Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Chr6
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: 47432654
ACGTcount: A:0.32, C:0.16, G:0.16, T:0.32
Warning! 2298022 characters in sequence are not A, C, G, or T
File 51 of 136
Found at i:16854255 original size:40 final size:41
Alignment explanation
Indices: 16854192--16854279 Score: 115
Period size: 40 Copynumber: 2.2 Consensus size: 41
16854182 CATTAAGGAA
* * * *
16854192 TACTGAATATTATTTTTGAGTACTGAATTGAATTGTGAAGT
1 TACTGAATATTAGTTATGAGTACTGAATTGAACTGTGAAAT
* *
16854233 TACTGAATATT-GTTATGTGTACTGCATTGAACTGTGAAAT
1 TACTGAATATTAGTTATGAGTACTGAATTGAACTGTGAAAT
16854273 TACTGAA
1 TACTGAA
16854280 GTAATGAATT
Statistics
Matches: 41, Mismatches: 6, Indels: 1
0.85 0.12 0.02
Matches are distributed among these distances:
40 30 0.73
41 11 0.27
ACGTcount: A:0.32, C:0.08, G:0.19, T:0.41
Consensus pattern (41 bp):
TACTGAATATTAGTTATGAGTACTGAATTGAACTGTGAAAT
Found at i:16854550 original size:45 final size:45
Alignment explanation
Indices: 16854483--16854583 Score: 139
Period size: 45 Copynumber: 2.2 Consensus size: 45
16854473 GCCGACTACT
* * *
16854483 GTTACTGTTACCGATTCGACACTTTGTGTGTCAAATACTGTTACC
1 GTTACTGTTACAGATTCAACACTTTGTGTGTCAAATACTATTACC
* ** *
16854528 GTTACTGTTATAGATTCAACACTTTGTGTGTTGAATACTATTACT
1 GTTACTGTTACAGATTCAACACTTTGTGTGTCAAATACTATTACC
16854573 GTTACTGTTAC
1 GTTACTGTTAC
16854584 TGCTACCGTT
Statistics
Matches: 48, Mismatches: 8, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
45 48 1.00
ACGTcount: A:0.24, C:0.18, G:0.17, T:0.42
Consensus pattern (45 bp):
GTTACTGTTACAGATTCAACACTTTGTGTGTCAAATACTATTACC
Found at i:16854577 original size:6 final size:6
Alignment explanation
Indices: 16854563--16854606 Score: 52
Period size: 6 Copynumber: 7.2 Consensus size: 6
16854553 GTGTGTTGAA
* * *
16854563 TACTAT TACTGT TACTGT TACTGC TACCGT TACTGAT TACTGT T
1 TACTGT TACTGT TACTGT TACTGT TACTGT TACTG-T TACTGT T
16854607 TAGATGCTGT
Statistics
Matches: 32, Mismatches: 5, Indels: 2
0.82 0.13 0.05
Matches are distributed among these distances:
6 26 0.81
7 6 0.19
ACGTcount: A:0.20, C:0.20, G:0.14, T:0.45
Consensus pattern (6 bp):
TACTGT
Found at i:16864746 original size:19 final size:19
Alignment explanation
Indices: 16864722--16864759 Score: 76
Period size: 19 Copynumber: 2.0 Consensus size: 19
16864712 ATTGGATAAA
16864722 AAAAGTGGTGAGGTAATTC
1 AAAAGTGGTGAGGTAATTC
16864741 AAAAGTGGTGAGGTAATTC
1 AAAAGTGGTGAGGTAATTC
16864760 CTTCTGGCAC
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
19 19 1.00
ACGTcount: A:0.37, C:0.05, G:0.32, T:0.26
Consensus pattern (19 bp):
AAAAGTGGTGAGGTAATTC
Found at i:16872368 original size:17 final size:17
Alignment explanation
Indices: 16872348--16872403 Score: 67
Period size: 17 Copynumber: 3.2 Consensus size: 17
16872338 TTAAAAGTTT
*
16872348 ATATTTATTAGTGTTGA
1 ATATCTATTAGTGTTGA
*
16872365 ATATCTATTAGTGTTAA
1 ATATCTATTAGTGTTGA
*
16872382 ATATACAATATAGTGTTGA
1 ATAT-CTAT-TAGTGTTGA
16872401 ATA
1 ATA
16872404 ATTATTTACT
Statistics
Matches: 33, Mismatches: 4, Indels: 2
0.85 0.10 0.05
Matches are distributed among these distances:
17 19 0.58
18 3 0.09
19 11 0.33
ACGTcount: A:0.38, C:0.04, G:0.14, T:0.45
Consensus pattern (17 bp):
ATATCTATTAGTGTTGA
Found at i:16873574 original size:409 final size:409
Alignment explanation
Indices: 16872808--16873625 Score: 1483
Period size: 409 Copynumber: 2.0 Consensus size: 409
16872798 AATATTGGTG
16872808 TAATATTAAAGTTTGGAAGTCCAATTAGCATGATGTTCATAAAGGACATCACGTTAGTGGAGATG
1 TAATATTAAAGTTTGGAAGTCCAATTAGCATGATGTTCATAAAGGACATCACGTTAGTGGAGATG
16872873 AAGCACAAAATTGGTCGAAGCTCTTGTTGAGGTATAGATTTATATGATAATCCAATGAGATATTC
66 AAGCACAAAATTGGTCGAAGCTCTTGTTGAGGTATAGATTTATATGATAATCCAATGAGATATTC
* *
16872938 TACAATTAATGTAGTGGATGATGATGATCTCCAAATAATGACTACACTTTATGAGTCAAATGGTA
131 TACAATTAATGTAGCGGATGATGATGATCTCCAAATAATGAATACACTTTATGAGTCAAATGGTA
* * * *
16873003 GTGGAAGAGTTGAGTTGTATGTTGAGCTTGACAGTATTGAAGGACATGGGAGATCGATGTTCTAA
196 ATGGAAGAGTTAAGTTGTATGTTGAGCTTGACAGTATTGAAGGACATGGGAGATCGATATTCCAA
*
16873068 GCTTGTTGAATGGTTGCGTGCGTGCACATTAAAACACTGAATTTATACAATAATTTTTAAAGCCC
261 GCTTGTTGAACGGTTGCGTGCGTGCACATTAAAACACTGAATTTATACAATAATTTTTAAAGCCC
* *
16873133 GATTTTACTACAAGCGTACAGGTCAATTGTAATATTTATAATGTTACAATGAAACACTGAAGTAT
326 GATTTTACTACAAGCGTACAGGTCAATTGTAATATTTATAATGTTACAATGAAACAATAAAGTAT
16873198 TTCAAGGATCGAACCCAAA
391 TTCAAGGATCGAACCCAAA
16873217 TAATATTAAAGTTTGGAAGTCCAATTAGCATGATGTTCATAAAGGACATCACGTTAGTGGAGATG
1 TAATATTAAAGTTTGGAAGTCCAATTAGCATGATGTTCATAAAGGACATCACGTTAGTGGAGATG
* *
16873282 AAGTACAAAATTGGTCGAAGCTCTTGTTGAGGTATAGATTTATATGATAATCCAATGAGATATTT
66 AAGCACAAAATTGGTCGAAGCTCTTGTTGAGGTATAGATTTATATGATAATCCAATGAGATATTC
* *
16873347 TATAATTAATGTAGCGGATGATGATGATCTCCAAATAATGAATGCACTTTATGAGTCAAATGGTA
131 TACAATTAATGTAGCGGATGATGATGATCTCCAAATAATGAATACACTTTATGAGTCAAATGGTA
16873412 ATGGAAGAGTTAAGTTGTATGTTGAGCTTGACAGTATTGAAGGACATGGGAGATCGATATTCCAA
196 ATGGAAGAGTTAAGTTGTATGTTGAGCTTGACAGTATTGAAGGACATGGGAGATCGATATTCCAA
*
16873477 GCTTGTTGACCGGTTGCGTGCGTGCACATTAAAACACTGAATTTATACAATAATTTTTAAAGCCC
261 GCTTGTTGAACGGTTGCGTGCGTGCACATTAAAACACTGAATTTATACAATAATTTTTAAAGCCC
* * *
16873542 GGTTTTACTGCAAGCGTACAGGTCAGTTGTAATATTTATAATGTTACAATGAAACAATAAAGTAT
326 GATTTTACTACAAGCGTACAGGTCAATTGTAATATTTATAATGTTACAATGAAACAATAAAGTAT
16873607 TTCAAGGATCGAACCCAAA
391 TTCAAGGATCGAACCCAAA
16873626 GGAAGAGGCG
Statistics
Matches: 392, Mismatches: 17, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
409 392 1.00
ACGTcount: A:0.35, C:0.13, G:0.21, T:0.32
Consensus pattern (409 bp):
TAATATTAAAGTTTGGAAGTCCAATTAGCATGATGTTCATAAAGGACATCACGTTAGTGGAGATG
AAGCACAAAATTGGTCGAAGCTCTTGTTGAGGTATAGATTTATATGATAATCCAATGAGATATTC
TACAATTAATGTAGCGGATGATGATGATCTCCAAATAATGAATACACTTTATGAGTCAAATGGTA
ATGGAAGAGTTAAGTTGTATGTTGAGCTTGACAGTATTGAAGGACATGGGAGATCGATATTCCAA
GCTTGTTGAACGGTTGCGTGCGTGCACATTAAAACACTGAATTTATACAATAATTTTTAAAGCCC
GATTTTACTACAAGCGTACAGGTCAATTGTAATATTTATAATGTTACAATGAAACAATAAAGTAT
TTCAAGGATCGAACCCAAA
Found at i:16890301 original size:49 final size:51
Alignment explanation
Indices: 16890248--16890356 Score: 143
Period size: 49 Copynumber: 2.2 Consensus size: 51
16890238 GAAATCCTTG
16890248 TTCATTTCAAAATGAATTCATTTT-T-CATTTCCATTTT-GAGAAAACCACA
1 TTCATTTC-AAATGAATTCATTTTCTCCATTTCCATTTTGGAGAAAACCACA
* * *
16890297 TTCATGTTCAAATGATTTCATTTTCTCCATTTTCATTTTGGAGAAAACCATA
1 TTCAT-TTCAAATGAATTCATTTTCTCCATTTCCATTTTGGAGAAAACCACA
*
16890349 ATCATTTC
1 TTCATTTC
16890357 TTGAATGTTT
Statistics
Matches: 52, Mismatches: 4, Indels: 6
0.84 0.06 0.10
Matches are distributed among these distances:
49 19 0.37
50 4 0.08
51 14 0.27
52 15 0.29
ACGTcount: A:0.31, C:0.18, G:0.07, T:0.43
Consensus pattern (51 bp):
TTCATTTCAAATGAATTCATTTTCTCCATTTCCATTTTGGAGAAAACCACA
Found at i:16891626 original size:43 final size:43
Alignment explanation
Indices: 16891560--16891784 Score: 274
Period size: 43 Copynumber: 5.3 Consensus size: 43
16891550 ACATTTGAAT
* *
16891560 AAACGCCGCTATAGATCATGACCTTTAGCGGCGCTTTTTCCAG
1 AAACGCCGCTATAGATCAAGACCTTTAGCGGCGCTTTTTCCAC
*
16891603 AAACGCCGCTATAGATCAGGACCTTTAGCGGCGC-TTTTCCAC
1 AAACGCCGCTATAGATCAAGACCTTTAGCGGCGCTTTTTCCAC
* * * *
16891645 AAACGCCGCTATAGTTCAAGATCTTTAACGGCGCTTTTTCTAC
1 AAACGCCGCTATAGATCAAGACCTTTAGCGGCGCTTTTTCCAC
* * *
16891688 AAACGCCGCTGTAGATCAAGACTTTTAGCGGCGCTTTTTCATAC
1 AAACGCCGCTATAGATCAAGACCTTTAGCGGCGCTTTTTC-CAC
* * * * * *
16891732 AAATGCCGTTATAGAGC-AGATCTTTAGCGGCGCTTTTTACAA
1 AAACGCCGCTATAGATCAAGACCTTTAGCGGCGCTTTTTCCAC
*
16891774 AAATGCCGCTA
1 AAACGCCGCTA
16891785 AAAACATATC
Statistics
Matches: 158, Mismatches: 22, Indels: 5
0.85 0.12 0.03
Matches are distributed among these distances:
42 48 0.30
43 94 0.59
44 16 0.10
ACGTcount: A:0.26, C:0.26, G:0.20, T:0.28
Consensus pattern (43 bp):
AAACGCCGCTATAGATCAAGACCTTTAGCGGCGCTTTTTCCAC
Found at i:16891658 original size:85 final size:86
Alignment explanation
Indices: 16891560--16891784 Score: 283
Period size: 85 Copynumber: 2.6 Consensus size: 86
16891550 ACATTTGAAT
* * *
16891560 AAACGCCGCTATAGATCATGACCTTTAGCGGCGCTTTTTCCAGAAACGCCGCTATAGATCAGGAC
1 AAACGCCGCTATAGATCA-GATCTTTAGCGGCGCTTTTTCCAAAAACGCCGCTATAGATCAAGAC
16891625 CTTTAGCGGCGC-TTTTC-CAC
65 CTTTAGCGGCGCTTTTTCACAC
* * * * *
16891645 AAACGCCGCTATAGTTCAAGATCTTTAACGGCGCTTTTTCTACAAACGCCGCTGTAGATCAAGAC
1 AAACGCCGCTATAGATC-AGATCTTTAGCGGCGCTTTTTCCAAAAACGCCGCTATAGATCAAGAC
* *
16891710 TTTTAGCGGCGCTTTTTCATAC
65 CTTTAGCGGCGCTTTTTCACAC
* * * * *
16891732 AAATGCCGTTATAGAGCAGATCTTTAGCGGCGCTTTTTACAAAAATGCCGCTA
1 AAACGCCGCTATAGATCAGATCTTTAGCGGCGCTTTTTCCAAAAACGCCGCTA
16891785 AAAACATATC
Statistics
Matches: 118, Mismatches: 19, Indels: 5
0.83 0.13 0.04
Matches are distributed among these distances:
85 67 0.57
86 36 0.31
87 15 0.13
ACGTcount: A:0.26, C:0.26, G:0.20, T:0.28
Consensus pattern (86 bp):
AAACGCCGCTATAGATCAGATCTTTAGCGGCGCTTTTTCCAAAAACGCCGCTATAGATCAAGACC
TTTAGCGGCGCTTTTTCACAC
Found at i:16891968 original size:43 final size:43
Alignment explanation
Indices: 16891920--16892010 Score: 114
Period size: 43 Copynumber: 2.1 Consensus size: 43
16891910 ACATATGCAA
* * *
16891920 GGTAATAAAACATACAATGCATTT-TCTTAATCAAGTAAATCTT
1 GGTAATAAAACAAACAATACATTTAT-TTAATCAAGGAAATCTT
* *
16891963 GGTAATAAAAGAAATAATACATTTATTTAATCAAGGAAATCTT
1 GGTAATAAAACAAACAATACATTTATTTAATCAAGGAAATCTT
16892006 -GTAAT
1 GGTAAT
16892011 GAACTCAAAG
Statistics
Matches: 42, Mismatches: 5, Indels: 3
0.84 0.10 0.06
Matches are distributed among these distances:
42 5 0.12
43 36 0.86
44 1 0.02
ACGTcount: A:0.45, C:0.10, G:0.11, T:0.34
Consensus pattern (43 bp):
GGTAATAAAACAAACAATACATTTATTTAATCAAGGAAATCTT
Found at i:16895133 original size:16 final size:16
Alignment explanation
Indices: 16895097--16895135 Score: 51
Period size: 16 Copynumber: 2.4 Consensus size: 16
16895087 CTTTAATTTA
16895097 TATATATACATACTTT
1 TATATATACATACTTT
* **
16895113 CATATATACATGTTTT
1 TATATATACATACTTT
16895129 TATATAT
1 TATATAT
16895136 TTCCATTATT
Statistics
Matches: 19, Mismatches: 4, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
16 19 1.00
ACGTcount: A:0.36, C:0.10, G:0.03, T:0.51
Consensus pattern (16 bp):
TATATATACATACTTT
Found at i:16898582 original size:17 final size:18
Alignment explanation
Indices: 16898560--16898596 Score: 58
Period size: 17 Copynumber: 2.1 Consensus size: 18
16898550 TTATTCTTTT
16898560 ATTCTTTCATCCA-AATC
1 ATTCTTTCATCCATAATC
*
16898577 ATTCTTTCATTCATAATC
1 ATTCTTTCATCCATAATC
16898595 AT
1 AT
16898597 ACTGTGCAGA
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
17 12 0.67
18 6 0.33
ACGTcount: A:0.30, C:0.24, G:0.00, T:0.46
Consensus pattern (18 bp):
ATTCTTTCATCCATAATC
Found at i:16899335 original size:8 final size:9
Alignment explanation
Indices: 16899313--16899346 Score: 50
Period size: 9 Copynumber: 3.7 Consensus size: 9
16899303 AGTTCAGACT
*
16899313 AAAAAAATAT
1 AAAAAAAT-C
16899323 AAAAAAATC
1 AAAAAAATC
16899332 AAAAAAATC
1 AAAAAAATC
16899341 AAAAAA
1 AAAAAA
16899347 GAAAAAGAAA
Statistics
Matches: 23, Mismatches: 1, Indels: 1
0.92 0.04 0.04
Matches are distributed among these distances:
9 15 0.65
10 8 0.35
ACGTcount: A:0.82, C:0.06, G:0.00, T:0.12
Consensus pattern (9 bp):
AAAAAAATC
Found at i:16899352 original size:17 final size:16
Alignment explanation
Indices: 16899313--16899372 Score: 52
Period size: 17 Copynumber: 3.5 Consensus size: 16
16899303 AGTTCAGACT
16899313 AAAAAAATATAAAAAA-
1 AAAAAAA-ATAAAAAAG
16899329 ATCAAAAAAATCAAAAAAG
1 A--AAAAAAAT-AAAAAAG
16899348 AAAAAGAAA-AAGAAAAG
1 AAAAA-AAATAA-AAAAG
16899365 AAAAAAAA
1 AAAAAAAA
16899373 GGAGAGGTAA
Statistics
Matches: 38, Mismatches: 0, Indels: 12
0.76 0.00 0.24
Matches are distributed among these distances:
16 6 0.16
17 16 0.42
18 15 0.39
19 1 0.03
ACGTcount: A:0.83, C:0.03, G:0.07, T:0.07
Consensus pattern (16 bp):
AAAAAAAATAAAAAAG
Found at i:16900171 original size:12 final size:11
Alignment explanation
Indices: 16900154--16900183 Score: 60
Period size: 11 Copynumber: 2.7 Consensus size: 11
16900144 CACTTTGAGT
16900154 AAAAAAAAAAC
1 AAAAAAAAAAC
16900165 AAAAAAAAAAC
1 AAAAAAAAAAC
16900176 AAAAAAAA
1 AAAAAAAA
16900184 TGAAATGAAA
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 19 1.00
ACGTcount: A:0.93, C:0.07, G:0.00, T:0.00
Consensus pattern (11 bp):
AAAAAAAAAAC
Found at i:16900211 original size:7 final size:8
Alignment explanation
Indices: 16900186--16900227 Score: 68
Period size: 8 Copynumber: 5.2 Consensus size: 8
16900176 AAAAAAAATG
16900186 AAATGAAAA
1 AAATG-AAA
16900195 AAATGAAA
1 AAATGAAA
16900203 AAATG-AA
1 AAATGAAA
16900210 AAATGAAA
1 AAATGAAA
16900218 AAATGAAA
1 AAATGAAA
16900226 AA
1 AA
16900228 GTAAAAATAG
Statistics
Matches: 32, Mismatches: 0, Indels: 3
0.91 0.00 0.09
Matches are distributed among these distances:
7 7 0.22
8 20 0.62
9 5 0.16
ACGTcount: A:0.76, C:0.00, G:0.12, T:0.12
Consensus pattern (8 bp):
AAATGAAA
Found at i:16900226 original size:22 final size:24
Alignment explanation
Indices: 16900178--16900235 Score: 79
Period size: 22 Copynumber: 2.6 Consensus size: 24
16900168 AAAAAAACAA
16900178 AAAAAATG--AAATGAAAAAAATG
1 AAAAAATGAAAAATGAAAAAAATG
16900200 AAAAAATGAAAAATG-AAAAAATG
1 AAAAAATGAAAAATGAAAAAAATG
*
16900223 AAAAAGT-AAAAAT
1 AAAAAATGAAAAAT
16900236 AGAGAGGCTA
Statistics
Matches: 33, Mismatches: 1, Indels: 4
0.87 0.03 0.11
Matches are distributed among these distances:
22 14 0.42
23 14 0.42
24 5 0.15
ACGTcount: A:0.74, C:0.00, G:0.12, T:0.14
Consensus pattern (24 bp):
AAAAAATGAAAAATGAAAAAAATG
Found at i:16900234 original size:15 final size:15
Alignment explanation
Indices: 16900193--16900227 Score: 70
Period size: 15 Copynumber: 2.3 Consensus size: 15
16900183 ATGAAATGAA
16900193 AAAAATGAAAAAATG
1 AAAAATGAAAAAATG
16900208 AAAAATGAAAAAATG
1 AAAAATGAAAAAATG
16900223 AAAAA
1 AAAAA
16900228 GTAAAAATAG
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 20 1.00
ACGTcount: A:0.77, C:0.00, G:0.11, T:0.11
Consensus pattern (15 bp):
AAAAATGAAAAAATG
Found at i:16901559 original size:50 final size:49
Alignment explanation
Indices: 16901500--16902193 Score: 373
Period size: 50 Copynumber: 14.0 Consensus size: 49
16901490 AGCTTACAAT
* * * *
16901500 TAAAAAGATTGAAACTACAACAGCGGATCTTACTT-TCTTAGCATTACAG
1 TAAAAAGATTGAAGCTACAACAGCGGATCTTACTTCCCTGA-CATTGCAG
* * * * *
16901549 TGGAACAGATTGAAGCTACAGCAGCAGATCTTGCTTCCCT---A--GCAG
1 T-AAAAAGATTGAAGCTACAACAGCGGATCTTACTTCCCTGACATTGCAG
* *
16901594 TTAAAAAGATTGAAGCTACAACAGCGTATCTTACTTCCCTGACATTGCAAT
1 -TAAAAAGATTGAAGCTACAACAGCGGATCTTACTTCCCTGACATTGC-AG
* *
16901645 TAAAAAGATTGAAGCTACAACAGCGGATCTTACTTTCCTGACATTGCAAT
1 TAAAAAGATTGAAGCTACAACAGCGGATCTTACTTCCCTGACATTGC-AG
* * * * * * ** *
16901695 TAAGAAGATTGAAGCTATAACAGTGGATTTTATTTTCCT-AGCGGTGTAG
1 TAAAAAGATTGAAGCTACAACAGCGGATCTTACTTCCCTGA-CATTGCAG
* **
16901744 TGGAGCAGATTGAAGCTACAACAGCGGATCTTACTTCCCTGACATTGCAG
1 T-AAAAAGATTGAAGCTACAACAGCGGATCTTACTTCCCTGACATTGCAG
* * *
16901794 TTAAAAAGATTGAAGCTACAACAGCGGATCTTACTTCCCAGGCGA-TGCAA
1 -TAAAAAGATTGAAGCTACAACAGCGGATCTTACTTCCCTGAC-ATTGCAG
* * * * * * *
16901844 TGGAATAGATTGAAGCTACAACGGCGAATCTCACTTCCCCGACATTGCAAT
1 T-AAAAAGATTGAAGCTACAACAGCGGATCTTACTTCCCTGACATTGC-AG
* * ** * * ** *
16901895 TTAAAAGATTGAAGCTACAACGGCAAATCTTATTTCCCAGGTAGTGCAG
1 TAAAAAGATTGAAGCTACAACAGCGGATCTTACTTCCCTGACATTGCAG
* * * ** * ** **
16901944 CAGAACAGATTGAAGCCACAATGGCGAATCTTACTTCTCAGGTGA-TGCAG
1 TA-AAAAGATTGAAGCTACAACAGCGGATCTTACTTC-CCTGACATTGCAG
* * ** * * * ** * *
16901994 CAGAATAGATTGAAGCTATGACGGTGAATCTCGCTTCCCCGACATTGCAAC
1 TA-AAAAGATTGAAGCTACAACAGCGGATCTTACTTCCCTGACATTGC-AG
* * * * * * * *
16902045 TCAAAAGATTGAAGCCACAATAGAGAATCTTACTTCCCAGGCAATGCAG
1 TAAAAAGATTGAAGCTACAACAGCGGATCTTACTTCCCTGACATTGCAG
** * * * * * ***
16902094 CGGAACAGATTAAAGCTACGACAGTGAATCTCGTTTCCCTGACATTGCAAG
1 -TAAAAAGATTGAAGCTACAACAGCGGATCTTACTTCCCTGACATTGC-AG
* * * * *
16902145 TAAATAGATTAAAGCTACAACGGCGAATCTTACTT-CCTGAAATTGCAG
1 TAAAAAGATTGAAGCTACAACAGCGGATCTTACTTCCCTGACATTGCAG
16902193 T
1 T
16902194 TAAACAGACA
Statistics
Matches: 499, Mismatches: 123, Indels: 47
0.75 0.18 0.07
Matches are distributed among these distances:
45 35 0.07
46 1 0.00
47 1 0.00
48 4 0.01
49 21 0.04
50 423 0.85
51 14 0.03
ACGTcount: A:0.33, C:0.21, G:0.20, T:0.26
Consensus pattern (49 bp):
TAAAAAGATTGAAGCTACAACAGCGGATCTTACTTCCCTGACATTGCAG
Found at i:16901754 original size:100 final size:99
Alignment explanation
Indices: 16901496--16901980 Score: 423
Period size: 100 Copynumber: 4.9 Consensus size: 99
16901486 CCATAGCTTA
* ** * *
16901496 CAATTAAAAAGATTGAAACTACAACAGCGGATCTTACTTTCTTA-GC-ATTACAGTGGAACAGAT
1 CAATT-AAAAGATTGAAGCTACAACAGCGGATCTTAC-TTCCCAGGCGA-TGCAATGGAACAGAT
* * *
16901559 TGAAGCTACAGCAGCAGATCTTGCTTCCCT---A--G
63 TGAAGCTACAACAGCGGATCTTACTTCCCTGACATTG
* * * * ** *
16901591 CAGTTAAAAAGATTGAAGCTACAACAGCGTATCTTACTTCCCTGAC-ATTGCAATTAAAAAGATT
1 CAATT-AAAAGATTGAAGCTACAACAGCGGATCTTACTTCCCAGGCGA-TGCAATGGAACAGATT
*
16901655 GAAGCTACAACAGCGGATCTTACTTTCCTGACATTG
64 GAAGCTACAACAGCGGATCTTACTTCCCTGACATTG
* * * * * * * * *
16901691 CAATTAAGAAGATTGAAGCTATAACAGTGGATTTTATTTTCCTA-GCGGTGTAGTGGAGCAGATT
1 CAATTAA-AAGATTGAAGCTACAACAGCGGATCTTA-CTTCCCAGGCGATGCAATGGAACAGATT
16901755 GAAGCTACAACAGCGGATCTTACTTCCCTGACATTG
64 GAAGCTACAACAGCGGATCTTACTTCCCTGACATTG
* *
16901791 CAGTTAAAAAGATTGAAGCTACAACAGCGGATCTTACTTCCCAGGCGATGCAATGGAATAGATTG
1 CAATT-AAAAGATTGAAGCTACAACAGCGGATCTTACTTCCCAGGCGATGCAATGGAACAGATTG
* * * *
16901856 AAGCTACAACGGCGAATCTCACTTCCCCGACATTG
65 AAGCTACAACAGCGGATCTTACTTCCCTGACATTG
* ** * * ***
16901891 CAATTTAAAAGATTGAAGCTACAACGGCAAATCTTATTTCCCAGG-TAGTGCAGCAGAACAGATT
1 CAA-TTAAAAGATTGAAGCTACAACAGCGGATCTTACTTCCCAGGCGA-TGCAATGGAACAGATT
* ** *
16901955 GAAGCCACAATGGCGAATCTTACTTC
64 GAAGCTACAACAGCGGATCTTACTTC
16901981 TCAGGTGATG
Statistics
Matches: 316, Mismatches: 61, Indels: 21
0.79 0.15 0.05
Matches are distributed among these distances:
94 3 0.01
95 73 0.23
98 1 0.00
99 8 0.03
100 223 0.71
101 8 0.03
ACGTcount: A:0.34, C:0.21, G:0.19, T:0.26
Consensus pattern (99 bp):
CAATTAAAAGATTGAAGCTACAACAGCGGATCTTACTTCCCAGGCGATGCAATGGAACAGATTGA
AGCTACAACAGCGGATCTTACTTCCCTGACATTG
Found at i:16901904 original size:150 final size:149
Alignment explanation
Indices: 16901597--16902082 Score: 458
Period size: 150 Copynumber: 3.2 Consensus size: 149
16901587 CTAGCAGTTA
* *
16901597 AAAAGATTGAAGCTACAACAGCGTATCTTACTTCCCTGACATTGCAATTAAAAAGATTGAAGCTA
1 AAAAGATTGAAGCTACAACAGCGAATCTTACTTCCCTGACATTGCAGTTAAAAAGATTGAAGCTA
* * * * * * * * *
16901662 CAACAGCGGATCTTACTTTCCTGAC-ATTGCAATTAAGAAGATTGAAGCTATAACAGTGGATTTT
66 CAACAGCGGATCTTACTTCCCAGGCGA-TGCAATGAA-TAGATTGAAGCTATAACGGTGAATCTC
** * ** * * **
16901726 A-TTTTCCTAGCGGTGTAGTGG
129 ACTTCCCCGA-CATTGCAATTC
** *
16901747 AGCAGATTGAAGCTACAACAGCGGATCTTACTTCCCTGACATTGCAGTTAAAAAGATTGAAGCTA
1 AAAAGATTGAAGCTACAACAGCGAATCTTACTTCCCTGACATTGCAGTTAAAAAGATTGAAGCTA
* *
16901812 CAACAGCGGATCTTACTTCCCAGGCGATGCAATGGAATAGATTGAAGCTACAACGGCGAATCTCA
66 CAACAGCGGATCTTACTTCCCAGGCGATGCAAT-GAATAGATTGAAGCTATAACGGTGAATCTCA
*
16901877 CTTCCCCGACATTGCAATTT
130 CTTCCCCGACATTGCAATTC
* * * * ** * * * *
16901897 AAAAGATTGAAGCTACAACGGCAAATCTTATTTCCCAGGTAGTGCAG-CAGAACAGATTGAAGCC
1 AAAAGATTGAAGCTACAACAGCGAATCTTACTTCCCTGACATTGCAGTTA-AAAAGATTGAAGCT
** * * * *
16901961 ACAATGGCGAATCTTACTTCTCAGGTGATGCAGCA-GAATAGATTGAAGCTATGACGGTGAATCT
65 ACAACAGCGGATCTTACTTCCCAGGCGATGCA--ATGAATAGATTGAAGCTATAACGGTGAATCT
* *
16902025 CGCTTCCCCGACATTGCAACTC
128 CACTTCCCCGACATTGCAATTC
* * *
16902047 AAAAGATTGAAGCCACAATAGAGAATCTTACTTCCC
1 AAAAGATTGAAGCTACAACAGCGAATCTTACTTCCC
16902083 AGGCAATGCA
Statistics
Matches: 276, Mismatches: 54, Indels: 12
0.81 0.16 0.04
Matches are distributed among these distances:
149 1 0.00
150 266 0.96
151 8 0.03
152 1 0.00
ACGTcount: A:0.33, C:0.21, G:0.20, T:0.26
Consensus pattern (149 bp):
AAAAGATTGAAGCTACAACAGCGAATCTTACTTCCCTGACATTGCAGTTAAAAAGATTGAAGCTA
CAACAGCGGATCTTACTTCCCAGGCGATGCAATGAATAGATTGAAGCTATAACGGTGAATCTCAC
TTCCCCGACATTGCAATTC
Found at i:16902083 original size:150 final size:150
Alignment explanation
Indices: 16901750--16902181 Score: 422
Period size: 150 Copynumber: 2.9 Consensus size: 150
16901740 GTAGTGGAGC
* ** * * * * * *
16901750 AGATTGAAGCTACAACAGCGGATCTTACTTCCCTGACATTGCAGTTA-AAAAGATTGAAGCTACA
1 AGATTGAAGCCACAACAGCAAATCTTACTTCCCAGGCAATGCAG-CAGAACAGATTGAAGCCACA
* **
16901814 ACAGCGGATCTTACTTCCCAGGCGATGCAATGGAATAGATTGAAGCTACAACGGCGAATCTCACT
65 ACAGCGAATCTTACTTCCCAGGCGATGCAACAGAATAGATTGAAGCTACAACGGCGAATCTCACT
* *
16901879 TCCCCGACATTGCAATTTAAA
130 TCCCCGACATTGCAACTCAAA
* * * * *
16901900 AGATTGAAGCTACAACGGCAAATCTTATTTCCCAGGTAGTGCAGCAGAACAGATTGAAGCCACAA
1 AGATTGAAGCCACAACAGCAAATCTTACTTCCCAGGCAATGCAGCAGAACAGATTGAAGCCACAA
** * * * ** * *
16901965 TGGCGAATCTTACTTCTCAGGTGATGCAGCAGAATAGATTGAAGCTATGACGGTGAATCTCGCTT
66 CAGCGAATCTTACTTCCCAGGCGATGCAACAGAATAGATTGAAGCTACAACGGCGAATCTCACTT
16902030 CCCCGACATTGCAACTCAAA
131 CCCCGACATTGCAACTCAAA
* * * * *
16902050 AGATTGAAGCCACAATAG-AGAATCTTACTTCCCAGGCAATGCAGCGGAACAGATTAAAGCTACG
1 AGATTGAAGCCACAACAGCA-AATCTTACTTCCCAGGCAATGCAGCAGAACAGATTGAAGCCACA
* *** * * * * *
16902114 ACAGTGAATCTCGTTTCCCTGAC-ATTGCAAGTA-AATAGATTAAAGCTACAACGGCGAATCTTA
65 ACAGCGAATCTTACTTCCCAGGCGA-TGCAA-CAGAATAGATTGAAGCTACAACGGCGAATCTCA
16902177 CTTCC
128 CTTCC
16902182 TGAAATTGCA
Statistics
Matches: 225, Mismatches: 53, Indels: 8
0.79 0.19 0.03
Matches are distributed among these distances:
149 3 0.01
150 221 0.98
151 1 0.00
ACGTcount: A:0.33, C:0.23, G:0.20, T:0.24
Consensus pattern (150 bp):
AGATTGAAGCCACAACAGCAAATCTTACTTCCCAGGCAATGCAGCAGAACAGATTGAAGCCACAA
CAGCGAATCTTACTTCCCAGGCGATGCAACAGAATAGATTGAAGCTACAACGGCGAATCTCACTT
CCCCGACATTGCAACTCAAA
Found at i:16902472 original size:44 final size:44
Alignment explanation
Indices: 16902404--16902519 Score: 135
Period size: 44 Copynumber: 2.6 Consensus size: 44
16902394 CCACAAAGAG
* * *
16902404 TCACAAATTCTATCTCCCTAAAGTTGCAATGGAGCGGATTAAAA
1 TCACAAATCCTATCTCCCTGAAGTTGCAATGGAGCAGATTAAAA
* *
16902448 TCACAAATCCTATCTCCCTGAAGTTGTAGTGGAGCAGATTAAAA
1 TCACAAATCCTATCTCCCTGAAGTTGCAATGGAGCAGATTAAAA
* ** *
16902492 TGATGAATCCTATACT-TCTGAAGTTGCA
1 TCACAAATCCTAT-CTCCCTGAAGTTGCA
16902520 GTAGGTCGGA
Statistics
Matches: 61, Mismatches: 10, Indels: 2
0.84 0.14 0.03
Matches are distributed among these distances:
44 59 0.97
45 2 0.03
ACGTcount: A:0.34, C:0.20, G:0.17, T:0.29
Consensus pattern (44 bp):
TCACAAATCCTATCTCCCTGAAGTTGCAATGGAGCAGATTAAAA
Found at i:16904520 original size:14 final size:16
Alignment explanation
Indices: 16904483--16904523 Score: 64
Period size: 16 Copynumber: 2.6 Consensus size: 16
16904473 TACTCTTTAA
16904483 TTTATATATACATACT
1 TTTATATATACATACT
**
16904499 TTTATATATACATGTT
1 TTTATATATACATACT
16904515 TTTATATAT
1 TTTATATAT
16904524 TTCCATTATT
Statistics
Matches: 23, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
16 23 1.00
ACGTcount: A:0.34, C:0.07, G:0.02, T:0.56
Consensus pattern (16 bp):
TTTATATATACATACT
Found at i:16908604 original size:114 final size:113
Alignment explanation
Indices: 16908404--16908719 Score: 524
Period size: 114 Copynumber: 2.8 Consensus size: 113
16908394 NNNNNTTTTT
* * *
16908404 GCGGCGCTTTTCCAAAAACGCCGCTAAAGCCCTAAAAGGTCAAAAAACGATATCATTGGGCTTAG
1 GCGGCGCTTTT-TAAAAACGCCGCTAAAGCCCTGAAAGGTCAAAAAACGATGTCATTGGGCTTAG
*
16908469 GATTTTTGCGGCGCTTTTCCAAAAAACACCGCTAAAGCTCTGAGCATTA
65 GTTTTTTGCGGCGCTTTTCCAAAAAACACCGCTAAAGCTCTGAGCATTA
*
16908518 GCGGCGCTATTTTAAAAACGCCGCTAAAGCCCTGAAAGGTCAAAAAAAGATGTCATTGGGCTTAG
1 GCGGCGCT-TTTTAAAAACGCCGCTAAAGCCCTGAAAGGTCAAAAAACGATGTCATTGGGCTTAG
* * *
16908583 GTTTTTTACGGTGCTTTTCCAAAAAACGCCGCTAAAGCTCTGAGCATTA
65 GTTTTTTGCGGCGCTTTTCCAAAAAACACCGCTAAAGCTCTGAGCATTA
*
16908632 GCGGCGCTTTTTCAAAAACGCCGCTAAAGCCCTGAAAGGTCAAAAAACGATGTCGTTGGGCTTAG
1 GCGGCGCTTTTT-AAAAACGCCGCTAAAGCCCTGAAAGGTCAAAAAACGATGTCATTGGGCTTAG
16908697 GTTTTTTGCGGCGCTTTTCCAAA
65 GTTTTTTGCGGCGCTTTTCCAAA
16908720 GCCCTGAAAG
Statistics
Matches: 188, Mismatches: 12, Indels: 4
0.92 0.06 0.02
Matches are distributed among these distances:
113 4 0.02
114 181 0.96
115 3 0.02
ACGTcount: A:0.29, C:0.23, G:0.22, T:0.26
Consensus pattern (113 bp):
GCGGCGCTTTTTAAAAACGCCGCTAAAGCCCTGAAAGGTCAAAAAACGATGTCATTGGGCTTAGG
TTTTTTGCGGCGCTTTTCCAAAAAACACCGCTAAAGCTCTGAGCATTA
Found at i:16908745 original size:59 final size:60
Alignment explanation
Indices: 16908657--16908778 Score: 228
Period size: 59 Copynumber: 2.0 Consensus size: 60
16908647 AAACGCCGCT
*
16908657 AAAGCCCTGAAAGGTCAAAAAACGATGTCGTTGGGCTTAGGTTTTTTGCGGCGCTTTTCC
1 AAAGCCCTGAAAGGTCAAAAAACGATGTCGTTGGGCTTAGGATTTTTGCGGCGCTTTTCC
16908717 AAAGCCCTGAAAGGT-AAAAAACGATGTCGTTGGGCTTAGGATTTTTGCGGCGCTTTTCC
1 AAAGCCCTGAAAGGTCAAAAAACGATGTCGTTGGGCTTAGGATTTTTGCGGCGCTTTTCC
16908776 AAA
1 AAA
16908779 AAACGCCGCT
Statistics
Matches: 61, Mismatches: 1, Indels: 1
0.97 0.02 0.02
Matches are distributed among these distances:
59 46 0.75
60 15 0.25
ACGTcount: A:0.26, C:0.19, G:0.26, T:0.29
Consensus pattern (60 bp):
AAAGCCCTGAAAGGTCAAAAAACGATGTCGTTGGGCTTAGGATTTTTGCGGCGCTTTTCC
Found at i:16908862 original size:173 final size:173
Alignment explanation
Indices: 16908543--16908887 Score: 566
Period size: 173 Copynumber: 2.0 Consensus size: 173
16908533 AAACGCCGCT
* *
16908543 AAAGCCCTGAAAGGTCAAAAAAAGATGTCATTGGGCTTAGGTTTTTTACGGTGCTTTTCCAAAAA
1 AAAGCCCTGAAAGGTCAAAAAAAGATGTCATTGGGCTTAGGATTTTTACGGCGCTTTTCCAAAAA
* * *
16908608 ACGCCGCTAAAGCTCTGAGCATTAGCGGCGCTTTTTCAAAAACGCCGCTAAAGCCCTGAAAGGTC
66 ACGCCGCTAAAGCTCTAAGCATTAGCGGCACTTTTTCAAAAACGCCGCTAAAGCACTGAAAGGTC
*
16908673 AAAAAACGATGTCGTTGGGCTTAGGTTTTTTGCGGCGCTTTTCC
131 AAAAAACGATGTCGTTGAGCTTA-GTTTTTTGCGGCGCTTTTCC
* * *
16908717 AAAGCCCTGAAAGGT-AAAAAACGATGTCGTTGGGCTTAGGATTTTTGCGGCGCTTTTCCAAAAA
1 AAAGCCCTGAAAGGTCAAAAAAAGATGTCATTGGGCTTAGGATTTTTACGGCGCTTTTCCAAAAA
16908781 ACGCCGCTAAAGCTCTAAGCATTAGCGGCACTTTTTCAAAAACGCCGCTAAAGCACTGAAAGGTC
66 ACGCCGCTAAAGCTCTAAGCATTAGCGGCACTTTTTCAAAAACGCCGCTAAAGCACTGAAAGGTC
* **
16908846 AAAAAATGATGTCGTTGAGCTTAGTTTTTTGCGTTGCTTTTC
131 AAAAAACGATGTCGTTGAGCTTAGTTTTTTGCGGCGCTTTTC
16908888 TAAAAAACGC
Statistics
Matches: 159, Mismatches: 12, Indels: 2
0.92 0.07 0.01
Matches are distributed among these distances:
172 17 0.11
173 127 0.80
174 15 0.09
ACGTcount: A:0.28, C:0.21, G:0.23, T:0.28
Consensus pattern (173 bp):
AAAGCCCTGAAAGGTCAAAAAAAGATGTCATTGGGCTTAGGATTTTTACGGCGCTTTTCCAAAAA
ACGCCGCTAAAGCTCTAAGCATTAGCGGCACTTTTTCAAAAACGCCGCTAAAGCACTGAAAGGTC
AAAAAACGATGTCGTTGAGCTTAGTTTTTTGCGGCGCTTTTCC
Found at i:16908897 original size:113 final size:113
Alignment explanation
Indices: 16908717--16909018 Score: 428
Period size: 113 Copynumber: 2.7 Consensus size: 113
16908707 GCGCTTTTCC
* *
16908717 AAAGCCCTGAAAGGT-AAAAAACGATGTCGTTGGGCTTAGGATTTTTGCGGCGCTTTTCCAAAAA
1 AAAGCCCTGAAAGGTCAAAAAACGATGTCGTT-GGCTTAGGTTTTTTGCGGCGCTTTTCTAAAAA
*
16908781 ACGCCGCTAAAGCTCTAAGCATTAGCGGCACTTTTTCAAAAACGCCGCT
65 ACGCCGCTAAAGCTCTAAGCATTAGCGGCACTTTTTCAAAAACACCGCT
* * **
16908830 AAAGCACTGAAAGGTCAAAAAATGATGTCGTTGAGCTTA-GTTTTTTGCGTTGCTTTTCTAAAAA
1 AAAGCCCTGAAAGGTCAAAAAACGATGTCGTTG-GCTTAGGTTTTTTGCGGCGCTTTTCTAAAAA
* **
16908894 ACGCCGCTAAAGCTCTGAGCATTAGCGGCGTTTTTTCAAAAACACCGCT
65 ACGCCGCTAAAGCTCTAAGCATTAGCGGCACTTTTTCAAAAACACCGCT
* *
16908943 AAAGCCCTAAAAGGTCAAAAAAACGATGTCGTTGGACTTAGGTTTTTTGCGGCGCTTTTTTAAAA
1 AAAGCCCTGAAAGGTC-AAAAAACGATGTCGTTGG-CTTAGGTTTTTTGCGGCGCTTTTCTAAAA
**
16909008 AATACCGCTAA
64 AACGCCGCTAA
16909019 TACTATTCTT
Statistics
Matches: 166, Mismatches: 18, Indels: 8
0.86 0.09 0.04
Matches are distributed among these distances:
113 96 0.58
114 40 0.24
115 30 0.18
ACGTcount: A:0.31, C:0.20, G:0.21, T:0.28
Consensus pattern (113 bp):
AAAGCCCTGAAAGGTCAAAAAACGATGTCGTTGGCTTAGGTTTTTTGCGGCGCTTTTCTAAAAAA
CGCCGCTAAAGCTCTAAGCATTAGCGGCACTTTTTCAAAAACACCGCT
Found at i:16908966 original size:287 final size:288
Alignment explanation
Indices: 16908429--16909001 Score: 954
Period size: 287 Copynumber: 2.0 Consensus size: 288
16908419 AAACGCCGCT
16908429 AAAGCCCTAAAAGGTCAAAAAACGATATCATTGGGCTTAGGATTTTTGCGGCGCTTTTCCAAAAA
1 AAAGCCCTAAAAGGTCAAAAAACGATATCATTGGGCTTAGGATTTTTGCGGCGCTTTTCCAAAAA
* * *
16908494 ACACCGCTAAAGCTCTGAGCATTAGCGGCGCTATTTTAAAAACGCCGCTAAAGCCCTGAAAGGTC
66 ACACCGCTAAAGCTCTAAGCATTAGCGGCACTATTTTAAAAACGCCGCTAAAGCACTGAAAGGTC
*
16908559 AAAAAAAGATGTCATTGGGCTTAGGTTTTTTACGGTGCTTTTCCAAAAAACGCCGCTAAAGCTCT
131 AAAAAAAGATGTCATTGAGCTTAGGTTTTTTACGGTGCTTTTCCAAAAAACGCCGCTAAAGCTCT
* *
16908624 GAGCATTAGCGGCGCTTTTTCAAAAACGCCGCTAAAGCCCTGAAAGGTCAAAAAACGATGTCGTT
196 GAGCATTAGCGGCGCTTTTTCAAAAACACCGCTAAAGCCCTAAAAGGTCAAAAAACGATGTCGTT
*
16908689 GGGCTTAGGTTTTTTGCGGCGCTTTTCC
261 GGACTTAGGTTTTTTGCGGCGCTTTTCC
* * *
16908717 AAAGCCCTGAAAGGT-AAAAAACGATGTCGTTGGGCTTAGGATTTTTGCGGCGCTTTTCCAAAAA
1 AAAGCCCTAAAAGGTCAAAAAACGATATCATTGGGCTTAGGATTTTTGCGGCGCTTTTCCAAAAA
*
16908781 ACGCCGCTAAAGCTCTAAGCATTAGCGGCACT-TTTTCAAAAACGCCGCTAAAGCACTGAAAGGT
66 ACACCGCTAAAGCTCTAAGCATTAGCGGCACTATTTT-AAAAACGCCGCTAAAGCACTGAAAGGT
* * * * *
16908845 CAAAAAATGATGTCGTTGAGCTTA-GTTTTTTGCGTTGCTTTTCTAAAAAACGCCGCTAAAGCTC
130 CAAAAAAAGATGTCATTGAGCTTAGGTTTTTTACGGTGCTTTTCCAAAAAACGCCGCTAAAGCTC
*
16908909 TGAGCATTAGCGGCGTTTTTTCAAAAACACCGCTAAAGCCCTAAAAGGTCAAAAAAACGATGTCG
195 TGAGCATTAGCGGCGCTTTTTCAAAAACACCGCTAAAGCCCTAAAAGGTC-AAAAAACGATGTCG
16908974 TTGGACTTAGGTTTTTTGCGGCGCTTTT
259 TTGGACTTAGGTTTTTTGCGGCGCTTTT
16909002 TTAAAAAATA
Statistics
Matches: 266, Mismatches: 17, Indels: 5
0.92 0.06 0.02
Matches are distributed among these distances:
286 88 0.33
287 164 0.62
288 14 0.05
ACGTcount: A:0.30, C:0.21, G:0.22, T:0.27
Consensus pattern (288 bp):
AAAGCCCTAAAAGGTCAAAAAACGATATCATTGGGCTTAGGATTTTTGCGGCGCTTTTCCAAAAA
ACACCGCTAAAGCTCTAAGCATTAGCGGCACTATTTTAAAAACGCCGCTAAAGCACTGAAAGGTC
AAAAAAAGATGTCATTGAGCTTAGGTTTTTTACGGTGCTTTTCCAAAAAACGCCGCTAAAGCTCT
GAGCATTAGCGGCGCTTTTTCAAAAACACCGCTAAAGCCCTAAAAGGTCAAAAAACGATGTCGTT
GGACTTAGGTTTTTTGCGGCGCTTTTCC
Found at i:16909121 original size:40 final size:40
Alignment explanation
Indices: 16909025--16909122 Score: 117
Period size: 40 Copynumber: 2.5 Consensus size: 40
16909015 CTAATACTAT
* ***
16909025 TCTTTAGTGGCATTTTCCAAAAAGCGCCGCTAATGCTCGA
1 TCTTTAGCGGCATTTTTTGAAAAGCGCCGCTAATGCTCGA
** *
16909065 TCTTTAGCGGTGTTTTTTGAAAAGCGCCGCTAATGCTTGA
1 TCTTTAGCGGCATTTTTTGAAAAGCGCCGCTAATGCTCGA
16909105 T-TTTCAGCGGCATTTTTT
1 TCTTT-AGCGGCATTTTTT
16909123 ATCCAAACGC
Statistics
Matches: 48, Mismatches: 9, Indels: 2
0.81 0.15 0.03
Matches are distributed among these distances:
39 3 0.06
40 45 0.94
ACGTcount: A:0.20, C:0.20, G:0.21, T:0.38
Consensus pattern (40 bp):
TCTTTAGCGGCATTTTTTGAAAAGCGCCGCTAATGCTCGA
Found at i:16929426 original size:3 final size:3
Alignment explanation
Indices: 16929418--16929443 Score: 52
Period size: 3 Copynumber: 8.7 Consensus size: 3
16929408 CTCTCTCATC
16929418 GAA GAA GAA GAA GAA GAA GAA GAA GA
1 GAA GAA GAA GAA GAA GAA GAA GAA GA
16929444 TCTCGAGTAT
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 23 1.00
ACGTcount: A:0.65, C:0.00, G:0.35, T:0.00
Consensus pattern (3 bp):
GAA
Found at i:16940172 original size:102 final size:102
Alignment explanation
Indices: 16940037--16940227 Score: 373
Period size: 102 Copynumber: 1.9 Consensus size: 102
16940027 TATAAAAAAT
16940037 TTACATTAATAAAAAATCACAAAAAACTAAACTAAACACTAACAAGTTATATAACATAATCATAA
1 TTACATTAATAAAAAATCACAAAAAACTAAACTAAACACTAACAAGTTATATAACATAATCATAA
16940102 ATTACTAACAAAATAACTATAAAATTATTTTTTTAAA
66 ATTACTAACAAAATAACTATAAAATTATTTTTTTAAA
*
16940139 TTACATTACTAAAAAATCACAAAAAACTAAACTAAACACTAACAAGTTATATAACATAATCATAA
1 TTACATTAATAAAAAATCACAAAAAACTAAACTAAACACTAACAAGTTATATAACATAATCATAA
16940204 ATTACTAACAAAATAACTATAAAA
66 ATTACTAACAAAATAACTATAAAA
16940228 ATATATACAT
Statistics
Matches: 88, Mismatches: 1, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
102 88 1.00
ACGTcount: A:0.57, C:0.14, G:0.01, T:0.28
Consensus pattern (102 bp):
TTACATTAATAAAAAATCACAAAAAACTAAACTAAACACTAACAAGTTATATAACATAATCATAA
ATTACTAACAAAATAACTATAAAATTATTTTTTTAAA
Found at i:16940266 original size:63 final size:64
Alignment explanation
Indices: 16940191--16940341 Score: 202
Period size: 63 Copynumber: 2.4 Consensus size: 64
16940181 CAAGTTATAT
* *
16940191 AACA-TAATCATAAATTACTAACAAAATAACTATA-AAAAT-ATATACATTACTAAAAAATCACA
1 AACACTAA-CATAAATTACTAACAAAATAACTA-ACAAAATAATATACATCAATAAAAAATCACA
16940253 A
64 A
* *
16940254 AACACTAACATAAATTACTAACAAAATAATTAACAAAATAAATTTACATCAATAAAAAATCACAA
1 AACACTAACATAAATTACTAACAAAATAACTAACAAAAT-AATATACATCAATAAAAAATCACAA
*
16940319 AACACTAACA-AAATAACTAACAA
1 AACACTAACATAAATTACTAACAA
16940342 TTTATAACAA
Statistics
Matches: 79, Mismatches: 5, Indels: 7
0.87 0.05 0.08
Matches are distributed among these distances:
62 1 0.01
63 32 0.41
64 15 0.19
65 31 0.39
ACGTcount: A:0.62, C:0.16, G:0.00, T:0.23
Consensus pattern (64 bp):
AACACTAACATAAATTACTAACAAAATAACTAACAAAATAATATACATCAATAAAAAATCACAA
Found at i:16945348 original size:2 final size:2
Alignment explanation
Indices: 16945341--16945371 Score: 62
Period size: 2 Copynumber: 15.5 Consensus size: 2
16945331 TAATATACAA
16945341 AC AC AC AC AC AC AC AC AC AC AC AC AC AC AC A
1 AC AC AC AC AC AC AC AC AC AC AC AC AC AC AC A
16945372 TATATATATG
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:0.48, G:0.00, T:0.00
Consensus pattern (2 bp):
AC
Found at i:16945790 original size:223 final size:222
Alignment explanation
Indices: 16945386--16945830 Score: 881
Period size: 223 Copynumber: 2.0 Consensus size: 222
16945376 TATATGAACA
16945386 GGTTAACAAACTTCTATTAGCAAGTCTATCTTGTTTGAAATAAGGATATCTCTTCGGAGAACCAT
1 GGTTAACAAACTTCTATTAGCAAGTCTATCTTGTTTGAAATAAGGATATCTCTTCGGAGAACCAT
16945451 CACTGGATAATAAATCGCGCACTTGTTCGTTGTATATTTCAACCATTTGAACTTCTACTTCATAG
66 CACTGGATAATAAATCGCGCACTTGTTCGTTGTATATTTCAACCATTTGAACTTCTACTTCATAG
16945516 ACCATGTTGCTTTTTCTATCTTGAGAGACTTTGAAGAGATGGTTCAAAGCTAGATAATTAACACC
131 ACCATGTTGCTTTTTCTATCTTGAGAGACTTTGAAGAGATGGTTCAAAGCTAGATAATTAACACC
16945581 CCATTCCTCTTCAGTTGCCCCAGTAGG
196 CCATTCCTCTTCAGTTGCCCCAGTAGG
16945608 GGTTAACAAACTTCTATTTAGCAAGTCTATCTTGTTTGAAATAAGGATATCTCTTCGGAGAACCA
1 GGTTAACAAACTTCTA-TTAGCAAGTCTATCTTGTTTGAAATAAGGATATCTCTTCGGAGAACCA
16945673 TCACTGGATAATAAATCGCGCACTTGTTCGTTGTATATTTCAACCATTTGAACTTCTACTTCATA
65 TCACTGGATAATAAATCGCGCACTTGTTCGTTGTATATTTCAACCATTTGAACTTCTACTTCATA
16945738 GACCATGTTGCTTTTTCTATCTTGAGAGACTTTGAAGAGATGGTTCAAAGCTAGATAATTAACAC
130 GACCATGTTGCTTTTTCTATCTTGAGAGACTTTGAAGAGATGGTTCAAAGCTAGATAATTAACAC
16945803 CCCATTCCTCTTCAGTTGCCCCAGTAGG
195 CCCATTCCTCTTCAGTTGCCCCAGTAGG
16945831 ACCAGTCTGG
Statistics
Matches: 222, Mismatches: 0, Indels: 1
1.00 0.00 0.00
Matches are distributed among these distances:
222 16 0.07
223 206 0.93
ACGTcount: A:0.28, C:0.21, G:0.17, T:0.34
Consensus pattern (222 bp):
GGTTAACAAACTTCTATTAGCAAGTCTATCTTGTTTGAAATAAGGATATCTCTTCGGAGAACCAT
CACTGGATAATAAATCGCGCACTTGTTCGTTGTATATTTCAACCATTTGAACTTCTACTTCATAG
ACCATGTTGCTTTTTCTATCTTGAGAGACTTTGAAGAGATGGTTCAAAGCTAGATAATTAACACC
CCATTCCTCTTCAGTTGCCCCAGTAGG
Found at i:16952917 original size:25 final size:25
Alignment explanation
Indices: 16952886--16952959 Score: 76
Period size: 26 Copynumber: 2.9 Consensus size: 25
16952876 ATGAGTTTTC
16952886 TCAAAATTTTATTGGGGTAAAATCG
1 TCAAAATTTTATTGGGGTAAAATCG
** ** *
16952911 TTTAAATTTTATCAAGGGTAAAATTG
1 TCAAAATTTTAT-TGGGGTAAAATCG
* *
16952937 TCAAAATTTTGTTGGAGTAAAAT
1 TCAAAATTTTATTGGGGTAAAAT
16952960 TGGGATGAGA
Statistics
Matches: 37, Mismatches: 11, Indels: 2
0.74 0.22 0.04
Matches are distributed among these distances:
25 18 0.49
26 19 0.51
ACGTcount: A:0.38, C:0.05, G:0.18, T:0.39
Consensus pattern (25 bp):
TCAAAATTTTATTGGGGTAAAATCG
Found at i:16955027 original size:480 final size:481
Alignment explanation
Indices: 16954115--16955075 Score: 1915
Period size: 480 Copynumber: 2.0 Consensus size: 481
16954105 TACTCATCTC
16954115 TTTATATATCTATTTAATAATTATTTATGATATAATTGTGATATATATGTATGAGATGATCCACA
1 TTTATATATCTATTTAATAATTATTTATGATATAATTGTGATATATATGTATGAGATGATCCACA
16954180 ATTGATCTATTAAAGATATTGAGAAAATATCCGTGTTGTACTATTCCATTTACTTCTTTAGGTTA
66 ATTGATCTATTAAAGATATTGAGAAAATATCCGTGTTGTACTATTCCATTTACTTCTTTAGGTTA
16954245 TTCGATTATTGTGAGAAGTGTGGTAATGAGAAGGTGCATGTCTAAGATTAGGTTTGGCAAGGAAA
131 TTCGATTATTGTGAGAAGTGTGGTAATGAGAAGGTGCATGTCTAAGATTAGGTTTGGCAAGGAAA
16954310 GACTTGGTTTTTAAGTGGTCAAATATGACTTACCTCCCTTTCCCAGGAACCTGCCTGATGCACGA
196 GACTTGGTTTTTAAGTGGTCAAATATGACTTACCTCCCTTTCCCAGGAACCTGCCTGATGCACGA
16954375 ATCACATTCACTTCTTCAATTTTTCCTTTAAAAAATTGTGGAAAATCAAAATTGTTTGATTGACT
261 ATCACATTCACTTCTTCAATTTTTCCTTTAAAAAATTGTGGAAAATCAAAATTGTTTGATTGACT
16954440 CTTGTGTATGAATGAATGTGAATATTATAAAATTTCCAAAGCATGTCATACATACATGAGATAAG
326 CTTGTGTATGAATGAATGTGAATATTATAAAATTTCCAAAGCATGTCATACATACATGAGATAAG
16954505 CATGCAATATAGTTTAGGAAAGAATGTCATATGTACTTTTCATGCATATATTGATCATACATGAT
391 CATGCAATATAGTTTAGGAAAGAATGTCATATGTACTTTTCATGCATATATTGATCATACATGAT
16954570 TTAAACTAGGAATTAAAAACCTTGCA
456 TTAAACTAGGAATTAAAAACCTTGCA
16954596 TTTATATATC-ATTTAATAATTATTTATGATATAATTGTGATATATATGTATGAGATGATCCACA
1 TTTATATATCTATTTAATAATTATTTATGATATAATTGTGATATATATGTATGAGATGATCCACA
16954660 ATTGATCTATTAAAGATATTGAGAAAATATCCGTGTTGTACTATTCCATTTACTTCTTTAGGTTA
66 ATTGATCTATTAAAGATATTGAGAAAATATCCGTGTTGTACTATTCCATTTACTTCTTTAGGTTA
16954725 TTCGATTATTGTGAGAAGTGTGGTAATGAGAAGGTGCATGTCTAAGATTAGGTTTGGCAAGGAAA
131 TTCGATTATTGTGAGAAGTGTGGTAATGAGAAGGTGCATGTCTAAGATTAGGTTTGGCAAGGAAA
16954790 GACTTGGTTTTTAAGTGGTCAAATATGACTTACCTCCCTTTCCCAGGAACCTGCCTGATGCACGA
196 GACTTGGTTTTTAAGTGGTCAAATATGACTTACCTCCCTTTCCCAGGAACCTGCCTGATGCACGA
16954855 ATCACATTCACTTCTTCAATTTTTCCTTTAAAAAATTGTGGAAAATCAAAATTGTTTGATTGACT
261 ATCACATTCACTTCTTCAATTTTTCCTTTAAAAAATTGTGGAAAATCAAAATTGTTTGATTGACT
16954920 CTTGTGTATGAATGAATGTGAATATTATAAAATTTCCAAAGCATGTCATACATACATGAGATAAG
326 CTTGTGTATGAATGAATGTGAATATTATAAAATTTCCAAAGCATGTCATACATACATGAGATAAG
16954985 CATGCAATATAGTTTAGGAAAGAATGTCATATGTACTTTTCATGCATATATTGATCATACATGAT
391 CATGCAATATAGTTTAGGAAAGAATGTCATATGTACTTTTCATGCATATATTGATCATACATGAT
16955050 TTAAACTAGGAATTAAAAACCTTGCA
456 TTAAACTAGGAATTAAAAACCTTGCA
16955076 CGTTTAAAAT
Statistics
Matches: 480, Mismatches: 0, Indels: 1
1.00 0.00 0.00
Matches are distributed among these distances:
480 470 0.98
481 10 0.02
ACGTcount: A:0.34, C:0.13, G:0.17, T:0.37
Consensus pattern (481 bp):
TTTATATATCTATTTAATAATTATTTATGATATAATTGTGATATATATGTATGAGATGATCCACA
ATTGATCTATTAAAGATATTGAGAAAATATCCGTGTTGTACTATTCCATTTACTTCTTTAGGTTA
TTCGATTATTGTGAGAAGTGTGGTAATGAGAAGGTGCATGTCTAAGATTAGGTTTGGCAAGGAAA
GACTTGGTTTTTAAGTGGTCAAATATGACTTACCTCCCTTTCCCAGGAACCTGCCTGATGCACGA
ATCACATTCACTTCTTCAATTTTTCCTTTAAAAAATTGTGGAAAATCAAAATTGTTTGATTGACT
CTTGTGTATGAATGAATGTGAATATTATAAAATTTCCAAAGCATGTCATACATACATGAGATAAG
CATGCAATATAGTTTAGGAAAGAATGTCATATGTACTTTTCATGCATATATTGATCATACATGAT
TTAAACTAGGAATTAAAAACCTTGCA
Found at i:16955444 original size:31 final size:31
Alignment explanation
Indices: 16955409--16955470 Score: 124
Period size: 31 Copynumber: 2.0 Consensus size: 31
16955399 TACACCCAAG
16955409 ATCTTCTAATTAAGTAACTCCCCACAAAACT
1 ATCTTCTAATTAAGTAACTCCCCACAAAACT
16955440 ATCTTCTAATTAAGTAACTCCCCACAAAACT
1 ATCTTCTAATTAAGTAACTCCCCACAAAACT
16955471 CTACATAAAT
Statistics
Matches: 31, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
31 31 1.00
ACGTcount: A:0.39, C:0.29, G:0.03, T:0.29
Consensus pattern (31 bp):
ATCTTCTAATTAAGTAACTCCCCACAAAACT
Found at i:16955482 original size:31 final size:30
Alignment explanation
Indices: 16955409--16955483 Score: 98
Period size: 31 Copynumber: 2.4 Consensus size: 30
16955399 TACACCCAAG
*
16955409 ATCTTCTAATTAAGTAACTCCCCACAAAAC
1 ATCTACTAATTAAGTAACTCCCCACAAAAC
*
16955439 TATCTTCTAATTAAGTAACTCCCCACAAAAC
1 -ATCTACTAATTAAGTAACTCCCCACAAAAC
16955470 -TCTACATAAATTAA
1 ATCTAC-T-AATTAA
16955484 AACCTTGAAA
Statistics
Matches: 41, Mismatches: 1, Indels: 4
0.89 0.02 0.09
Matches are distributed among these distances:
29 4 0.10
30 1 0.02
31 36 0.88
ACGTcount: A:0.41, C:0.27, G:0.03, T:0.29
Consensus pattern (30 bp):
ATCTACTAATTAAGTAACTCCCCACAAAAC
Found at i:16957136 original size:131 final size:131
Alignment explanation
Indices: 16956888--16957200 Score: 374
Period size: 131 Copynumber: 2.4 Consensus size: 131
16956878 AGTGATTAAG
* * * * * * *
16956888 AAATCAACTAACACAGATGAGATTGTTCATGATATTAAACCGAATGAACTTAGGCTGCAATCTTA
1 AAATCAACTAACTCAAATAAAATTATTCATGATATTAAATCGAATGAACTTAGGCTACAATCTTA
* ** * * * * *
16956953 AATTAGTGAGTCGTTAATGATATCAGATGTGATATTGAATAACTAGCAATTTAGATTAGCGATAG
66 AATTAGTGAGCCGTTAACAATATCAGATGCGATATTAAATAACGAGCAATTTAAAGTAGCGATAG
16957018 T
131 T
*** * * *
16957019 AAATTGGCTAACTCAAATAAAATTATTCATGATATTGAATCGAATGAGCTTAGGCTACAGTCTTA
1 AAATCAACTAACTCAAATAAAATTATTCATGATATTAAATCGAATGAACTTAGGCTACAATCTTA
* * * *
16957084 AATTAGTGAGCCGTTAACAATATTAGTTGCGATCTTAAATAACGAGCTATTTAAAGTAGCGATAG
66 AATTAGTGAGCCGTTAACAATATCAGATGCGATATTAAATAACGAGCAATTTAAAGTAGCGATAG
16957149 T
131 T
* * *
16957150 AAATCAACTAACTCAAATAAAATTGTTCATGATGTTAAATCGAATGTACTT
1 AAATCAACTAACTCAAATAAAATTATTCATGATATTAAATCGAATGAACTT
16957201 GGACTGCGAT
Statistics
Matches: 149, Mismatches: 33, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
131 149 1.00
ACGTcount: A:0.39, C:0.13, G:0.17, T:0.32
Consensus pattern (131 bp):
AAATCAACTAACTCAAATAAAATTATTCATGATATTAAATCGAATGAACTTAGGCTACAATCTTA
AATTAGTGAGCCGTTAACAATATCAGATGCGATATTAAATAACGAGCAATTTAAAGTAGCGATAG
T
Found at i:16957277 original size:95 final size:95
Alignment explanation
Indices: 16957141--16957738 Score: 689
Period size: 95 Copynumber: 6.4 Consensus size: 95
16957131 TATTTAAAGT
* * *
16957141 AGCGATAGTAAATCAACTAACTCAAATAAAATTGTTCATGATGTTAAATCGAATGTACTT-GGAC
1 AGCGATATTAAATCAGCTAACTCAAATAAAATTGTTCATGATGTTAAATCGAATGAACTTAGG-C
* * * * *
16957205 TGCGATATTAAATTAGCAAGCCATTTGGAGC
65 TACGATCTTAAATCAGCGAGCCGTTTGGAGC
* * * ** * *
16957236 AACAATATTAAATCGGCTAACTCGGATAAAATTGTTGATGATGTTAAATTGAATGAACTTAGGCT
1 AGCGATATTAAATCAGCTAACTCAAATAAAATTGTTCATGATGTTAAATCGAATGAACTTAGGCT
* *
16957301 ATGATCTTAAATCAGCGAGCTGTTTGGAGC
66 ACGATCTTAAATCAGCGAGCCGTTTGGAGC
* * * * *
16957331 AGTGATATTAAATTAGCTAACTCAAATAAAATTGTTTATGATGTTAAATCGAATGAATTTAAGCT
1 AGCGATATTAAATCAGCTAACTCAAATAAAATTGTTCATGATGTTAAATCGAATGAACTTAGGCT
* * * *
16957396 GCGATCTTAAACCACCGAGCCATTTGGAGC
66 ACGATCTTAAATCAGCGAGCCGTTTGGAGC
* * * * * *
16957426 GGCGATATTAAATCACCTAACTTAGATAAAAATGTTCATGATGTTAAATCGAGTGAACTTAGGCT
1 AGCGATATTAAATCAGCTAACTCAAATAAAATTGTTCATGATGTTAAATCGAATGAACTTAGGCT
16957491 ACGATCTTAAATCAGCGAGCCGTTTGGAGC
66 ACGATCTTAAATCAGCGAGCCGTTTGGAGC
* * *
16957521 TGTGATATTAAATTAGCTAACTCAAATAAAA-TGTTCATGATGTTAAATCGAATGAACTTAGGCT
1 AGCGATATTAAATCAGCTAACTCAAATAAAATTGTTCATGATGTTAAATCGAATGAACTTAGGCT
* *
16957585 ACAATCTTAAATCAACGAGCCGTTTGGAGC
66 ACGATCTTAAATCAGCGAGCCGTTTGGAGC
* * * * * *
16957615 TGCGATATTAAATCATCTAACTTAGATAAAATTGTTCATGATATTAAACCGAATG-----A----
1 AGCGATATTAAATCAGCTAACTCAAATAAAATTGTTCATGATGTTAAATCGAATGAACTTAGGCT
*
16957671 A-GATCTTAAATCAGCGAGCCGTTTGGAGT
66 ACGATCTTAAATCAGCGAGCCGTTTGGAGC
* *
16957700 AGCGATATTAAATCAACTAACTCAAATAAAGTTGTTCAT
1 AGCGATATTAAATCAGCTAACTCAAATAAAATTGTTCAT
16957739 AATAGATAAA
Statistics
Matches: 428, Mismatches: 73, Indels: 14
0.83 0.14 0.03
Matches are distributed among these distances:
85 59 0.14
86 1 0.00
90 1 0.00
94 86 0.20
95 279 0.65
96 2 0.00
ACGTcount: A:0.37, C:0.15, G:0.18, T:0.31
Consensus pattern (95 bp):
AGCGATATTAAATCAGCTAACTCAAATAAAATTGTTCATGATGTTAAATCGAATGAACTTAGGCT
ACGATCTTAAATCAGCGAGCCGTTTGGAGC
Found at i:16964594 original size:20 final size:20
Alignment explanation
Indices: 16964569--16964608 Score: 53
Period size: 20 Copynumber: 2.0 Consensus size: 20
16964559 TTGGAACTAG
* *
16964569 AAAATATTTTGTTAACATTA
1 AAAATAATTTATTAACATTA
*
16964589 AAAATAATTTATTAATATTA
1 AAAATAATTTATTAACATTA
16964609 TTATCTCTAA
Statistics
Matches: 17, Mismatches: 3, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
20 17 1.00
ACGTcount: A:0.50, C:0.03, G:0.03, T:0.45
Consensus pattern (20 bp):
AAAATAATTTATTAACATTA
Found at i:16968437 original size:15 final size:15
Alignment explanation
Indices: 16968417--16968492 Score: 66
Period size: 15 Copynumber: 4.9 Consensus size: 15
16968407 CAATGAAAAG
16968417 GATGAAAAGGTTATC
1 GATGAAAAGGTTATC
*
16968432 GATGAAAAGGTTGTC
1 GATGAAAAGGTTATC
16968447 GATAAGAAAA--TTATC
1 GAT--GAAAAGGTTATC
* *
16968462 GATTGAAAATGTTATT
1 GA-TGAAAAGGTTATC
*
16968478 GATTGAAAAGATTAT
1 GA-TGAAAAGGTTAT
16968493 TCAAATAATA
Statistics
Matches: 51, Mismatches: 5, Indels: 9
0.78 0.08 0.14
Matches are distributed among these distances:
14 5 0.10
15 23 0.45
16 18 0.35
17 5 0.10
ACGTcount: A:0.42, C:0.04, G:0.22, T:0.32
Consensus pattern (15 bp):
GATGAAAAGGTTATC
Found at i:16968492 original size:16 final size:17
Alignment explanation
Indices: 16968456--16968493 Score: 53
Period size: 16 Copynumber: 2.4 Consensus size: 17
16968446 CGATAAGAAA
*
16968456 ATTATCGATTGAAAATG
1 ATTATTGATTGAAAATG
16968473 -TTATTGATTGAAAA-G
1 ATTATTGATTGAAAATG
16968488 ATTATT
1 ATTATT
16968494 CAAATAATAT
Statistics
Matches: 19, Mismatches: 1, Indels: 3
0.83 0.04 0.13
Matches are distributed among these distances:
15 1 0.05
16 18 0.95
ACGTcount: A:0.39, C:0.03, G:0.16, T:0.42
Consensus pattern (17 bp):
ATTATTGATTGAAAATG
Found at i:16980962 original size:71 final size:70
Alignment explanation
Indices: 16980843--16981202 Score: 353
Period size: 71 Copynumber: 5.1 Consensus size: 70
16980833 GAAATGATTT
* * * ** *
16980843 CACACATATTTTTCGGTTGTACCAACCAATGCAGGG-AGCATTTATTGTCGGTTAGATCAACCAG
1 CACACATATTTTT-TGTTTTACTAACCAGCGCAGGGCA-CATTTATTGTCGGTTATATCAACCAG
16980907 TGCTGGG
64 TGCTGGG
* * * * * **
16980914 CACACATATTTGTTGGTTTTACTAATCAGCGTAGGGCGCACTTATTGTCGGTTATATTGACCAGT
1 CACACATATTT-TTTGTTTTACTAACCAGCGCAGGGCACATTTATTGTCGGTTATATCAACCAGT
16980979 GCTGGG
65 GCTGGG
* ** * *
16980985 CACACATATTTTTCTGTTTTACTGACCAGCGCAGGGCACATTTATTGTCAATTATATCGACCAGA
1 CACACATATTTTT-TGTTTTACTAACCAGCGCAGGGCACATTTATTGTCGGTTATATCAACCAGT
16981050 GCTGGG
65 GCTGGG
* * * * * *
16981056 CACACATATTTATTTATTTTACCAACCAGCGCAGGGCACATTTATTTTTGGTTATACCAACTAGT
1 CACACATATTT-TTTGTTTTACTAACCAGCGCAGGGCACATTTATTGTCGGTTATATCAACCAGT
16981121 GCTGGG
65 GCTGGG
* ** * * * ** *
16981127 CACACATATTTTTCAGTCCTACCAACTAGAGCAGGGCACATTTATTGTTAGTTATACCAACCAGT
1 CACACATATTTTT-TGTTTTACTAACCAGCGCAGGGCACATTTATTGTCGGTTATATCAACCAGT
*
16981192 GCTAGG
65 GCTGGG
16981198 CACAC
1 CACAC
16981203 TCATTATTGA
Statistics
Matches: 242, Mismatches: 42, Indels: 10
0.82 0.14 0.03
Matches are distributed among these distances:
70 4 0.02
71 234 0.97
72 4 0.02
ACGTcount: A:0.26, C:0.22, G:0.20, T:0.32
Consensus pattern (70 bp):
CACACATATTTTTTGTTTTACTAACCAGCGCAGGGCACATTTATTGTCGGTTATATCAACCAGTG
CTGGG
Found at i:16981101 original size:142 final size:142
Alignment explanation
Indices: 16980843--16981216 Score: 414
Period size: 142 Copynumber: 2.6 Consensus size: 142
16980833 GAAATGATTT
* * * *
16980843 CACACATATTTTTCGGTTGTACCAACCA-ATGCAGGG-AGCATTTATTGTCGGTTAGATCAACCA
1 CACACATATTTTTCAGTTCTACCAACCAGA-GCAGGGCA-CATTTATTGTCAGTTATATCAACCA
* * * * * * *
16980906 GTGCTGGGCACACATATTTGTTGGTTTTACTAATCAGCGTAGGGCGCACTTATTGTCGGTTATAT
64 GTGCTGGGCACACATATTTATTGATTTTACCAACCAGCGCAGGGCACACTTATTGTCGGTTATAC
**
16980971 TGACCAGTGCTGGG
129 CAACCAGTGCTGGG
* * ** * * * *
16980985 CACACATATTTTTCTGTTTTACTGACCAGCGCAGGGCACATTTATTGTCAATTATATCGACCAGA
1 CACACATATTTTTCAGTTCTACCAACCAGAGCAGGGCACATTTATTGTCAGTTATATCAACCAGT
* * * *
16981050 GCTGGGCACACATATTTATTTATTTTACCAACCAGCGCAGGGCACATTTATTTTTGGTTATACCA
66 GCTGGGCACACATATTTATTGATTTTACCAACCAGCGCAGGGCACACTTATTGTCGGTTATACCA
*
16981115 ACTAGTGCTGGG
131 ACCAGTGCTGGG
* * * *
16981127 CACACATATTTTTCAGTCCTACCAACTAGAGCAGGGCACATTTATTGTTAGTTATACCAACCAGT
1 CACACATATTTTTCAGTTCTACCAACCAGAGCAGGGCACATTTATTGTCAGTTATATCAACCAGT
*
16981192 GCTAGGCACAC-TCA-TTATTGATTTT
66 GCTGGGCACACAT-ATTTATTGATTTT
16981217 TTCGGTTAGC
Statistics
Matches: 191, Mismatches: 38, Indels: 7
0.81 0.16 0.03
Matches are distributed among these distances:
141 11 0.06
142 179 0.94
143 1 0.01
ACGTcount: A:0.26, C:0.21, G:0.20, T:0.33
Consensus pattern (142 bp):
CACACATATTTTTCAGTTCTACCAACCAGAGCAGGGCACATTTATTGTCAGTTATATCAACCAGT
GCTGGGCACACATATTTATTGATTTTACCAACCAGCGCAGGGCACACTTATTGTCGGTTATACCA
ACCAGTGCTGGG
Found at i:16981128 original size:35 final size:35
Alignment explanation
Indices: 16980973--16981201 Score: 138
Period size: 35 Copynumber: 6.5 Consensus size: 35
16980963 GGTTATATTG
* ** * * **
16980973 ACCAGTGCTGGGCACACATATTTTTCTGTTTTACTG
1 ACCAGTGCAGGGCACATTTATTTTT-AGTTATACCA
* * * * * *
16981009 ACCAGCGCAGGGCACATTTATTGTCAATTATATCG
1 ACCAGTGCAGGGCACATTTATTTTTAGTTATACCA
* * ** *
16981044 ACCAGAGCTGGGCACACATATTTATTTA-TTTTACCA
1 ACCAGTGCAGGGCACATTTA-TT-TTTAGTTATACCA
* *
16981080 ACCAGCGCAGGGCACATTTATTTTTGGTTATACCA
1 ACCAGTGCAGGGCACATTTATTTTTAGTTATACCA
* * ** **
16981115 ACTAGTGCTGGGCACACATATTTTTCAGTCCTACCA
1 ACCAGTGCAGGGCACATTTATTTTT-AGTTATACCA
* * *
16981151 ACTAGAGCAGGGCACATTTATTGTTAGTTATACCA
1 ACCAGTGCAGGGCACATTTATTTTTAGTTATACCA
16981186 ACCAGTGCTA-GGCACA
1 ACCAGTGC-AGGGCACA
16981202 CTCATTATTG
Statistics
Matches: 145, Mismatches: 43, Indels: 11
0.73 0.22 0.06
Matches are distributed among these distances:
34 3 0.02
35 70 0.48
36 70 0.48
37 2 0.01
ACGTcount: A:0.27, C:0.23, G:0.19, T:0.31
Consensus pattern (35 bp):
ACCAGTGCAGGGCACATTTATTTTTAGTTATACCA
Found at i:16981164 original size:36 final size:35
Alignment explanation
Indices: 16981047--16981187 Score: 122
Period size: 36 Copynumber: 4.0 Consensus size: 35
16981037 TATATCGACC
* * *
16981047 AGAGCTGGGCACACATATTTATTTA-TTTTACCAACC
1 AGAGCAGGGCACACATA-TT-TTTAGTTATACCAACT
* ** *
16981083 AGCGCAGGGCACATTTATTTTTGGTTATACCAACT
1 AGAGCAGGGCACACATATTTTTAGTTATACCAACT
* * **
16981118 AGTGCTGGGCACACATATTTTTCAGTCCTACCAACT
1 AGAGCAGGGCACACATATTTTT-AGTTATACCAACT
** *
16981154 AGAGCAGGGCACATTTATTGTTAGTTATACCAAC
1 AGAGCAGGGCACACATATTTTTAGTTATACCAAC
16981188 CAGTGCTAGG
Statistics
Matches: 82, Mismatches: 21, Indels: 5
0.76 0.19 0.05
Matches are distributed among these distances:
34 3 0.04
35 39 0.48
36 40 0.49
ACGTcount: A:0.28, C:0.22, G:0.18, T:0.32
Consensus pattern (35 bp):
AGAGCAGGGCACACATATTTTTAGTTATACCAACT
Found at i:16985910 original size:20 final size:19
Alignment explanation
Indices: 16985887--16985947 Score: 58
Period size: 20 Copynumber: 3.3 Consensus size: 19
16985877 CATCTCTGCG
16985887 TTTCCCTTTTTTCCTTCTTA
1 TTTCCC-TTTTTCCTTCTTA
*
16985907 TTTCCC---TT-CATCTTA
1 TTTCCCTTTTTCCTTCTTA
*
16985922 TTTTCCTTATTTCCTTCTTA
1 TTTCCCTT-TTTCCTTCTTA
16985942 TTTCCC
1 TTTCCC
16985948 CATCTGCTGC
Statistics
Matches: 32, Mismatches: 4, Indels: 10
0.70 0.09 0.22
Matches are distributed among these distances:
15 11 0.34
16 2 0.06
19 2 0.06
20 17 0.53
ACGTcount: A:0.08, C:0.31, G:0.00, T:0.61
Consensus pattern (19 bp):
TTTCCCTTTTTCCTTCTTA
Found at i:16986205 original size:15 final size:15
Alignment explanation
Indices: 16986185--16986228 Score: 52
Period size: 15 Copynumber: 2.9 Consensus size: 15
16986175 TGTAGTTGAA
16986185 GATGACGACGACAAC
1 GATGACGACGACAAC
* * *
16986200 GATGACGAGGACGAT
1 GATGACGACGACAAC
*
16986215 GATGACGATGACAA
1 GATGACGACGACAA
16986229 GGATAAAGAT
Statistics
Matches: 24, Mismatches: 5, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
15 24 1.00
ACGTcount: A:0.39, C:0.18, G:0.32, T:0.11
Consensus pattern (15 bp):
GATGACGACGACAAC
Found at i:16988862 original size:21 final size:21
Alignment explanation
Indices: 16988821--16988863 Score: 61
Period size: 21 Copynumber: 2.0 Consensus size: 21
16988811 AATAAAGTAG
*
16988821 ATTATATATTATTTTTATAGT
1 ATTATATATTATATTTATAGT
16988842 ATTATATATTATGATTT-TAGT
1 ATTATATATTAT-ATTTATAGT
16988863 A
1 A
16988864 AATTCAAATA
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
21 17 0.85
22 3 0.15
ACGTcount: A:0.35, C:0.00, G:0.07, T:0.58
Consensus pattern (21 bp):
ATTATATATTATATTTATAGT
Found at i:16988914 original size:38 final size:37
Alignment explanation
Indices: 16988872--16988943 Score: 101
Period size: 38 Copynumber: 1.9 Consensus size: 37
16988862 TAAATTCAAA
* *
16988872 TAATAATAATTATAG-TAAGAATTTTATTAAATTATATT
1 TAATAATAATTAT-GTTAA-AATATGATTAAATTATATT
16988910 TAATAATAATTATGTTAAAATATGATTAAATTAT
1 TAATAATAATTATGTTAAAATATGATTAAATTAT
16988944 TTATTATTTA
Statistics
Matches: 31, Mismatches: 2, Indels: 3
0.86 0.06 0.08
Matches are distributed among these distances:
37 15 0.48
38 16 0.52
ACGTcount: A:0.49, C:0.00, G:0.06, T:0.46
Consensus pattern (37 bp):
TAATAATAATTATGTTAAAATATGATTAAATTATATT
Found at i:16989120 original size:16 final size:16
Alignment explanation
Indices: 16989096--16989135 Score: 53
Period size: 16 Copynumber: 2.5 Consensus size: 16
16989086 CAAGAATACT
* *
16989096 ATTACAGCTCTATTCC
1 ATTACAGCTATATTCA
*
16989112 ATTATAGCTATATTCA
1 ATTACAGCTATATTCA
16989128 ATTACAGC
1 ATTACAGC
16989136 GAACCAAATG
Statistics
Matches: 20, Mismatches: 4, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
16 20 1.00
ACGTcount: A:0.33, C:0.23, G:0.07, T:0.38
Consensus pattern (16 bp):
ATTACAGCTATATTCA
Found at i:16996633 original size:25 final size:25
Alignment explanation
Indices: 16996601--16996653 Score: 70
Period size: 25 Copynumber: 2.1 Consensus size: 25
16996591 TATTTTCTCA
* *
16996601 AAATTTTACTAGGCGCAAAATCGTC
1 AAATTTTACCAGGCGCAAAATCATC
* *
16996626 AAATTTTACCAGGGGTAAAATCATC
1 AAATTTTACCAGGCGCAAAATCATC
16996651 AAA
1 AAA
16996654 AGTTTGTTAG
Statistics
Matches: 24, Mismatches: 4, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
25 24 1.00
ACGTcount: A:0.42, C:0.17, G:0.15, T:0.26
Consensus pattern (25 bp):
AAATTTTACCAGGCGCAAAATCATC
Found at i:16998995 original size:25 final size:25
Alignment explanation
Indices: 16998963--16999015 Score: 70
Period size: 25 Copynumber: 2.1 Consensus size: 25
16998953 TATTTTCTCA
* *
16998963 AAATTTTACTAGGCGCAAAATCGTC
1 AAATTTTACCAGGCGCAAAATCATC
* *
16998988 AAATTTTACCAGGGGTAAAATCATC
1 AAATTTTACCAGGCGCAAAATCATC
16999013 AAA
1 AAA
16999016 AGTTTGTTAG
Statistics
Matches: 24, Mismatches: 4, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
25 24 1.00
ACGTcount: A:0.42, C:0.17, G:0.15, T:0.26
Consensus pattern (25 bp):
AAATTTTACCAGGCGCAAAATCATC
Found at i:17000377 original size:13 final size:13
Alignment explanation
Indices: 17000359--17000383 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
17000349 AAGTAAAGAT
17000359 CATCCAAAAATAA
1 CATCCAAAAATAA
17000372 CATCCAAAAATA
1 CATCCAAAAATA
17000384 GTTCATAAAC
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:0.60, C:0.24, G:0.00, T:0.16
Consensus pattern (13 bp):
CATCCAAAAATAA
Found at i:17003394 original size:17 final size:17
Alignment explanation
Indices: 17003350--17003411 Score: 58
Period size: 15 Copynumber: 3.6 Consensus size: 17
17003340 AATAAAAGTT
17003350 ATAAAAATTATTAA-AAA
1 ATAAAAA-TATTAAGAAA
*
17003367 ATTACAAAATATTAAGAAT
1 A-TA-AAAATATTAAGAAA
*
17003386 ATAAAAATA--CAGAAA
1 ATAAAAATATTAAGAAA
17003401 ATAAAAATATT
1 ATAAAAATATT
17003412 TTTTAAATTT
Statistics
Matches: 37, Mismatches: 3, Indels: 10
0.74 0.06 0.20
Matches are distributed among these distances:
15 13 0.35
17 7 0.19
18 10 0.27
19 7 0.19
ACGTcount: A:0.66, C:0.03, G:0.03, T:0.27
Consensus pattern (17 bp):
ATAAAAATATTAAGAAA
Found at i:17003530 original size:16 final size:17
Alignment explanation
Indices: 17003505--17003543 Score: 62
Period size: 16 Copynumber: 2.4 Consensus size: 17
17003495 AAATTTATAA
*
17003505 AAAATCGTAAAA-ATAT
1 AAAATTGTAAAAGATAT
17003521 AAAATTGTAAAAGATAT
1 AAAATTGTAAAAGATAT
17003538 AAAATT
1 AAAATT
17003544 TTATAAAAAA
Statistics
Matches: 21, Mismatches: 1, Indels: 1
0.91 0.04 0.04
Matches are distributed among these distances:
16 11 0.52
17 10 0.48
ACGTcount: A:0.62, C:0.03, G:0.08, T:0.28
Consensus pattern (17 bp):
AAAATTGTAAAAGATAT
Found at i:17007828 original size:38 final size:38
Alignment explanation
Indices: 17007786--17007861 Score: 134
Period size: 38 Copynumber: 2.0 Consensus size: 38
17007776 ACTCTTGTAT
*
17007786 TGGGATCCATTTTGGTAAAGTAGTTGCTCTTTTTTCCC
1 TGGGATCCATTTTGGTAAAGTAATTGCTCTTTTTTCCC
*
17007824 TGGGATCCATTTTGGTAAAGTAATTGCTTTTTTTTCCC
1 TGGGATCCATTTTGGTAAAGTAATTGCTCTTTTTTCCC
17007862 CTTTCCTCAA
Statistics
Matches: 36, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
38 36 1.00
ACGTcount: A:0.17, C:0.17, G:0.20, T:0.46
Consensus pattern (38 bp):
TGGGATCCATTTTGGTAAAGTAATTGCTCTTTTTTCCC
Found at i:17009261 original size:44 final size:44
Alignment explanation
Indices: 17009179--17009270 Score: 125
Period size: 44 Copynumber: 2.1 Consensus size: 44
17009169 ATTACAACAT
17009179 CATTCCATTCAACCAAACACAAGAATACTATTACAGTTCTATTC
1 CATTCCATTCAACCAAACACAAGAATACTATTACAGTTCTATTC
* * *
17009223 CATTCCTTTCAACCAAACA-ATTGAGTTACTATTA-AGTTCTATTC
1 CATTCCATTCAACCAAACACA-AGA-ATACTATTACAGTTCTATTC
17009267 CATT
1 CATT
17009271 ATAGCTCTAT
Statistics
Matches: 43, Mismatches: 3, Indels: 4
0.86 0.06 0.08
Matches are distributed among these distances:
43 1 0.02
44 34 0.79
45 8 0.19
ACGTcount: A:0.35, C:0.25, G:0.05, T:0.35
Consensus pattern (44 bp):
CATTCCATTCAACCAAACACAAGAATACTATTACAGTTCTATTC
Found at i:17009281 original size:16 final size:16
Alignment explanation
Indices: 17009260--17009307 Score: 71
Period size: 16 Copynumber: 3.0 Consensus size: 16
17009250 ACTATTAAGT
*
17009260 TCTATTCCATTATAGC
1 TCTATTCCATTACAGC
17009276 TCTATT-CAGTTACAGC
1 TCTATTCCA-TTACAGC
17009292 TCTATTCCATTACAGC
1 TCTATTCCATTACAGC
17009308 GAACCAAACG
Statistics
Matches: 29, Mismatches: 1, Indels: 4
0.85 0.03 0.12
Matches are distributed among these distances:
15 2 0.07
16 25 0.86
17 2 0.07
ACGTcount: A:0.25, C:0.27, G:0.08, T:0.40
Consensus pattern (16 bp):
TCTATTCCATTACAGC
Found at i:17011572 original size:32 final size:33
Alignment explanation
Indices: 17011531--17011598 Score: 111
Period size: 32 Copynumber: 2.1 Consensus size: 33
17011521 TGGCATCCAT
*
17011531 AGAAATAGTCAATTGGGACAGT-AACATAGAAC
1 AGAAATAGTCAATTAGGACAGTAAACATAGAAC
*
17011563 AGAAATAGTCTATTAGGACAGTAAACATAGAAC
1 AGAAATAGTCAATTAGGACAGTAAACATAGAAC
17011596 AGA
1 AGA
17011599 GATAAAGTCC
Statistics
Matches: 33, Mismatches: 2, Indels: 1
0.92 0.06 0.03
Matches are distributed among these distances:
32 20 0.61
33 13 0.39
ACGTcount: A:0.49, C:0.12, G:0.21, T:0.19
Consensus pattern (33 bp):
AGAAATAGTCAATTAGGACAGTAAACATAGAAC
Found at i:17011624 original size:35 final size:33
Alignment explanation
Indices: 17011544--17011624 Score: 92
Period size: 35 Copynumber: 2.4 Consensus size: 33
17011534 AATAGTCAAT
* * *
17011544 TGGGACAGT-AACATAGAACAGAAATAGTCTAT
1 TGGGACAGTAAACATAGAACAGAAAAAGTCCAC
*
17011576 TAGGACAGTAAACATAGAACAGAGATAAAGTCCAC
1 TGGGACAGTAAACATAGAACAGA-A-AAAGTCCAC
*
17011611 TGGGACAATAAACA
1 TGGGACAGTAAACA
17011625 CGGGGTAAGC
Statistics
Matches: 40, Mismatches: 6, Indels: 3
0.82 0.12 0.06
Matches are distributed among these distances:
32 8 0.20
33 13 0.32
34 1 0.03
35 18 0.45
ACGTcount: A:0.47, C:0.15, G:0.21, T:0.17
Consensus pattern (33 bp):
TGGGACAGTAAACATAGAACAGAAAAAGTCCAC
Found at i:17023019 original size:6 final size:6
Alignment explanation
Indices: 17023005--17023037 Score: 57
Period size: 6 Copynumber: 5.5 Consensus size: 6
17022995 ACATTAAAAA
*
17023005 AAACAC AAACTC AAACTC AAACTC AAACTC AAA
1 AAACTC AAACTC AAACTC AAACTC AAACTC AAA
17023038 TTCTAAATTA
Statistics
Matches: 26, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
6 26 1.00
ACGTcount: A:0.58, C:0.30, G:0.00, T:0.12
Consensus pattern (6 bp):
AAACTC
Found at i:17023910 original size:16 final size:15
Alignment explanation
Indices: 17023889--17023920 Score: 55
Period size: 15 Copynumber: 2.1 Consensus size: 15
17023879 TTTAAGATAA
17023889 TAAAAATATATTTTTT
1 TAAAAATA-ATTTTTT
17023905 TAAAAATAATTTTTT
1 TAAAAATAATTTTTT
17023920 T
1 T
17023921 CGTATGTCTA
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
15 8 0.50
16 8 0.50
ACGTcount: A:0.44, C:0.00, G:0.00, T:0.56
Consensus pattern (15 bp):
TAAAAATAATTTTTT
Found at i:17024736 original size:5 final size:5
Alignment explanation
Indices: 17024726--17024760 Score: 61
Period size: 5 Copynumber: 7.0 Consensus size: 5
17024716 ATAACTATTT
*
17024726 TTATA TTATA TTATA TTATA TTATA TTATT TTATA
1 TTATA TTATA TTATA TTATA TTATA TTATA TTATA
17024761 GATTTTAAAA
Statistics
Matches: 28, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
5 28 1.00
ACGTcount: A:0.37, C:0.00, G:0.00, T:0.63
Consensus pattern (5 bp):
TTATA
Found at i:17028721 original size:15 final size:16
Alignment explanation
Indices: 17028701--17028730 Score: 53
Period size: 16 Copynumber: 1.9 Consensus size: 16
17028691 CAATCAAACA
17028701 TCTCTG-TTCCAGTCC
1 TCTCTGATTCCAGTCC
17028716 TCTCTGATTCCAGTC
1 TCTCTGATTCCAGTC
17028731 TACTAACCAA
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
15 6 0.43
16 8 0.57
ACGTcount: A:0.10, C:0.37, G:0.13, T:0.40
Consensus pattern (16 bp):
TCTCTGATTCCAGTCC
Found at i:17048075 original size:20 final size:20
Alignment explanation
Indices: 17048046--17048089 Score: 63
Period size: 20 Copynumber: 2.2 Consensus size: 20
17048036 ATTAGAATAT
*
17048046 AAAA-ATTAAATTAAAAACA
1 AAAATATTAAAATAAAAACA
*
17048065 AAAATATTAAAATAAAAATA
1 AAAATATTAAAATAAAAACA
17048085 AAAAT
1 AAAAT
17048090 GGCTAAATTA
Statistics
Matches: 22, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
19 4 0.18
20 18 0.82
ACGTcount: A:0.75, C:0.02, G:0.00, T:0.23
Consensus pattern (20 bp):
AAAATATTAAAATAAAAACA
Found at i:17058700 original size:20 final size:20
Alignment explanation
Indices: 17058675--17058713 Score: 62
Period size: 20 Copynumber: 1.9 Consensus size: 20
17058665 TACTTTCTTC
17058675 TTTACTTACTCT-CTTACTTG
1 TTTACTTACT-TGCTTACTTG
17058695 TTTACTTACTTGCTTACTT
1 TTTACTTACTTGCTTACTT
17058714 AAGTAACTCA
Statistics
Matches: 18, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
19 1 0.06
20 17 0.94
ACGTcount: A:0.15, C:0.23, G:0.05, T:0.56
Consensus pattern (20 bp):
TTTACTTACTTGCTTACTTG
Found at i:17060750 original size:20 final size:20
Alignment explanation
Indices: 17060725--17060763 Score: 62
Period size: 20 Copynumber: 1.9 Consensus size: 20
17060715 TACTTTCTTC
17060725 TTTACTTACTCT-CTTACTTG
1 TTTACTTACT-TGCTTACTTG
17060745 TTTACTTACTTGCTTACTT
1 TTTACTTACTTGCTTACTT
17060764 AAATAACTCA
Statistics
Matches: 18, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
19 1 0.06
20 17 0.94
ACGTcount: A:0.15, C:0.23, G:0.05, T:0.56
Consensus pattern (20 bp):
TTTACTTACTTGCTTACTTG
Found at i:17061084 original size:50 final size:50
Alignment explanation
Indices: 17060965--17061201 Score: 165
Period size: 50 Copynumber: 4.6 Consensus size: 50
17060955 TGATAATAAC
* * ** * * * *
17060965 ATGCCATGTCCAAGACATGATCTTACATGGGATGTTTCCTGTAC--TGCAA
1 ATGCCATGTCCCAGACATGGTCTTACATGGGACCTCTCATAT-CGGTGCCA
* * * ** * *
17061014 ATGTCATATCCCAGATATGGTCTTACATGGGAGTTCGCATATCGGTGCCC
1 ATGCCATGTCCCAGACATGGTCTTACATGGGACCTCTCATATCGGTGCCA
** * *
17061064 ATGCCATGTCCCAGACATGGTCTTACGGGGGACCTCTCATCTCGGTACCA
1 ATGCCATGTCCCAGACATGGTCTTACATGGGACCTCTCATATCGGTGCCA
* * * **
17061114 ACGCTATGTCGCAGACATGGTCTTA-AGTGGGACCTCTCATAACCTCAATAATGCCA
1 ATGCCATGTCCCAGACATGGTCTTACA-TGGGACCTCTCAT-A--TC---GGTGCCA
17061170 ATGCCATGTCCCAGACATGGTCTTACATGGGA
1 ATGCCATGTCCCAGACATGGTCTTACATGGGA
17061202 TCTCATCCCC
Statistics
Matches: 142, Mismatches: 36, Indels: 13
0.74 0.19 0.07
Matches are distributed among these distances:
48 1 0.01
49 31 0.22
50 76 0.54
53 2 0.01
56 31 0.22
57 1 0.01
ACGTcount: A:0.24, C:0.26, G:0.22, T:0.27
Consensus pattern (50 bp):
ATGCCATGTCCCAGACATGGTCTTACATGGGACCTCTCATATCGGTGCCA
Found at i:17067985 original size:10 final size:9
Alignment explanation
Indices: 17067969--17068001 Score: 50
Period size: 10 Copynumber: 3.7 Consensus size: 9
17067959 AAACTAAATA
17067969 TTTTCTTTC
1 TTTTCTTTC
17067978 TATTTCTTTC
1 T-TTTCTTTC
17067988 TTTT-TTTC
1 TTTTCTTTC
17067996 TTTTCT
1 TTTTCT
17068002 ACTCACTTTG
Statistics
Matches: 22, Mismatches: 0, Indels: 4
0.85 0.00 0.15
Matches are distributed among these distances:
8 8 0.36
9 5 0.23
10 9 0.41
ACGTcount: A:0.03, C:0.18, G:0.00, T:0.79
Consensus pattern (9 bp):
TTTTCTTTC
Found at i:17069819 original size:17 final size:17
Alignment explanation
Indices: 17069797--17069831 Score: 61
Period size: 17 Copynumber: 2.1 Consensus size: 17
17069787 CTCATCACTT
*
17069797 TATTACTTGATTTAACG
1 TATTACTTGATTCAACG
17069814 TATTACTTGATTCAACG
1 TATTACTTGATTCAACG
17069831 T
1 T
17069832 GTATACTTGT
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
17 17 1.00
ACGTcount: A:0.29, C:0.14, G:0.11, T:0.46
Consensus pattern (17 bp):
TATTACTTGATTCAACG
Found at i:17094252 original size:37 final size:37
Alignment explanation
Indices: 17094148--17094245 Score: 106
Period size: 37 Copynumber: 2.6 Consensus size: 37
17094138 CTGATTTCAT
* * * *
17094148 TAAATGCATGAAAAACATGCCACAGATACTATTATAC
1 TAAATGTATGCAAAGCATGCCACAGATACTGTTATAC
* * *
17094185 TGAATGTATGCAAAGCATACCACTGATACTGTTATAC
1 TAAATGTATGCAAAGCATGCCACAGATACTGTTATAC
**
17094222 TAAATGTATGTTTAAGCATGCCAC
1 TAAATGTATG-CAAAGCATGCCAC
17094246 CGTACTGAAA
Statistics
Matches: 49, Mismatches: 11, Indels: 1
0.80 0.18 0.02
Matches are distributed among these distances:
37 39 0.80
38 10 0.20
ACGTcount: A:0.39, C:0.18, G:0.14, T:0.29
Consensus pattern (37 bp):
TAAATGTATGCAAAGCATGCCACAGATACTGTTATAC
Found at i:17101934 original size:32 final size:32
Alignment explanation
Indices: 17101894--17101960 Score: 134
Period size: 32 Copynumber: 2.1 Consensus size: 32
17101884 TGTCTAAATT
17101894 TTTTTTTTCTGATCAATATATACAAAATCTGA
1 TTTTTTTTCTGATCAATATATACAAAATCTGA
17101926 TTTTTTTTCTGATCAATATATACAAAATCTGA
1 TTTTTTTTCTGATCAATATATACAAAATCTGA
17101958 TTT
1 TTT
17101961 AAAAAGGATA
Statistics
Matches: 35, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
32 35 1.00
ACGTcount: A:0.33, C:0.12, G:0.06, T:0.49
Consensus pattern (32 bp):
TTTTTTTTCTGATCAATATATACAAAATCTGA
Found at i:17102427 original size:27 final size:27
Alignment explanation
Indices: 17102397--17102463 Score: 64
Period size: 30 Copynumber: 2.3 Consensus size: 27
17102387 TAGTTTATCG
*
17102397 TATTTGATATTTTAAATACA-AATTATT
1 TATTT-ATATTTTAAATAAATAATTATT
*
17102424 TATTTTATTTTATTTTATATAAATAATTATT
1 TA-TTTA---TATTTTAAATAAATAATTATT
17102455 TATTTATAT
1 TATTTATAT
17102464 ATATATTCGT
Statistics
Matches: 33, Mismatches: 2, Indels: 10
0.73 0.04 0.22
Matches are distributed among these distances:
27 6 0.18
28 3 0.09
30 15 0.45
31 9 0.27
ACGTcount: A:0.37, C:0.01, G:0.01, T:0.60
Consensus pattern (27 bp):
TATTTATATTTTAAATAAATAATTATT
Found at i:17104129 original size:34 final size:37
Alignment explanation
Indices: 17104053--17104129 Score: 85
Period size: 34 Copynumber: 2.2 Consensus size: 37
17104043 TTATAAAGGA
17104053 ATAATTAA-CTATAAAAATAACTTAAAAATAATTATC
1 ATAATTAATCTATAAAAATAACTTAAAAATAATTATC
* * *
17104089 AT--TTAATCTA-ATAAATAACTT-AAATTGATTA-C
1 ATAATTAATCTATAAAAATAACTTAAAAATAATTATC
17104121 ATAATTAAT
1 ATAATTAAT
17104130 TAAAATATTT
Statistics
Matches: 35, Mismatches: 3, Indels: 8
0.76 0.07 0.17
Matches are distributed among these distances:
32 3 0.09
33 8 0.23
34 19 0.54
35 3 0.09
36 2 0.06
ACGTcount: A:0.53, C:0.08, G:0.01, T:0.38
Consensus pattern (37 bp):
ATAATTAATCTATAAAAATAACTTAAAAATAATTATC
Found at i:17108494 original size:19 final size:19
Alignment explanation
Indices: 17108472--17108515 Score: 52
Period size: 19 Copynumber: 2.3 Consensus size: 19
17108462 TAACTCTTCT
* *
17108472 AAATTTTTTTAAAATTTTA
1 AAATTTTCTTAAAATTATA
**
17108491 AAATAGTCTTAAAATTATA
1 AAATTTTCTTAAAATTATA
17108510 AAATTT
1 AAATTT
17108516 AATTCAATAC
Statistics
Matches: 19, Mismatches: 6, Indels: 0
0.76 0.24 0.00
Matches are distributed among these distances:
19 19 1.00
ACGTcount: A:0.48, C:0.02, G:0.02, T:0.48
Consensus pattern (19 bp):
AAATTTTCTTAAAATTATA
Found at i:17111264 original size:2 final size:2
Alignment explanation
Indices: 17111257--17111281 Score: 50
Period size: 2 Copynumber: 12.5 Consensus size: 2
17111247 AATAACTTAC
17111257 TA TA TA TA TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA T
17111282 TCTAGAGCTC
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:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (2 bp):
TA
Found at i:17112743 original size:13 final size:13
Alignment explanation
Indices: 17112725--17112751 Score: 54
Period size: 13 Copynumber: 2.1 Consensus size: 13
17112715 CTGAATTAGT
17112725 TTTACTAACCACC
1 TTTACTAACCACC
17112738 TTTACTAACCACC
1 TTTACTAACCACC
17112751 T
1 T
17112752 GATCATGACT
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 14 1.00
ACGTcount: A:0.30, C:0.37, G:0.00, T:0.33
Consensus pattern (13 bp):
TTTACTAACCACC
Found at i:17113313 original size:63 final size:63
Alignment explanation
Indices: 17113204--17113327 Score: 212
Period size: 63 Copynumber: 2.0 Consensus size: 63
17113194 ATTATGTGAG
*
17113204 AATACTACTAATGAGAACTTGTTAGAGAATTTGTTTTAACTTTTCATGCTTCAAATGTGCTCT
1 AATACTACTAATGAGAACTTGTTAGAGAATTTGTTCTAACTTTTCATGCTTCAAATGTGCTCT
* * *
17113267 AATATTACTGATGAGAACTTGTTAGAGAATTTGTTCTAACTTTTCATGTTTCAAATGTGCT
1 AATACTACTAATGAGAACTTGTTAGAGAATTTGTTCTAACTTTTCATGCTTCAAATGTGCT
17113328 ATTGCAGTAG
Statistics
Matches: 57, Mismatches: 4, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
63 57 1.00
ACGTcount: A:0.30, C:0.13, G:0.15, T:0.42
Consensus pattern (63 bp):
AATACTACTAATGAGAACTTGTTAGAGAATTTGTTCTAACTTTTCATGCTTCAAATGTGCTCT
Found at i:17114444 original size:42 final size:44
Alignment explanation
Indices: 17114359--17114446 Score: 117
Period size: 44 Copynumber: 2.0 Consensus size: 44
17114349 GTATTATGCA
* * * *
17114359 TATATTAGTATGGTTAAATCATATGAGATGATAAACTAGAAGTT
1 TATATTAGTATGGTCAAATAACATGAGATAATAAACTAGAAGTT
*
17114403 TATATTAGTATTGTCAAATAACATGA-ATAAT-AACTAGAAGTT
1 TATATTAGTATGGTCAAATAACATGAGATAATAAACTAGAAGTT
17114445 TA
1 TA
17114447 CTAGCTCAAA
Statistics
Matches: 39, Mismatches: 5, Indels: 2
0.85 0.11 0.04
Matches are distributed among these distances:
42 13 0.33
43 4 0.10
44 22 0.56
ACGTcount: A:0.43, C:0.06, G:0.15, T:0.36
Consensus pattern (44 bp):
TATATTAGTATGGTCAAATAACATGAGATAATAAACTAGAAGTT
Found at i:17122653 original size:475 final size:476
Alignment explanation
Indices: 17121753--17122709 Score: 1900
Period size: 475 Copynumber: 2.0 Consensus size: 476
17121743 TACTATTATA
17121753 ATATTTATATTTAAAAATAATTTTAAAATATTGTTTATTTAAATTCAGTCTATTATCAATTAGTA
1 ATATTTATATTTAAAAATAATTTTAAAATATTGTTTATTTAAATTCAGTCTATTATCAATTAGTA
17121818 CATTATGTTTTGATTTTTAACTGTATTATTAACGAAATATTACAAAATTTAAAATTTTTTAAAGA
66 CATTATGTTTTGATTTTTAACTGTATTATTAACGAAATATTACAAAATTTAAAATTTTTTAAAGA
17121883 ATAATTAAATGTAATTTAATTTAATACATAGTAAAGGAAACTAGTAACATAATAAATAATAATTA
131 ATAATTAAATGTAATTTAATTTAATACATAGTAAAGGAAACTAGTAACATAATAAATAATAATTA
17121948 TATTTAAAAATAATGCAATTTAATATGAAATTGATAATAATTGCCAGATTTTGCAGATGCATTTG
196 TATTTAAAAATAATGCAATTTAATATGAAATTGATAATAATTGCCAGATTTTGCAGATGCATTTG
17122013 ATTGGGATGGTATGTGTTTAAAGAGTTGAATCCAAGTATCATCTTTCTTCGCAAAAAGTGAAAAA
261 ATTGGGATGGTATGTGTTTAAAGAGTTGAATCCAAGTATCATCTTTCTTCGCAAAAAGTGAAAAA
17122078 ACAAAAACTTGTCTCTCCAGAAATTGTGATCCCTCTGCACTACTTTCGCAAGCTTGGTGGTCCTA
326 ACAAAAACTTGTCTCTCCAGAAATTGTGATCCCTCTGCACTACTTTCGCAAGCTTGGTGGTCCTA
17122143 AAACTTAAAATCGAGTGTCAATTTTCAGAGAACGACATTTTATATATTTTCTTGACAGAAAAGTT
391 AAACTTAAAATCGAGTGTCAATTTTCAGAGAACGACATTTTATATATTTTCTTGACAGAAAAGTT
17122208 TAAATTAGTGAAAGTTACTTT
456 TAAATTAGTGAAAGTTACTTT
17122229 ATATTTATA-TTAAAAATAATTTTAAAATATTGTTTATTTAAATTCAGTCTATTATCAATTAGTA
1 ATATTTATATTTAAAAATAATTTTAAAATATTGTTTATTTAAATTCAGTCTATTATCAATTAGTA
17122293 CATTATGTTTTGATTTTTAACTGTATTATTAACGAAATATTACAAAATTTAAAATTTTTTAAAGA
66 CATTATGTTTTGATTTTTAACTGTATTATTAACGAAATATTACAAAATTTAAAATTTTTTAAAGA
17122358 ATAATTAAATGTAATTTAATTTAATACATAGTAAAGGAAACTAGTAACATAATAAATAATAATTA
131 ATAATTAAATGTAATTTAATTTAATACATAGTAAAGGAAACTAGTAACATAATAAATAATAATTA
17122423 TATTTAAAAATAATGCAATTTAATATGAAATTGATAATAATTGCCAGATTTTGCAGATGCATTTG
196 TATTTAAAAATAATGCAATTTAATATGAAATTGATAATAATTGCCAGATTTTGCAGATGCATTTG
17122488 ATTGGGATGGTATGTGTTTAAAGAGTTGAATCCAAGTATCATCTTTCTTCGCAAAAAGTGAAAAA
261 ATTGGGATGGTATGTGTTTAAAGAGTTGAATCCAAGTATCATCTTTCTTCGCAAAAAGTGAAAAA
17122553 ACAAAAACTTGTCTCTCCAGAAATTGTGATCCCTCTGCACTACTTTCGCAAGCTTGGTGGTCCTA
326 ACAAAAACTTGTCTCTCCAGAAATTGTGATCCCTCTGCACTACTTTCGCAAGCTTGGTGGTCCTA
17122618 AAACTTAAAATCGAGTGTCAATTTTCAGAGAACGACATTTTATATATTTTCTTGACAGAAAAGTT
391 AAACTTAAAATCGAGTGTCAATTTTCAGAGAACGACATTTTATATATTTTCTTGACAGAAAAGTT
17122683 TAAATTAGTGAAAGTTACTTT
456 TAAATTAGTGAAAGTTACTTT
17122704 AT-TTTA
1 ATATTTA
17122710 AGGTCCGGCC
Statistics
Matches: 481, Mismatches: 0, Indels: 2
1.00 0.00 0.00
Matches are distributed among these distances:
474 4 0.01
475 468 0.97
476 9 0.02
ACGTcount: A:0.39, C:0.10, G:0.12, T:0.38
Consensus pattern (476 bp):
ATATTTATATTTAAAAATAATTTTAAAATATTGTTTATTTAAATTCAGTCTATTATCAATTAGTA
CATTATGTTTTGATTTTTAACTGTATTATTAACGAAATATTACAAAATTTAAAATTTTTTAAAGA
ATAATTAAATGTAATTTAATTTAATACATAGTAAAGGAAACTAGTAACATAATAAATAATAATTA
TATTTAAAAATAATGCAATTTAATATGAAATTGATAATAATTGCCAGATTTTGCAGATGCATTTG
ATTGGGATGGTATGTGTTTAAAGAGTTGAATCCAAGTATCATCTTTCTTCGCAAAAAGTGAAAAA
ACAAAAACTTGTCTCTCCAGAAATTGTGATCCCTCTGCACTACTTTCGCAAGCTTGGTGGTCCTA
AAACTTAAAATCGAGTGTCAATTTTCAGAGAACGACATTTTATATATTTTCTTGACAGAAAAGTT
TAAATTAGTGAAAGTTACTTT
Found at i:17123317 original size:31 final size:31
Alignment explanation
Indices: 17123279--17123347 Score: 111
Period size: 31 Copynumber: 2.2 Consensus size: 31
17123269 AATAAAGACC
*
17123279 TAGTGACTTAAATAAAAACTTTCAAATTGTT
1 TAGTGACTTAAATAAAAACTTTCAAATAGTT
* *
17123310 TAGTGACTTAAATGAAAACTTTCGAATAGTT
1 TAGTGACTTAAATAAAAACTTTCAAATAGTT
17123341 TAGTGAC
1 TAGTGAC
17123348 CATTTTTTAA
Statistics
Matches: 35, Mismatches: 3, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
31 35 1.00
ACGTcount: A:0.39, C:0.10, G:0.14, T:0.36
Consensus pattern (31 bp):
TAGTGACTTAAATAAAAACTTTCAAATAGTT
Found at i:17133837 original size:38 final size:38
Alignment explanation
Indices: 17133780--17133929 Score: 210
Period size: 38 Copynumber: 3.9 Consensus size: 38
17133770 TTGATTCACT
*
17133780 GGCACAAAGCCTGCTAGGCACAGAGCCCGAATAACACC
1 GGCACAAAGCCTGCTAGGCACAGAGCCCAAATAACACC
* * * *
17133818 AGCACGAAGCCTGCTAGGCACAGTGCCCAAATAACATC
1 GGCACAAAGCCTGCTAGGCACAGAGCCCAAATAACACC
*
17133856 GGCACAAAGCCTGCTAGGCATAGAGCCCAAATAACACC
1 GGCACAAAGCCTGCTAGGCACAGAGCCCAAATAACACC
* * * *
17133894 GGCATAAAGCCTGCTAAGCATAGAGCCCGAATAACA
1 GGCACAAAGCCTGCTAGGCACAGAGCCCAAATAACA
17133930 TTACGCTTCT
Statistics
Matches: 99, Mismatches: 13, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
38 99 1.00
ACGTcount: A:0.36, C:0.31, G:0.22, T:0.11
Consensus pattern (38 bp):
GGCACAAAGCCTGCTAGGCACAGAGCCCAAATAACACC
Found at i:17136011 original size:14 final size:14
Alignment explanation
Indices: 17135992--17136021 Score: 51
Period size: 14 Copynumber: 2.1 Consensus size: 14
17135982 TCTCATCCCA
*
17135992 ATTCACATAATCAC
1 ATTCACATAAGCAC
17136006 ATTCACATAAGCAC
1 ATTCACATAAGCAC
17136020 AT
1 AT
17136022 AATTCACAAG
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
14 15 1.00
ACGTcount: A:0.43, C:0.27, G:0.03, T:0.27
Consensus pattern (14 bp):
ATTCACATAAGCAC
Found at i:17141222 original size:16 final size:18
Alignment explanation
Indices: 17141183--17141222 Score: 59
Period size: 17 Copynumber: 2.4 Consensus size: 18
17141173 AGTGTGCACT
17141183 CTGA-CTTGAACTTCCAA
1 CTGACCTTGAACTTCCAA
17141200 CTGACCTTG-ACTTCCAA
1 CTGACCTTGAACTTCCAA
17141217 -TGACCT
1 CTGACCT
17141223 ACAAAGAATG
Statistics
Matches: 22, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
16 6 0.27
17 12 0.55
18 4 0.18
ACGTcount: A:0.25, C:0.33, G:0.12, T:0.30
Consensus pattern (18 bp):
CTGACCTTGAACTTCCAA
Found at i:17141628 original size:25 final size:25
Alignment explanation
Indices: 17141591--17141705 Score: 105
Period size: 25 Copynumber: 4.7 Consensus size: 25
17141581 TGCAGGAAAG
*
17141591 TGCTCACACGAGCTGTGACAGTAAA
1 TGCTCACATGAGCTGTGACAGTAAA
* * *
17141616 TGCTCACATGAGCTATAACTGTAAA
1 TGCTCACATGAGCTGTGACAGTAAA
*
17141641 TGCTCAC-T-AGACATGTAGA-A--AAG
1 TGCTCACATGAG-C-TGT-GACAGTAAA
17141664 TGCTCACATGAGCTGTGACAGTAAA
1 TGCTCACATGAGCTGTGACAGTAAA
* *
17141689 TGCTGACATGAACTGTG
1 TGCTCACATGAGCTGTG
17141706 GGTTGGGATG
Statistics
Matches: 71, Mismatches: 11, Indels: 16
0.72 0.11 0.16
Matches are distributed among these distances:
22 2 0.03
23 15 0.21
24 4 0.06
25 49 0.69
26 1 0.01
ACGTcount: A:0.33, C:0.20, G:0.23, T:0.24
Consensus pattern (25 bp):
TGCTCACATGAGCTGTGACAGTAAA
Found at i:17142878 original size:7 final size:7
Alignment explanation
Indices: 17142856--17142901 Score: 56
Period size: 7 Copynumber: 6.3 Consensus size: 7
17142846 TACAATCTTG
17142856 TAATAATA
1 TAATAA-A
*
17142864 TTATAAA
1 TAATAAA
17142871 TAATAAA
1 TAATAAA
17142878 TAATAAA
1 TAATAAA
*
17142885 TAATTAAT
1 TAA-TAAA
17142893 TAATAAA
1 TAATAAA
17142900 TA
1 TA
17142902 CTAACTTAGG
Statistics
Matches: 33, Mismatches: 4, Indels: 3
0.82 0.10 0.08
Matches are distributed among these distances:
7 22 0.67
8 11 0.33
ACGTcount: A:0.63, C:0.00, G:0.00, T:0.37
Consensus pattern (7 bp):
TAATAAA
Found at i:17149529 original size:13 final size:13
Alignment explanation
Indices: 17149503--17149542 Score: 55
Period size: 13 Copynumber: 3.2 Consensus size: 13
17149493 TCAAATTAGA
17149503 TTATGTTT-ATGT
1 TTATGTTTCATGT
17149515 TTATGTTTCATGT
1 TTATGTTTCATGT
* *
17149528 TTTTGTGTCATGT
1 TTATGTTTCATGT
17149541 TT
1 TT
17149543 TTAATAATGT
Statistics
Matches: 25, Mismatches: 2, Indels: 1
0.89 0.07 0.04
Matches are distributed among these distances:
12 8 0.32
13 17 0.68
ACGTcount: A:0.12, C:0.05, G:0.17, T:0.65
Consensus pattern (13 bp):
TTATGTTTCATGT
Found at i:17151410 original size:54 final size:54
Alignment explanation
Indices: 17151325--17151427 Score: 161
Period size: 54 Copynumber: 1.9 Consensus size: 54
17151315 TGGTTGTGTG
*
17151325 GCCAAACCGTGTAACAACCTAAGTCTTTGTATCTTAGGGTCACAAGGTCCTATA
1 GCCAAACCGTGTAACAACCTAAGTCTGTGTATCTTAGGGTCACAAGGTCCTATA
* * * *
17151379 GCCAAACCGTGTAACAGCTTGAGTCTGTGTATCTTAGGGTCACACGGTC
1 GCCAAACCGTGTAACAACCTAAGTCTGTGTATCTTAGGGTCACAAGGTC
17151428 GTGTCGCCAA
Statistics
Matches: 44, Mismatches: 5, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
54 44 1.00
ACGTcount: A:0.26, C:0.24, G:0.22, T:0.27
Consensus pattern (54 bp):
GCCAAACCGTGTAACAACCTAAGTCTGTGTATCTTAGGGTCACAAGGTCCTATA
Found at i:17151437 original size:54 final size:54
Alignment explanation
Indices: 17151320--17151452 Score: 158
Period size: 54 Copynumber: 2.5 Consensus size: 54
17151310 AGGCATGGTT
* *
17151320 GTGTGGCCAAACCGTGTAACAACCTAAGTCTTTGTATCTTAGGGTCACAAGGTC
1 GTGTAGCCAAACCGTGTAACAACCTAAGTCTGTGTATCTTAGGGTCACAAGGTC
* * * * * *
17151374 CTATAGCCAAACCGTGTAACAGCTTGAGTCTGTGTATCTTAGGGTCACACGGTC
1 GTGTAGCCAAACCGTGTAACAACCTAAGTCTGTGTATCTTAGGGTCACAAGGTC
* ** *
17151428 GTGTCGCCAAGTCATGTAACAACCT
1 GTGTAGCCAAACCGTGTAACAACCT
17151453 GATGCAGTGT
Statistics
Matches: 63, Mismatches: 16, Indels: 0
0.80 0.20 0.00
Matches are distributed among these distances:
54 63 1.00
ACGTcount: A:0.26, C:0.24, G:0.23, T:0.27
Consensus pattern (54 bp):
GTGTAGCCAAACCGTGTAACAACCTAAGTCTGTGTATCTTAGGGTCACAAGGTC
Found at i:17153613 original size:45 final size:45
Alignment explanation
Indices: 17153556--17153754 Score: 183
Period size: 45 Copynumber: 4.4 Consensus size: 45
17153546 TGCCATAGTG
* * *
17153556 TCTTTCAACTATGGACTTATCCGTCT-GATTCATGATGCCA-AAGCA
1 TCTTTCAGCTATGGTCTTATCCGT-TAGAATCATGATGCCATAA-CA
*
17153601 TCTTTCAGCTATGGTCTTA-CTCGTTAGAATCGTGATGCCATAACA
1 TCTTTCAGCTATGGTCTTATC-CGTTAGAATCATGATGCCATAACA
* * * *
17153646 TCTTTCAGCTCTGGTCTTATTCATTAGAATCATGATGCCATAACG
1 TCTTTCAGCTATGGTCTTATCCGTTAGAATCATGATGCCATAACA
* ** * **
17153691 TCTTTCAGCTATTGTCTTACTCATTTTTG-AT-ATGATGCCATAATT
1 TCTTTCAGCTATGGTCTTA-TC-CGTTAGAATCATGATGCCATAACA
*
17153736 TCTTTCAACTATGGTCTTA
1 TCTTTCAGCTATGGTCTTA
17153755 CGTAATTTTG
Statistics
Matches: 129, Mismatches: 19, Indels: 12
0.81 0.12 0.08
Matches are distributed among these distances:
44 2 0.02
45 119 0.92
46 5 0.04
47 3 0.02
ACGTcount: A:0.24, C:0.22, G:0.15, T:0.40
Consensus pattern (45 bp):
TCTTTCAGCTATGGTCTTATCCGTTAGAATCATGATGCCATAACA
Found at i:17153727 original size:90 final size:90
Alignment explanation
Indices: 17153556--17153754 Score: 217
Period size: 90 Copynumber: 2.2 Consensus size: 90
17153546 TGCCATAGTG
* * * *
17153556 TCTTTCAACTATGGACTTATCCGTCT-GATTCATGATGCCAAAGCATCTTTCAGCTATGGTCTTA
1 TCTTTCAACTATGGTCTTATTCAT-TAGAATCATGATGCCAAAGCATCTTTCAGCTATGGTCTTA
*
17153620 CTCGTTAGAATCGTGATGCCATAACA
65 CTCGTTAGAATCATGATGCCATAACA
* * * *
17153646 TCTTTCAGCTCTGGTCTTATTCATTAGAATCATGATGCCATAA-CGTCTTTCAGCTATTGTCTTA
1 TCTTTCAACTATGGTCTTATTCATTAGAATCATGATGCCA-AAGCATCTTTCAGCTATGGTCTTA
* * **
17153710 CTCATTTTTG-AT-ATGATGCCATAATT
65 CTC--GTTAGAATCATGATGCCATAACA
17153736 TCTTTCAACTATGGTCTTA
1 TCTTTCAACTATGGTCTTA
17153755 CGTAATTTTG
Statistics
Matches: 90, Mismatches: 15, Indels: 8
0.80 0.13 0.07
Matches are distributed among these distances:
89 1 0.01
90 82 0.91
91 4 0.04
92 3 0.03
ACGTcount: A:0.24, C:0.22, G:0.15, T:0.40
Consensus pattern (90 bp):
TCTTTCAACTATGGTCTTATTCATTAGAATCATGATGCCAAAGCATCTTTCAGCTATGGTCTTAC
TCGTTAGAATCATGATGCCATAACA
Found at i:17153755 original size:45 final size:45
Alignment explanation
Indices: 17153633--17153805 Score: 147
Period size: 45 Copynumber: 3.8 Consensus size: 45
17153623 GTTAGAATCG
* * * * *
17153633 TGATGCCATAACATCTTTCAGCTCTGGTCTTATTCA--TTAGAATCA
1 TGATGCCATAACGTCTTTCAACTATGGTCTTACTCATTTTTG-AT-A
* *
17153678 TGATGCCATAACGTCTTTCAGCTATTGTCTTACTCATTTTTGATA
1 TGATGCCATAACGTCTTTCAACTATGGTCTTACTCATTTTTGATA
** * *
17153723 TGATGCCATAATTTCTTTCAACTATGGTCTTACGT-AATTTTGGTA
1 TGATGCCATAACGTCTTTCAACTATGGTCTTAC-TCATTTTTGATA
* ** *
17153768 T-AGTGCCACAGTGTCTTTCAACTATGGTCTTAATCATT
1 TGA-TGCCATAACGTCTTTCAACTATGGTCTTACTCATT
17153806 CCCTTCAAAC
Statistics
Matches: 107, Mismatches: 16, Indels: 10
0.80 0.12 0.08
Matches are distributed among these distances:
44 2 0.02
45 99 0.93
46 3 0.03
47 3 0.03
ACGTcount: A:0.24, C:0.20, G:0.14, T:0.42
Consensus pattern (45 bp):
TGATGCCATAACGTCTTTCAACTATGGTCTTACTCATTTTTGATA
Found at i:17159185 original size:45 final size:45
Alignment explanation
Indices: 17159121--17159247 Score: 164
Period size: 45 Copynumber: 2.8 Consensus size: 45
17159111 ATGGTTGAAG
* *
17159121 GATGCCATGGTATTTTTCAACCATGGTCTTATTCATTCCCGACTA
1 GATGCCATGGTATCTTTCAACCATGGTCTTATTCATTCCCAACTA
* * * *
17159166 GATGCCATGGTGTCTTTCAACCATGATCTTATTCATTCCCAATTT
1 GATGCCATGGTATCTTTCAACCATGGTCTTATTCATTCCCAACTA
* * * *
17159211 GATGCTATAGTATCTCTCTACCATGGTCTTATTCATT
1 GATGCCATGGTATCTTTCAACCATGGTCTTATTCATT
17159248 TTACGTCGTG
Statistics
Matches: 70, Mismatches: 12, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
45 70 1.00
ACGTcount: A:0.22, C:0.24, G:0.14, T:0.40
Consensus pattern (45 bp):
GATGCCATGGTATCTTTCAACCATGGTCTTATTCATTCCCAACTA
Found at i:17160087 original size:8 final size:8
Alignment explanation
Indices: 17160074--17160109 Score: 72
Period size: 8 Copynumber: 4.5 Consensus size: 8
17160064 AATTTATAAC
17160074 ATTTTACA
1 ATTTTACA
17160082 ATTTTACA
1 ATTTTACA
17160090 ATTTTACA
1 ATTTTACA
17160098 ATTTTACA
1 ATTTTACA
17160106 ATTT
1 ATTT
17160110 GACCCTTGGA
Statistics
Matches: 28, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
8 28 1.00
ACGTcount: A:0.36, C:0.11, G:0.00, T:0.53
Consensus pattern (8 bp):
ATTTTACA
Found at i:17173317 original size:56 final size:50
Alignment explanation
Indices: 17173221--17173358 Score: 152
Period size: 56 Copynumber: 2.6 Consensus size: 50
17173211 ATTTGGGTAA
* * ** *
17173221 AGAGATCCCATGTAAGACCATGTCTGGGACATGGCATTGGCATCATTGAGATTATG
1 AGAGGTCCCATGTAAGACCATGTTTGGGACATAACATTGGCA-C-CT-AG---ATG
*
17173277 AGAGGTCCCATGTAAGACCATGTTTGGGACATAACGTTGGCACCTAGATG
1 AGAGGTCCCATGTAAGACCATGTTTGGGACATAACATTGGCACCTAGATG
17173327 AGAGGTCCC-TCGTAAGACCATGTTTGGGACAT
1 AGAGGTCCCAT-GTAAGACCATGTTTGGGACAT
17173359 GGTATGGGCA
Statistics
Matches: 75, Mismatches: 6, Indels: 8
0.84 0.07 0.09
Matches are distributed among these distances:
49 1 0.01
50 33 0.44
53 2 0.03
54 1 0.01
55 1 0.01
56 37 0.49
ACGTcount: A:0.28, C:0.20, G:0.28, T:0.25
Consensus pattern (50 bp):
AGAGGTCCCATGTAAGACCATGTTTGGGACATAACATTGGCACCTAGATG
Found at i:17173378 original size:50 final size:49
Alignment explanation
Indices: 17173221--17173397 Score: 160
Period size: 50 Copynumber: 3.4 Consensus size: 49
17173211 ATTTGGGTAA
* * *
17173221 AGAGATCCCATGTAAGACCATGTCTGGGACATGGCATTGGCATCATTGAGATTATG
1 AGAGGTCCCATGTAAGACCATGTTTGGGACATGGTA-TGGCATC-----GA-TATG
* * * *
17173277 AGAGGTCCCATGTAAGACCATGTTTGGGACATAACGT-TGGCACCTAGATG
1 AGAGGTCCCATGTAAGACCATGTTTGGGACAT--GGTATGGCATCGATATG
17173327 AGAGGTCCC-TCGTAAGACCATGTTTGGGACATGGTATGGGCATCGATATG
1 AGAGGTCCCAT-GTAAGACCATGTTTGGGACATGGTAT-GGCATCGATATG
**
17173377 AGAACTCCCATGTAAGACCAT
1 AGAGGTCCCATGTAAGACCAT
17173398 ATCTGGGATA
Statistics
Matches: 102, Mismatches: 13, Indels: 18
0.77 0.10 0.14
Matches are distributed among these distances:
48 2 0.02
49 2 0.02
50 59 0.58
51 2 0.02
56 36 0.35
58 1 0.01
ACGTcount: A:0.28, C:0.20, G:0.27, T:0.25
Consensus pattern (49 bp):
AGAGGTCCCATGTAAGACCATGTTTGGGACATGGTATGGCATCGATATG
Found at i:17173668 original size:36 final size:36
Alignment explanation
Indices: 17173627--17173698 Score: 144
Period size: 36 Copynumber: 2.0 Consensus size: 36
17173617 TGAGAAAGAA
17173627 ATTTCAGCAAGGGAGGAGTAAGTTATAATCATGAGT
1 ATTTCAGCAAGGGAGGAGTAAGTTATAATCATGAGT
17173663 ATTTCAGCAAGGGAGGAGTAAGTTATAATCATGAGT
1 ATTTCAGCAAGGGAGGAGTAAGTTATAATCATGAGT
17173699 TATCTAAGTA
Statistics
Matches: 36, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
36 36 1.00
ACGTcount: A:0.36, C:0.08, G:0.28, T:0.28
Consensus pattern (36 bp):
ATTTCAGCAAGGGAGGAGTAAGTTATAATCATGAGT
Found at i:17179994 original size:50 final size:52
Alignment explanation
Indices: 17179882--17180079 Score: 170
Period size: 50 Copynumber: 3.8 Consensus size: 52
17179872 ATTTGGGTAA
*
17179882 AGAGATCCCATGTAAGACCATGTCTGGGACATGGCATTGGCATCATTGAGATTATG
1 AGAGGTCCCATGTAAGACCATGTCTGGGACATGGCATTGGCATC--TGAG--TATG
* * *
17179938 AGAGGTCCCATGTAAGACCATGTTTGGGACATGGCGTTGGCATC-GAG-GTG
1 AGAGGTCCCATGTAAGACCATGTCTGGGACATGGCATTGGCATCTGAGTATG
*** * * * * * * *
17179988 AGAGGTCCCCCATAAGACTATGTCTCGGATATGGTATGGGCA-C-CAATATG
1 AGAGGTCCCATGTAAGACCATGTCTGGGACATGGCATTGGCATCTGAGTATG
** * *
17180038 AGAACTCCCATGTAAGACCATATCTGGGATATGGCATTGGCA
1 AGAGGTCCCATGTAAGACCATGTCTGGGACATGGCATTGGCA
17180080 GTACAGAAAA
Statistics
Matches: 114, Mismatches: 27, Indels: 8
0.77 0.18 0.05
Matches are distributed among these distances:
49 2 0.02
50 68 0.60
53 3 0.03
56 41 0.36
ACGTcount: A:0.27, C:0.20, G:0.28, T:0.25
Consensus pattern (52 bp):
AGAGGTCCCATGTAAGACCATGTCTGGGACATGGCATTGGCATCTGAGTATG
Found at i:17187769 original size:15 final size:15
Alignment explanation
Indices: 17187749--17187780 Score: 55
Period size: 15 Copynumber: 2.1 Consensus size: 15
17187739 CATTTCACTA
*
17187749 TTATGTCTTTTGTAT
1 TTATGTCTTTTATAT
17187764 TTATGTCTTTTATAT
1 TTATGTCTTTTATAT
17187779 TT
1 TT
17187781 TGTATGCATA
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:0.16, C:0.06, G:0.09, T:0.69
Consensus pattern (15 bp):
TTATGTCTTTTATAT
Found at i:17191679 original size:44 final size:44
Alignment explanation
Indices: 17191623--17191934 Score: 223
Period size: 44 Copynumber: 6.8 Consensus size: 44
17191613 AGAAAGTTTT
*
17191623 GCTTCAATCTGCTCCACTGCAACTTCAGGGAGATAAGGTTTGTG
1 GCTTCAACCTGCTCCACTGCAACTTCAGGGAGATAAGGTTTGTG
* * * ** *
17191667 GCTTTAACCTGCTCTACTACAACTTCAAAGAGATAAGGATTGTAG
1 GCTTCAACCTGCTCCACTGCAACTTCAGGGAGATAAGGTTTGT-G
* *
17191712 CCAGTCTTCAATCTGCTCCACTGCAACTTCAGGGAGAT-AGGATTTGTT
1 ---G-CTTCAACCTGCTCCACTGCAACTTCAGGGAGATAAGG-TTTGTG
* * * * *
17191760 TCTTTTTAACCTGTTCCACTGCAACTTCAGGGAGATAAGGCTTGTA
1 GC--TTCAACCTGCTCCACTGCAACTTCAGGGAGATAAGGTTTGTG
* * * *
17191806 ACTTCAACCTGCTCTACTGCAACTTCAGAGAGATAAGGTTTGCTA
1 GCTTCAACCTGCTCCACTGCAACTTCAGGGAGATAAGGTTTG-TG
* ** * * * * * **
17191851 TCTTTGATCTACTTCC-CTGCAACTTTAGGAAGATAAGATCCATAATG
1 GCTTCAACCTGC-TCCACTGCAACTTCAGGGAGATAAGGT---TTGTG
* *
17191898 GCTTCAATCTGCTCCACTACAACTTCAGGGAGATAAG
1 GCTTCAACCTGCTCCACTGCAACTTCAGGGAGATAAG
17191935 ATTCACCATA
Statistics
Matches: 206, Mismatches: 47, Indels: 27
0.74 0.17 0.10
Matches are distributed among these distances:
44 72 0.35
45 29 0.14
46 39 0.19
47 30 0.15
48 5 0.02
49 31 0.15
ACGTcount: A:0.27, C:0.23, G:0.19, T:0.30
Consensus pattern (44 bp):
GCTTCAACCTGCTCCACTGCAACTTCAGGGAGATAAGGTTTGTG
Found at i:17191731 original size:93 final size:89
Alignment explanation
Indices: 17191624--17191847 Score: 272
Period size: 93 Copynumber: 2.5 Consensus size: 89
17191614 GAAAGTTTTG
*
17191624 CTTCAATCTGCTCCACTGCAACTTCAGGGAGATAAGGTTTGTGGC-TTTAACCTGCTCTACTACA
1 CTTCAATCTGCTCCACTGCAACTTCAGGGAGATAAGGTTTGTGGCTTTTAACCTGCTCCACTACA
17191688 ACTTCAAAGAGATAAGGATTGTAGCCA
66 ACTTCAAAGAGATAAGGATTGTA---A
** *
17191715 GTCTTCAATCTGCTCCACTGCAACTTCAGGGAGAT-AGGATTTGTTTCTTTTTAACCTGTTCCAC
1 --CTTCAATCTGCTCCACTGCAACTTCAGGGAGATAAGG-TTTGTGGC-TTTTAACCTGCTCCAC
* ** *
17191779 TGCAACTTCAGGGAGATAAGGCTTGTAA
62 TACAACTTCAAAGAGATAAGGATTGTAA
* * *
17191807 CTTCAACCTGCTCTACTGCAACTTCAGAGAGATAAGGTTTG
1 CTTCAATCTGCTCCACTGCAACTTCAGGGAGATAAGGTTTG
17191848 CTATCTTTGA
Statistics
Matches: 116, Mismatches: 11, Indels: 11
0.84 0.08 0.08
Matches are distributed among these distances:
90 34 0.29
91 3 0.03
92 4 0.03
93 39 0.34
95 36 0.31
ACGTcount: A:0.26, C:0.23, G:0.20, T:0.31
Consensus pattern (89 bp):
CTTCAATCTGCTCCACTGCAACTTCAGGGAGATAAGGTTTGTGGCTTTTAACCTGCTCCACTACA
ACTTCAAAGAGATAAGGATTGTAA
Found at i:17192117 original size:85 final size:85
Alignment explanation
Indices: 17192004--17192300 Score: 249
Period size: 85 Copynumber: 3.4 Consensus size: 85
17191994 TTGCCTTCAG
* * * * *
17192004 TCTGCTCTACAGCAACTTCAGGGAGATAAGACTAGTAACTTTAACCTGCTTCGTTGCAACTTCAG
1 TCTGCTCTACTGCAACTTCAGAGAGATAAGACTAGTAACTTCAAACTGCTTCGCTGCAACTTCAG
*
17192069 GGAGATAAGGTTTGATATGA
66 GGAGATAAGATTTGATATGA
* * * * * *
17192089 TCTGCTCTACTGTAACTTTAGAGAGATAAGATCTATAATATATAGCTTCAATCTG-TTCCACTGT
1 TCTGCTCTACTGCAACTTCAGAGAGATAAGA-C--T-A-GTA-A-CTTCAAACTGCTT-CGCTGC
* * *
17192153 AACTTCAGGGAAATAAGATTCACT-ATCTTCAA
58 AACTTCAGGGAGATAAGATT---TGAT-AT-GA
* * * * * *
17192185 TCTCCTCCACTGTAACTTCAAAAAGATAAGACTAGTAACTTCAAACTGC-TCTGCTGCAACTTTA
1 TCTGCTCTACTGCAACTTCAGAGAGATAAGACTAGTAACTTCAAACTGCTTC-GCTGCAACTTCA
17192249 GGGAGATAAGATTTGATATGA
65 GGGAGATAAGATTTGATATGA
*
17192270 TCTGCTCAACTGCAACTTCAGAGAGATAAGA
1 TCTGCTCTACTGCAACTTCAGAGAGATAAGA
17192301 TCTATAATTT
Statistics
Matches: 164, Mismatches: 32, Indels: 32
0.72 0.14 0.14
Matches are distributed among these distances:
85 54 0.33
86 3 0.02
87 2 0.01
88 2 0.01
89 32 0.20
90 3 0.02
91 5 0.03
92 30 0.18
93 1 0.01
94 2 0.01
95 3 0.02
96 27 0.16
ACGTcount: A:0.33, C:0.20, G:0.18, T:0.30
Consensus pattern (85 bp):
TCTGCTCTACTGCAACTTCAGAGAGATAAGACTAGTAACTTCAAACTGCTTCGCTGCAACTTCAG
GGAGATAAGATTTGATATGA
Found at i:17192198 original size:45 final size:45
Alignment explanation
Indices: 17192134--17192441 Score: 207
Period size: 45 Copynumber: 6.8 Consensus size: 45
17192124 TAATATATAG
* *
17192134 CTTCAATCTGTTCCACTGTAACTTCAGGGAAATAAGATTCACTAT
1 CTTCAATCTGCTCCACTGCAACTTCAGGGAAATAAGATTCACTAT
* * ** * * *
17192179 CTTCAATCTCCTCCACTGTAACTTCA-AAAAGATAAGACT-AGTAA
1 CTTCAATCTGCTCCACTGCAACTTCAGGGAA-ATAAGATTCACTAT
* ** * *
17192223 CTTCAAACTGCTCTGCTGCAACTTTAGGGAGATAAGATT---TGAT
1 CTTCAATCTGCTCCACTGCAACTTCAGGGAAATAAGATTCACT-AT
* * * * * * *
17192266 -AT-GATCTGCTCAACTGCAACTTCAGAGAGATAAGATCTATAATTTAT
1 CTTCAATCTGCTCCACTGCAACTTCAGGGAAATAAGA--T-TCA-CTAT
* * *
17192313 AGCTTCAATATGTTCCACTGTAACTTCAGGGAAATAAGATTCACTAT
1 --CTTCAATCTGCTCCACTGCAACTTCAGGGAAATAAGATTCACTAT
* * * *
17192360 CTTCAGTCTGCTCCACTACAACTTTAGGGAAATAAGATTCGCTAT
1 CTTCAATCTGCTCCACTGCAACTTCAGGGAAATAAGATTCACTAT
* * * *
17192405 CTTCAGTCTGCTCCACTACAACTTCAAGGAGATAAGA
1 CTTCAATCTGCTCCACTGCAACTTCAGGGAAATAAGA
17192442 CTAGCAATTT
Statistics
Matches: 204, Mismatches: 45, Indels: 28
0.74 0.16 0.10
Matches are distributed among these distances:
41 27 0.13
42 2 0.01
43 2 0.01
44 33 0.16
45 104 0.51
47 5 0.02
48 3 0.01
49 1 0.00
50 1 0.00
51 26 0.13
ACGTcount: A:0.33, C:0.22, G:0.15, T:0.31
Consensus pattern (45 bp):
CTTCAATCTGCTCCACTGCAACTTCAGGGAAATAAGATTCACTAT
Found at i:17192204 original size:181 final size:181
Alignment explanation
Indices: 17191904--17192441 Score: 605
Period size: 181 Copynumber: 3.0 Consensus size: 181
17191894 AATGGCTTCA
* * * * * * *
17191904 ATCTGCTCCACTACAACTTCAGGGAGATAAGATTCACCATAACT-TGTAGCTTTAATTTGTTCCA
1 ATCTGCTCAACTGCAACTTCAGAGAGATAAGA-T--CTATAA-TATATAGCTTCAATATGTTCCA
* * ** ** * *
17191968 CTGCAA-TGCCAGGGAAATAAGATTCGTTGCCTTCAGTCTGCTCTACAGCAACTTCAGGGAGATA
62 CTGTAACT-TCAGGGAAATAAGATTCACTATCTTCAGTCTGCTCCACTGCAACTTCAGGGAGATA
* * * *
17192032 AGACTAGTAACTTTAACCTGCT-TCGTTGCAACTTCAGGGAGATAAGGTTTGATATG
126 AGACTAGTAACTTCAAACTGCTCT-GCTGCAACTTCAGGGAGATAAGATTTGATATG
* * * *
17192088 ATCTGCTCTACTGTAACTTTAGAGAGATAAGATCTATAATATATAGCTTCAATCTGTTCCACTGT
1 ATCTGCTCAACTGCAACTTCAGAGAGATAAGATCTATAATATATAGCTTCAATATGTTCCACTGT
* * * ***
17192153 AACTTCAGGGAAATAAGATTCACTATCTTCAATCTCCTCCACTGTAACTTCAAAAAGATAAGACT
66 AACTTCAGGGAAATAAGATTCACTATCTTCAGTCTGCTCCACTGCAACTTCAGGGAGATAAGACT
*
17192218 AGTAACTTCAAACTGCTCTGCTGCAACTTTAGGGAGATAAGATTTGATATG
131 AGTAACTTCAAACTGCTCTGCTGCAACTTCAGGGAGATAAGATTTGATATG
*
17192269 ATCTGCTCAACTGCAACTTCAGAGAGATAAGATCTATAATTTATAGCTTCAATATGTTCCACTGT
1 ATCTGCTCAACTGCAACTTCAGAGAGATAAGATCTATAATATATAGCTTCAATATGTTCCACTGT
* * * *
17192334 AACTTCAGGGAAATAAGATTCACTATCTTCAGTCTGCTCCACTACAACTTTAGGGAAATAAGATT
66 AACTTCAGGGAAATAAGATTCACTATCTTCAGTCTGCTCCACTGCAACTTCAGGGAGATAAGACT
* * ** ** * *
17192399 CGCTATCTTCAGTCTGCTCCACTACAACTTCAAGGAGATAAGA
131 AG-TAACTTCAAACTGCTCTGCTGCAACTTCAGGGAGATAAGA
17192442 CTAGCAATTT
Statistics
Matches: 298, Mismatches: 52, Indels: 10
0.83 0.14 0.03
Matches are distributed among these distances:
180 1 0.00
181 235 0.79
182 34 0.11
183 1 0.00
184 27 0.09
ACGTcount: A:0.32, C:0.21, G:0.17, T:0.31
Consensus pattern (181 bp):
ATCTGCTCAACTGCAACTTCAGAGAGATAAGATCTATAATATATAGCTTCAATATGTTCCACTGT
AACTTCAGGGAAATAAGATTCACTATCTTCAGTCTGCTCCACTGCAACTTCAGGGAGATAAGACT
AGTAACTTCAAACTGCTCTGCTGCAACTTCAGGGAGATAAGATTTGATATG
Found at i:17219459 original size:29 final size:29
Alignment explanation
Indices: 17219413--17219485 Score: 128
Period size: 29 Copynumber: 2.5 Consensus size: 29
17219403 AGTCGAAACT
* *
17219413 ATCCCTTTTCATATTTGATGTTCATCACC
1 ATCCCTTTTCATAGTTGATGGTCATCACC
17219442 ATCCCTTTTCATAGTTGATGGTCATCACC
1 ATCCCTTTTCATAGTTGATGGTCATCACC
17219471 ATCCCTTTTCATAGT
1 ATCCCTTTTCATAGT
17219486 CGACAATCGA
Statistics
Matches: 42, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
29 42 1.00
ACGTcount: A:0.21, C:0.27, G:0.10, T:0.42
Consensus pattern (29 bp):
ATCCCTTTTCATAGTTGATGGTCATCACC
Found at i:17220596 original size:26 final size:26
Alignment explanation
Indices: 17220567--17220623 Score: 87
Period size: 26 Copynumber: 2.2 Consensus size: 26
17220557 ATAAAAATAT
* *
17220567 TTCTGTCTCAGTTCATAGAAATGAGG
1 TTCTGGCTCAGTTCATAGAAACGAGG
*
17220593 TTCTGGCTCAGTTTATAGAAACGAGG
1 TTCTGGCTCAGTTCATAGAAACGAGG
17220619 TTCTG
1 TTCTG
17220624 ATACCTCATT
Statistics
Matches: 28, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
26 28 1.00
ACGTcount: A:0.25, C:0.16, G:0.25, T:0.35
Consensus pattern (26 bp):
TTCTGGCTCAGTTCATAGAAACGAGG
Found at i:17221803 original size:22 final size:22
Alignment explanation
Indices: 17221756--17221799 Score: 63
Period size: 22 Copynumber: 2.0 Consensus size: 22
17221746 AACCAAAGTC
*
17221756 ATTTAGTTTAGTTTTATATTTT
1 ATTTAGTTTAATTTTATATTTT
*
17221778 ATTTATTTTAATTTTA-ATTTT
1 ATTTAGTTTAATTTTATATTTT
17221799 A
1 A
17221800 ATTTTCAATT
Statistics
Matches: 20, Mismatches: 2, Indels: 1
0.87 0.09 0.04
Matches are distributed among these distances:
21 6 0.30
22 14 0.70
ACGTcount: A:0.27, C:0.00, G:0.05, T:0.68
Consensus pattern (22 bp):
ATTTAGTTTAATTTTATATTTT
Found at i:17221811 original size:7 final size:6
Alignment explanation
Indices: 17221762--17221817 Score: 55
Period size: 6 Copynumber: 9.5 Consensus size: 6
17221752 AGTCATTTAG
*
17221762 TTTAGT TTTATAT TTT-A- TTT-AT TTTAAT TTTAAT TTTAAT TTTCAAT
1 TTTAAT TTTA-AT TTTAAT TTTAAT TTTAAT TTTAAT TTTAAT TTT-AAT
*
17221809 TTTACT TTT
1 TTTAAT TTT
17221818 GTTTGTTACT
Statistics
Matches: 44, Mismatches: 2, Indels: 8
0.81 0.04 0.15
Matches are distributed among these distances:
4 4 0.09
5 4 0.09
6 26 0.59
7 10 0.23
ACGTcount: A:0.25, C:0.04, G:0.02, T:0.70
Consensus pattern (6 bp):
TTTAAT
Found at i:17221811 original size:13 final size:12
Alignment explanation
Indices: 17221762--17221817 Score: 55
Period size: 13 Copynumber: 4.8 Consensus size: 12
17221752 AGTCATTTAG
*
17221762 TTTAGTTTTATAT
1 TTTAATTTTA-AT
17221775 TTT-A-TTT-AT
1 TTTAATTTTAAT
17221784 TTTAATTTTAAT
1 TTTAATTTTAAT
17221796 TTTAATTTTCAAT
1 TTTAATTTT-AAT
*
17221809 TTTACTTTT
1 TTTAATTTT
17221818 GTTTGTTACT
Statistics
Matches: 37, Mismatches: 2, Indels: 8
0.79 0.04 0.17
Matches are distributed among these distances:
9 5 0.14
10 1 0.03
11 6 0.16
12 11 0.30
13 14 0.38
ACGTcount: A:0.25, C:0.04, G:0.02, T:0.70
Consensus pattern (12 bp):
TTTAATTTTAAT
Found at i:17221826 original size:13 final size:12
Alignment explanation
Indices: 17221808--17221849 Score: 57
Period size: 13 Copynumber: 3.3 Consensus size: 12
17221798 TAATTTTCAA
17221808 TTTTACTTTTGT
1 TTTTACTTTTGT
17221820 TTGTTACTTTTGT
1 TT-TTACTTTTGT
*
17221833 CTTTTATTTTTGT
1 -TTTTACTTTTGT
17221846 TTTT
1 TTTT
17221850 GTTTTCATTT
Statistics
Matches: 27, Mismatches: 1, Indels: 4
0.84 0.03 0.12
Matches are distributed among these distances:
12 6 0.22
13 19 0.70
14 2 0.07
ACGTcount: A:0.07, C:0.07, G:0.10, T:0.76
Consensus pattern (12 bp):
TTTTACTTTTGT
Found at i:17221848 original size:6 final size:6
Alignment explanation
Indices: 17221827--17221913 Score: 83
Period size: 6 Copynumber: 14.5 Consensus size: 6
17221817 TGTTTGTTAC
*
17221827 TTTTGT CTTTTAT TTTTGT TTTTGT TTTCAT-T TTTTGT TTTT-T GTTTT-T
1 TTTTGT -TTTTGT TTTTGT TTTTGT TTT--TGT TTTTGT TTTTGT -TTTTGT
* *
17221876 TTTGGA TTTTGT TTTTGT TTTTGT TTTTG- TTTTGT TTT
1 TTTTGT TTTTGT TTTTGT TTTTGT TTTTGT TTTTGT TTT
17221914 ATTATGCACT
Statistics
Matches: 68, Mismatches: 6, Indels: 13
0.78 0.07 0.15
Matches are distributed among these distances:
5 10 0.15
6 48 0.71
7 9 0.13
8 1 0.01
ACGTcount: A:0.03, C:0.02, G:0.14, T:0.80
Consensus pattern (6 bp):
TTTTGT
Found at i:17223620 original size:10 final size:11
Alignment explanation
Indices: 17223584--17223619 Score: 63
Period size: 11 Copynumber: 3.3 Consensus size: 11
17223574 ATTTAGGAGT
*
17223584 AAAATGAGCGA
1 AAAATGAGTGA
17223595 AAAATGAGTGA
1 AAAATGAGTGA
17223606 AAAATGAGTGA
1 AAAATGAGTGA
17223617 AAA
1 AAA
17223620 TCAGAAAATT
Statistics
Matches: 24, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
11 24 1.00
ACGTcount: A:0.58, C:0.03, G:0.25, T:0.14
Consensus pattern (11 bp):
AAAATGAGTGA
Found at i:17225065 original size:46 final size:46
Alignment explanation
Indices: 17225002--17225095 Score: 188
Period size: 46 Copynumber: 2.0 Consensus size: 46
17224992 AATAATTTCG
17225002 TGATAGTTACCTTCATAGGATATCCTTAATCTCTATGGGATGAATT
1 TGATAGTTACCTTCATAGGATATCCTTAATCTCTATGGGATGAATT
17225048 TGATAGTTACCTTCATAGGATATCCTTAATCTCTATGGGATGAATT
1 TGATAGTTACCTTCATAGGATATCCTTAATCTCTATGGGATGAATT
17225094 TG
1 TG
17225096 TTCTCCCAAT
Statistics
Matches: 48, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
46 48 1.00
ACGTcount: A:0.28, C:0.15, G:0.18, T:0.39
Consensus pattern (46 bp):
TGATAGTTACCTTCATAGGATATCCTTAATCTCTATGGGATGAATT
Found at i:17227112 original size:59 final size:59
Alignment explanation
Indices: 17227031--17227182 Score: 164
Period size: 59 Copynumber: 2.6 Consensus size: 59
17227021 TGTTAACCTT
* ** *
17227031 AAAATCCTACATTGGACAGTTTAAGCAAAATTTAGTGA-AAAAAAAAGCT-CATTAAGCTA
1 AAAATCCTTCATTGGATGGTTTAAGCAAAAGTTAGTGAGAAAAAAAA-CTCCA-TAAGCTA
** * * * * *
17227090 AAAATCCTTCATTTTATGGTTTAAGAAAAAGTTAGTGAGAGAAAATACTCCATAAGTTG
1 AAAATCCTTCATTGGATGGTTTAAGCAAAAGTTAGTGAGAAAAAAAACTCCATAAGCTA
*
17227149 AAAATCCTTCATTGGATGGCTTAAGCAAAAGTTA
1 AAAATCCTTCATTGGATGGTTTAAGCAAAAGTTA
17227183 AAGCCGAAAG
Statistics
Matches: 76, Mismatches: 15, Indels: 4
0.80 0.16 0.04
Matches are distributed among these distances:
59 68 0.89
60 8 0.11
ACGTcount: A:0.43, C:0.12, G:0.16, T:0.29
Consensus pattern (59 bp):
AAAATCCTTCATTGGATGGTTTAAGCAAAAGTTAGTGAGAAAAAAAACTCCATAAGCTA
Found at i:17227199 original size:59 final size:57
Alignment explanation
Indices: 17227136--17227288 Score: 176
Period size: 51 Copynumber: 2.7 Consensus size: 57
17227126 GAGAGAAAAT
17227136 ACTCCA-TAAGTTGAAAATCCTTCATTGGATGGCTTAAGCAAAAGTTAAAGCCGAAAGAA
1 ACTCCATTAAGTT-AAAAT-CTTCATTGG-TGGCTTAAGCAAAAGTTAAAGCCGAAAGAA
*
17227195 ACTCCATTAAGTT-AAA--TT-ATT--TGGCTTAAGCAAAAGTTAAAGTCGAAAGAA
1 ACTCCATTAAGTTAAAATCTTCATTGGTGGCTTAAGCAAAAGTTAAAGCCGAAAGAA
* * *
17227246 ACTCCATTAAGTTAAAGTCTTTCTTTGGGTGACTTAAGCAAAA
1 ACTCCATTAAGTTAAAATC-TTCATT-GGTGGCTTAAGCAAAA
17227289 ATTTAGGGCG
Statistics
Matches: 81, Mismatches: 4, Indels: 18
0.79 0.04 0.17
Matches are distributed among these distances:
51 42 0.52
52 2 0.02
54 3 0.04
55 4 0.05
56 2 0.02
58 3 0.04
59 19 0.23
60 6 0.07
ACGTcount: A:0.39, C:0.15, G:0.17, T:0.29
Consensus pattern (57 bp):
ACTCCATTAAGTTAAAATCTTCATTGGTGGCTTAAGCAAAAGTTAAAGCCGAAAGAA
Found at i:17227242 original size:51 final size:51
Alignment explanation
Indices: 17227165--17227261 Score: 185
Period size: 51 Copynumber: 1.9 Consensus size: 51
17227155 CTTCATTGGA
17227165 TGGCTTAAGCAAAAGTTAAAGCCGAAAGAAACTCCATTAAGTTAAATTATT
1 TGGCTTAAGCAAAAGTTAAAGCCGAAAGAAACTCCATTAAGTTAAATTATT
*
17227216 TGGCTTAAGCAAAAGTTAAAGTCGAAAGAAACTCCATTAAGTTAAA
1 TGGCTTAAGCAAAAGTTAAAGCCGAAAGAAACTCCATTAAGTTAAA
17227262 GTCTTTCTTT
Statistics
Matches: 45, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
51 45 1.00
ACGTcount: A:0.44, C:0.13, G:0.16, T:0.26
Consensus pattern (51 bp):
TGGCTTAAGCAAAAGTTAAAGCCGAAAGAAACTCCATTAAGTTAAATTATT
Found at i:17228581 original size:67 final size:67
Alignment explanation
Indices: 17228510--17228642 Score: 151
Period size: 67 Copynumber: 2.0 Consensus size: 67
17228500 GTCAAAGTTG
** * * * *
17228510 CAAAGTTCAAAACT-AGTTTTCTCTCTATGTTGAAGTTACAAAGGTTCTTCTCACCATCTTGATG
1 CAAAGTTCAAAA-TGAGTCCTCTCGCCATGTTGAAGTTACAAAAGTTCTTCACACCATCTTGATG
17228574 TTA
65 TTA
* * * * *
17228577 CAAAGTTCGAAATGGGTCCTCTCGCCATGTTGAAGTTGCAAAAGTTTTTCACACCATGTTGATGT
1 CAAAGTTCAAAATGAGTCCTCTCGCCATGTTGAAGTTACAAAAGTTCTTCACACCATCTTGATGT
17228642 T
66 T
17228643 GGAAAAAGTT
Statistics
Matches: 54, Mismatches: 11, Indels: 2
0.81 0.16 0.03
Matches are distributed among these distances:
66 1 0.02
67 53 0.98
ACGTcount: A:0.27, C:0.20, G:0.17, T:0.36
Consensus pattern (67 bp):
CAAAGTTCAAAATGAGTCCTCTCGCCATGTTGAAGTTACAAAAGTTCTTCACACCATCTTGATGT
TA
Done.