AATTTA
1 ATGTTAATTAGTAATTTA
*
1405155 ATGTTAATTAGTATTTTA
1 ATGTTAATTAGTAATTTA
1405173 ATGT
1 ATGT
1405177 ATATGCATAT
Statistics
Matches: 20, Mismatches: 1, Indels: 1
0.91 0.05 0.05
Matches are distributed among these distances:
17 11 0.55
18 9 0.45
ACGTcount: A:0.36, C:0.00, G:0.13, T:0.51
Consensus pattern (18 bp):
ATGTTAATTAGTAATTTA
Found at i:1414719 original size:2 final size:2
Alignment explanation
Indices: 1414712--1414740 Score: 58
Period size: 2 Copynumber: 14.5 Consensus size: 2
1414702 CTTGTACTGA
1414712 AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
1414741 GTAGNTGCTG
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 27 1.00
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (2 bp):
AT
Found at i:1414789 original size:2 final size:2
Alignment explanation
Indices: 1414782--1414812 Score: 62
Period size: 2 Copynumber: 15.5 Consensus size: 2
1414772 CTTGTACTGA
1414782 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
1414813 GGGCAGATAA
Statistics
Matches: 29, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 29 1.00
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (2 bp):
AT
Found at i:1414789 original size:70 final size:69
Alignment explanation
Indices: 1414676--1414810 Score: 261
Period size: 70 Copynumber: 1.9 Consensus size: 69
1414666 ATCCATAGAC
1414676 TGCTGTCATTCTGCGAAAGGCCTTAGCTTGTACTGAATATATATATATATATATATATATATATA
1 TGCTGTCATTCTGCGAAAGGCCTTAGCTTGTACTGAATATATATATATATATATATATATATATA
1414741 GTAG
66 GTAG
1414745 NTGCTGTCATTCTGCGAAAGGCCTTAGCTTGTACTGAATATATATATATATATATATATATATAT
1 -TGCTGTCATTCTGCGAAAGGCCTTAGCTTGTACTGAATATATATATATATATATATATATATAT
1414810 A
65 A
1414811 TAGGGCAGAT
Statistics
Matches: 65, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
70 65 1.00
ACGTcount: A:0.33, C:0.12, G:0.15, T:0.39
Consensus pattern (69 bp):
TGCTGTCATTCTGCGAAAGGCCTTAGCTTGTACTGAATATATATATATATATATATATATATATA
GTAG
Found at i:1423946 original size:2 final size:2
Alignment explanation
Indices: 1423941--1424019 Score: 140
Period size: 2 Copynumber: 39.0 Consensus size: 2
1423931 TCATATCCTA
*
1423941 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT NT AT ACT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A-T AT
1423984 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1424020 GAATGCATGC
Statistics
Matches: 74, Mismatches: 2, Indels: 2
0.95 0.03 0.03
Matches are distributed among these distances:
2 72 0.97
3 2 0.03
ACGTcount: A:0.48, C:0.01, G:0.00, T:0.49
Consensus pattern (2 bp):
AT
Found at i:1425999 original size:99 final size:100
Alignment explanation
Indices: 1425789--1426090 Score: 439
Period size: 99 Copynumber: 3.0 Consensus size: 100
1425779 TAGTTCAGCT
* * * * * *
1425789 ACTATTGTTGGGACCAATTTTGTACATTTTCCTTCTGTTAAGTCATCAAAAATTTTAATTATAAG
1 ACTATTGTTGGGATCAAATTT-TACATTTTCTTTTTGTCAAGTCATCAAAAATTTTAATTATAAA
* * *
1425854 TATACCCTAAGTGATATAACGGTTCAACCATACATA
65 TATACCCTAAGTGATATAACGATTCAACTATAGATA
*
1425890 ACTATTGTTGGGATCAAATATTACATTTTCTTTTTGTCAAGTCATCAAAAATTTTAATTATAAAT
1 ACTATTGTTGGGATCAAATTTTACATTTTCTTTTTGTCAAGTCATCAAAAATTTTAATTATAAAT
1425955 -TACCCTAAGTGATATAACGATTCAACTATAGATA
66 ATACCCTAAGTGATATAACGATTCAACTATAGATA
* *
1425989 ATTATTGTTGGGATCAAATTTTACATTTTCTTTTTGTCAAGTCATCAAAAATTTTAAGTATAAAT
1 ACTATTGTTGGGATCAAATTTTACATTTTCTTTTTGTCAAGTCATCAAAAATTTTAATTATAAAT
*
1426054 ATACGCTAAGTGATATAAC-AGTTCAA-TGATAGATA
66 ATACCCTAAGTGATATAACGA-TTCAACT-ATAGATA
1426089 AC
1 AC
1426091 AAAACATTGT
Statistics
Matches: 183, Mismatches: 15, Indels: 7
0.89 0.07 0.03
Matches are distributed among these distances:
99 95 0.52
100 70 0.38
101 18 0.10
ACGTcount: A:0.36, C:0.14, G:0.12, T:0.39
Consensus pattern (100 bp):
ACTATTGTTGGGATCAAATTTTACATTTTCTTTTTGTCAAGTCATCAAAAATTTTAATTATAAAT
ATACCCTAAGTGATATAACGATTCAACTATAGATA
Found at i:1430881 original size:14 final size:15
Alignment explanation
Indices: 1430864--1430897 Score: 52
Period size: 14 Copynumber: 2.3 Consensus size: 15
1430854 TTTTTATGAG
*
1430864 TTAATTTTAA-TTTA
1 TTAATTTAAATTTTA
1430878 TTAATTTAAATTTTA
1 TTAATTTAAATTTTA
1430893 TTAAT
1 TTAAT
1430898 AATTACATAA
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
14 9 0.50
15 9 0.50
ACGTcount: A:0.38, C:0.00, G:0.00, T:0.62
Consensus pattern (15 bp):
TTAATTTAAATTTTA
Done.