Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: At_chr1
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: 106989029
ACGTcount: A:0.31, C:0.17, G:0.17, T:0.31
Warning! 3754247 characters in sequence are not A, C, G, or T
File 31 of 322
Found at i:9214859 original size:93 final size:94
Alignment explanation
Indices: 9214756--9214945 Score: 249
Period size: 96 Copynumber: 2.0 Consensus size: 94
9214746 AATTTTAAGG
* * * *
9214756 GATTAAAATTAACTTTTAATGAAAATATTGAAGT-A-AGTTATGATAGTATTCCCTAGTTAGTGC
1 GATTAAAATTAACTTTTAATGAAAATAGTGAA-TAAGAGTTATGATAGTATTCCCGAGTCAATGC
9214819 GAGATTAAAACTAACTTTTTAATGAAAATA
65 GAGATTAAAACTAACTTTTTAATGAAAATA
* * * *
9214849 GATTAAAATTAATTTTTAATTAAAATAGTGAATAAATGAGTTATGGTAGTATTCTCGAGTCAATG
1 GATTAAAATTAACTTTTAATGAAAATAGTGAAT-AA-GAGTTATGATAGTATTCCCGAGTCAATG
* *
9214914 TGGGATTAAAACTAACTTTTTAATGAAAATA
64 CGAGATTAAAACTAACTTTTTAATGAAAATA
9214945 G
1 G
9214946 TGAATAAGTG
Statistics
Matches: 83, Mismatches: 10, Indels: 5
0.85 0.10 0.05
Matches are distributed among these distances:
92 1 0.01
93 29 0.35
94 1 0.01
96 52 0.63
ACGTcount: A:0.42, C:0.06, G:0.15, T:0.37
Consensus pattern (94 bp):
GATTAAAATTAACTTTTAATGAAAATAGTGAATAAGAGTTATGATAGTATTCCCGAGTCAATGCG
AGATTAAAACTAACTTTTTAATGAAAATA
Found at i:9214873 original size:27 final size:28
Alignment explanation
Indices: 9214820--9214876 Score: 89
Period size: 27 Copynumber: 2.1 Consensus size: 28
9214810 AGTTAGTGCG
9214820 AGATTAAAACTAACTTTTTAATGAAAAT
1 AGATTAAAACTAACTTTTTAATGAAAAT
* *
9214848 AGATTAAAATTAA-TTTTTAATTAAAAT
1 AGATTAAAACTAACTTTTTAATGAAAAT
9214875 AG
1 AG
9214877 TGAATAAATG
Statistics
Matches: 27, Mismatches: 2, Indels: 1
0.90 0.07 0.03
Matches are distributed among these distances:
27 15 0.56
28 12 0.44
ACGTcount: A:0.51, C:0.04, G:0.07, T:0.39
Consensus pattern (28 bp):
AGATTAAAACTAACTTTTTAATGAAAAT
Found at i:9214983 original size:69 final size:68
Alignment explanation
Indices: 9214849--9214984 Score: 182
Period size: 69 Copynumber: 2.0 Consensus size: 68
9214839 AATGAAAATA
* * * ** * *
9214849 GATTAAAATTAATTTTTAATTAAAATAGTGAATAAATGAGTTATGGTAGTATTCTCGAGTCAATG
1 GATTAAAACTAATTTTTAATGAAAATAGTGAATAAATGAGCTATGACAGTATTCTCGAATAAATG
9214914 TGG
66 TGG
* *
9214917 GATTAAAACTAACTTTTTAATGAAAATAGTGAATAAGTGAGCTATGACAGTATTCTCTAATAAAT
1 GATTAAAACTAA-TTTTTAATGAAAATAGTGAATAAATGAGCTATGACAGTATTCTCGAATAAAT
9214982 GTG
65 GTG
9214985 ATCAAAATTA
Statistics
Matches: 58, Mismatches: 9, Indels: 1
0.85 0.13 0.01
Matches are distributed among these distances:
68 11 0.19
69 47 0.81
ACGTcount: A:0.40, C:0.07, G:0.18, T:0.36
Consensus pattern (68 bp):
GATTAAAACTAATTTTTAATGAAAATAGTGAATAAATGAGCTATGACAGTATTCTCGAATAAATG
TGG
Found at i:9217990 original size:39 final size:39
Alignment explanation
Indices: 9217945--9218045 Score: 130
Period size: 39 Copynumber: 2.6 Consensus size: 39
9217935 GGTGTATTGA
* * * *
9217945 ATCGGGCCTTGAGCCTAACAGGCCTCGTGCCGGTGACTT
1 ATCGGGCTTTGAGCCTAGCAGGCCTCATGCCAGTGACTT
* *
9217984 ATCGGGCTTTGAGCCTAGCAAGCTTCATGCCAGTGACTT
1 ATCGGGCTTTGAGCCTAGCAGGCCTCATGCCAGTGACTT
**
9218023 ATCAAGCTTTGAGCCTAGCAGGC
1 ATCGGGCTTTGAGCCTAGCAGGC
9218046 TTTGTGCCTA
Statistics
Matches: 53, Mismatches: 9, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
39 53 1.00
ACGTcount: A:0.20, C:0.28, G:0.28, T:0.25
Consensus pattern (39 bp):
ATCGGGCTTTGAGCCTAGCAGGCCTCATGCCAGTGACTT
Found at i:9226076 original size:3 final size:3
Alignment explanation
Indices: 9226068--9226093 Score: 52
Period size: 3 Copynumber: 8.7 Consensus size: 3
9226058 CTCAAGTATC
9226068 TTA TTA TTA TTA TTA TTA TTA TTA TT
1 TTA TTA TTA TTA TTA TTA TTA TTA TT
9226094 TTGCTTTGAA
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:0.31, C:0.00, G:0.00, T:0.69
Consensus pattern (3 bp):
TTA
Found at i:9242429 original size:29 final size:30
Alignment explanation
Indices: 9242379--9242446 Score: 84
Period size: 30 Copynumber: 2.3 Consensus size: 30
9242369 CACCGTTAAA
* * *
9242379 ATATTTTCACTATTAGTCCTTCAACTTTTC
1 ATATTTACACTATTAATCCTTCAAATTTTC
*
9242409 ATATTTACACT-TTAATCCTTCAAATTTTG
1 ATATTTACACTATTAATCCTTCAAATTTTC
9242438 AGTATTTAC
1 A-TATTTAC
9242447 TCTTGGGCCA
Statistics
Matches: 33, Mismatches: 4, Indels: 2
0.85 0.10 0.05
Matches are distributed among these distances:
29 16 0.48
30 17 0.52
ACGTcount: A:0.28, C:0.19, G:0.04, T:0.49
Consensus pattern (30 bp):
ATATTTACACTATTAATCCTTCAAATTTTC
Found at i:9247457 original size:23 final size:23
Alignment explanation
Indices: 9247422--9247476 Score: 56
Period size: 23 Copynumber: 2.3 Consensus size: 23
9247412 ATTTACAGTT
* *
9247422 TAATTAATTTTAAATTTACATAATA
1 TAATTAA--TTAAATTTAAATAAAA
* *
9247447 TTATTAATTAAGTTTAAATAAAA
1 TAATTAATTAAATTTAAATAAAA
9247470 TAATTAA
1 TAATTAA
9247477 ACTACATGTT
Statistics
Matches: 25, Mismatches: 5, Indels: 2
0.78 0.16 0.06
Matches are distributed among these distances:
23 19 0.76
25 6 0.24
ACGTcount: A:0.51, C:0.02, G:0.02, T:0.45
Consensus pattern (23 bp):
TAATTAATTAAATTTAAATAAAA
Found at i:9247610 original size:21 final size:21
Alignment explanation
Indices: 9247580--9247623 Score: 54
Period size: 21 Copynumber: 2.1 Consensus size: 21
9247570 TTTATCATTT
9247580 ATTTTCATAT-TAAATAAATAA
1 ATTTTCATATAT-AATAAATAA
* *
9247601 ATTTTTATATATAATATATAA
1 ATTTTCATATATAATAAATAA
9247622 AT
1 AT
9247624 GTAAAATGGT
Statistics
Matches: 20, Mismatches: 2, Indels: 2
0.83 0.08 0.08
Matches are distributed among these distances:
21 19 0.95
22 1 0.05
ACGTcount: A:0.50, C:0.02, G:0.00, T:0.48
Consensus pattern (21 bp):
ATTTTCATATATAATAAATAA
Found at i:9253166 original size:47 final size:47
Alignment explanation
Indices: 9253105--9253234 Score: 163
Period size: 47 Copynumber: 2.8 Consensus size: 47
9253095 GTGCGAATAA
* *
9253105 TACCTTGATTTGGCTACGGGCCATGGTATAGGTA-TTCGGAGAGGAGT
1 TACCTTGATTTGGCTACGGGCCATGGTATAGGTACTCCGG-GAGAAGT
* * * *
9253152 TACCTTGATTTGGCTATGGGCCATAGTATAAGTACTCCGGGATAAGT
1 TACCTTGATTTGGCTACGGGCCATGGTATAGGTACTCCGGGAGAAGT
* * *
9253199 TACCTTAATTTTGCTACGGACCATGGTATAGGTACT
1 TACCTTGATTTGGCTACGGGCCATGGTATAGGTACT
9253235 TATCGATTGT
Statistics
Matches: 70, Mismatches: 12, Indels: 2
0.83 0.14 0.02
Matches are distributed among these distances:
47 66 0.94
48 4 0.06
ACGTcount: A:0.24, C:0.17, G:0.27, T:0.32
Consensus pattern (47 bp):
TACCTTGATTTGGCTACGGGCCATGGTATAGGTACTCCGGGAGAAGT
Found at i:9255960 original size:25 final size:25
Alignment explanation
Indices: 9255880--9256021 Score: 85
Period size: 25 Copynumber: 5.7 Consensus size: 25
9255870 AGCCACATAG
*
9255880 CGGGAAGCTCATGAGAG-C-TAAGTAA
1 CGGGAAGCTCATGAGAGCCATAA--AT
*** *
9255905 CGGGAAGCTCAT-ACGAGATGTATAT
1 CGGGAAGCTCATGA-GAGCCATAAAT
* * *
9255930 CAGGAAGCTCTTGCGAGCCATAAAT
1 CGGGAAGCTCATGAGAGCCATAAAT
* * *
9255955 CGGGAAACTCAAGAGAGCCATTAAT
1 CGGGAAGCTCATGAGAGCCATAAAT
* *
9255980 AGGGAAGCTCGTGAGAGCCA-AATAT
1 CGGGAAGCTCATGAGAGCCATAA-AT
* *
9256005 CGGGATGCTCAAGAGAG
1 CGGGAAGCTCATGAGAG
9256022 ATGTGGTGTG
Statistics
Matches: 87, Mismatches: 25, Indels: 10
0.71 0.20 0.08
Matches are distributed among these distances:
24 2 0.02
25 83 0.95
27 2 0.02
ACGTcount: A:0.35, C:0.18, G:0.30, T:0.18
Consensus pattern (25 bp):
CGGGAAGCTCATGAGAGCCATAAAT
Found at i:9258343 original size:42 final size:42
Alignment explanation
Indices: 9258279--9258441 Score: 184
Period size: 42 Copynumber: 3.7 Consensus size: 42
9258269 TGAACGTCTC
** * *
9258279 TCGATGCCATAGTTCAACTATGGTTTTACACATCTTCACATAA
1 TCGATGCCATAGCCCAGCTATGGTCTTACACATCTTCACAT-A
* * *
9258322 T-GATGCCATAGCCCAGTTATGGTCTTACACATATTCATATA
1 TCGATGCCATAGCCCAGCTATGGTCTTACACATCTTCACATA
*
9258363 TCGATGCCATAGCCTAGCTATGGTCTTACACGTATCACATATCACATA
1 TCGATGCCATAGCCCAGCTATGGTCTTACAC--AT--C-T-TCACATA
9258411 TCGATGCCATAGCCCAGCTATGGTCTTACAC
1 TCGATGCCATAGCCCAGCTATGGTCTTACAC
9258442 GGAAATCACT
Statistics
Matches: 101, Mismatches: 12, Indels: 9
0.83 0.10 0.07
Matches are distributed among these distances:
41 2 0.02
42 59 0.58
43 1 0.01
44 2 0.02
47 1 0.01
48 36 0.36
ACGTcount: A:0.28, C:0.26, G:0.15, T:0.31
Consensus pattern (42 bp):
TCGATGCCATAGCCCAGCTATGGTCTTACACATCTTCACATA
Found at i:9258421 original size:48 final size:49
Alignment explanation
Indices: 9258349--9258442 Score: 163
Period size: 48 Copynumber: 1.9 Consensus size: 49
9258339 TATGGTCTTA
* *
9258349 CACATATTCATATATCGATGCCATAGCCTAGCTATGGTCTTACACGTAT
1 CACATATTCACATATCGATGCCATAGCCCAGCTATGGTCTTACACGTAT
9258398 CACATA-TCACATATCGATGCCATAGCCCAGCTATGGTCTTACACG
1 CACATATTCACATATCGATGCCATAGCCCAGCTATGGTCTTACACG
9258443 GAAATCACTT
Statistics
Matches: 43, Mismatches: 2, Indels: 1
0.93 0.04 0.02
Matches are distributed among these distances:
48 37 0.86
49 6 0.14
ACGTcount: A:0.29, C:0.28, G:0.15, T:0.29
Consensus pattern (49 bp):
CACATATTCACATATCGATGCCATAGCCCAGCTATGGTCTTACACGTAT
Found at i:9258495 original size:31 final size:31
Alignment explanation
Indices: 9258460--9258577 Score: 191
Period size: 31 Copynumber: 3.8 Consensus size: 31
9258450 CTTGTCACTT
*
9258460 GTAGCCGAAGCTACCACTATTCACTGATCAG
1 GTAGCCGAAGCTACCACTTTTCACTGATCAG
*
9258491 GTAGCCGGAGCTACCACTTTTCACTGATCAG
1 GTAGCCGAAGCTACCACTTTTCACTGATCAG
* *
9258522 GTAGCAGAAACTACCACTTTTCACTGATCAG
1 GTAGCCGAAGCTACCACTTTTCACTGATCAG
*
9258553 GTAGCCGAAGCTATCACTTTTCACT
1 GTAGCCGAAGCTACCACTTTTCACT
9258578 TGTCATTTGT
Statistics
Matches: 79, Mismatches: 8, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
31 79 1.00
ACGTcount: A:0.27, C:0.28, G:0.19, T:0.26
Consensus pattern (31 bp):
GTAGCCGAAGCTACCACTTTTCACTGATCAG
Found at i:9258655 original size:50 final size:50
Alignment explanation
Indices: 9258553--9258729 Score: 255
Period size: 50 Copynumber: 3.5 Consensus size: 50
9258543 CACTGATCAG
* *
9258553 GTAGCCGAAGCTATCACTTTTCACTTGTCATTTGTCCTTGATCAGATAAGT
1 GTAGCTGAAGCTATCACTTATCACTT-TCATTTGTCCTTGATCAGATAAGT
* *
9258604 GTAGCTGGAGCTATCACTTATCACTTTCACTTGTCCTTGATCAGATAAGT
1 GTAGCTGAAGCTATCACTTATCACTTTCATTTGTCCTTGATCAGATAAGT
* * * *
9258654 GTTGCCGAAGCGATTACTTATCACTTTCATTTGTCCTTGATCAGATAAGT
1 GTAGCTGAAGCTATCACTTATCACTTTCATTTGTCCTTGATCAGATAAGT
* *
9258704 GTAGTTGAAGATATCACTTATCACTT
1 GTAGCTGAAGCTATCACTTATCACTT
9258730 GTTTCCATGG
Statistics
Matches: 110, Mismatches: 16, Indels: 1
0.87 0.13 0.01
Matches are distributed among these distances:
50 87 0.79
51 23 0.21
ACGTcount: A:0.25, C:0.20, G:0.18, T:0.37
Consensus pattern (50 bp):
GTAGCTGAAGCTATCACTTATCACTTTCATTTGTCCTTGATCAGATAAGT
Found at i:9259087 original size:35 final size:35
Alignment explanation
Indices: 9259035--9259103 Score: 120
Period size: 35 Copynumber: 2.0 Consensus size: 35
9259025 GGCATGTGAT
9259035 CAATTTATACACAAGTCATTCATATATTTTTCCTA
1 CAATTTATACACAAGTCATTCATATATTTTTCCTA
**
9259070 CAATTTATACATGAGTCATTCATATATTTTTCCT
1 CAATTTATACACAAGTCATTCATATATTTTTCCT
9259104 CCTCCTCCTC
Statistics
Matches: 32, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
35 32 1.00
ACGTcount: A:0.32, C:0.19, G:0.04, T:0.45
Consensus pattern (35 bp):
CAATTTATACACAAGTCATTCATATATTTTTCCTA
Found at i:9264683 original size:18 final size:17
Alignment explanation
Indices: 9264656--9264690 Score: 52
Period size: 18 Copynumber: 2.0 Consensus size: 17
9264646 AAAATTTGGG
*
9264656 AGAGATTTGAGATGTAAA
1 AGAGAGTTGAGAT-TAAA
9264674 AGAGAGTTGAGATTAAA
1 AGAGAGTTGAGATTAAA
9264691 TTGAAAAAAA
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
17 4 0.25
18 12 0.75
ACGTcount: A:0.46, C:0.00, G:0.29, T:0.26
Consensus pattern (17 bp):
AGAGAGTTGAGATTAAA
Found at i:9264855 original size:28 final size:28
Alignment explanation
Indices: 9264815--9264881 Score: 116
Period size: 28 Copynumber: 2.4 Consensus size: 28
9264805 AAACGTTTAC
9264815 ATTTTGAAAAAGTTCCTAAATGGAAGCA
1 ATTTTGAAAAAGTTCCTAAATGGAAGCA
9264843 ATTTTGAAAAAGTTCCTAAATGGAAGCA
1 ATTTTGAAAAAGTTCCTAAATGGAAGCA
* *
9264871 TTTTTGTAAAA
1 ATTTTGAAAAA
9264882 TTAACCTATT
Statistics
Matches: 37, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
28 37 1.00
ACGTcount: A:0.42, C:0.09, G:0.16, T:0.33
Consensus pattern (28 bp):
ATTTTGAAAAAGTTCCTAAATGGAAGCA
Found at i:9272466 original size:18 final size:17
Alignment explanation
Indices: 9272439--9272473 Score: 52
Period size: 18 Copynumber: 2.0 Consensus size: 17
9272429 AAAATTTGGG
*
9272439 AGAGATTTGAGATGTAAA
1 AGAGAGTTGAGAT-TAAA
9272457 AGAGAGTTGAGATTAAA
1 AGAGAGTTGAGATTAAA
9272474 TTGAAAAAAA
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
17 4 0.25
18 12 0.75
ACGTcount: A:0.46, C:0.00, G:0.29, T:0.26
Consensus pattern (17 bp):
AGAGAGTTGAGATTAAA
Found at i:9272638 original size:28 final size:28
Alignment explanation
Indices: 9272598--9272664 Score: 116
Period size: 28 Copynumber: 2.4 Consensus size: 28
9272588 AAACGTTTAC
9272598 ATTTTGAAAAAGTTCCTAAATGGAAGCA
1 ATTTTGAAAAAGTTCCTAAATGGAAGCA
9272626 ATTTTGAAAAAGTTCCTAAATGGAAGCA
1 ATTTTGAAAAAGTTCCTAAATGGAAGCA
* *
9272654 TTTTTGTAAAA
1 ATTTTGAAAAA
9272665 TTAACCTATT
Statistics
Matches: 37, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
28 37 1.00
ACGTcount: A:0.42, C:0.09, G:0.16, T:0.33
Consensus pattern (28 bp):
ATTTTGAAAAAGTTCCTAAATGGAAGCA
Found at i:9277827 original size:280 final size:278
Alignment explanation
Indices: 9277324--9277854 Score: 769
Period size: 280 Copynumber: 1.9 Consensus size: 278
9277314 ATATTTATAA
* *
9277324 ACTGAAATAATCGAAAATGTATCTATAACAAAAAATAATTTAAAATTACAGACTCCACTAAAATC
1 ACTGAAATAATCGAAAATGTATCTATAACAAAAAATAATTTAAAACTACAAACTCCACTAAAATC
* *
9277389 TAATTAATATCCTGAAACAATGTTACACCCATAAGTAGTGTTCCCATAAAAACCTTGGGTGGTAG
66 GAATTAATATCCTGAAACAATGTTACACCCATAAGCAGTGTTCCCATAAAAACCTTGGGTGGTAG
* * * *
9277454 CCCTTTAGTAAGCGAATTCGCAATTATGGAGTTTGTTTTAATATATTTTATAAACACCTGATCAC
131 CCCTTTAGTAAGCGAATTCGCAATTATGGAGTTTGTCTCAATATACTTTATAAACACCTGACCAC
*
9277519 TTTAAACTCTTATTTTAACACCTAGGAATTTAAAGCCCATGTACATTGACTTTGATGCCCTCTTG
196 TTTAAACTCTTATTTTAACAACTAGGAATTTAAAGCCCATGTACATTGACTTTGATGCCCTCTTG
9277584 TTGTTATTGGAATAAAGG
261 TTGTTATTGGAATAAAGG
* * *
9277602 ACTGAAATAA-CTGAAAATGTGTCTATAACAGAAAAT-ATTTAAAACTACAAACTCCTACTAAAT
1 ACTGAAATAATC-GAAAATGTATCTATAACAAAAAATAATTTAAAACTACAAACTCC-ACTAAAA
* * * *
9277665 TCGAATTAATATCTTGAAACGATGTTATATCCATATGAGCAGTGTTCCCATAAAAACCTTGGGTG
64 TCGAATTAATATCCTGAAACAATGTTACACCCATA--AGCAGTGTTCCCATAAAAACCTTGGGTG
* * * *
9277730 GTAGTCCTTTAGTAAGTGAATTCGCAATTATGGAGTTTGTCTCAGTATACTTTATAGACACCTGA
127 GTAGCCCTTTAGTAAGCGAATTCGCAATTATGGAGTTTGTCTCAATATACTTTATAAACACCTGA
* * ** * * *
9277795 CCACTTTGAACTCTTATTTTAACAATTAGGAATTTGGAGTCTATGTGCATTGACTTTGAT
192 CCACTTTAAACTCTTATTTTAACAACTAGGAATTTAAAGCCCATGTACATTGACTTTGAT
9277855 ATCTTCCTAT
Statistics
Matches: 222, Mismatches: 27, Indels: 6
0.87 0.11 0.02
Matches are distributed among these distances:
277 18 0.08
278 68 0.31
280 136 0.61
ACGTcount: A:0.35, C:0.16, G:0.15, T:0.34
Consensus pattern (278 bp):
ACTGAAATAATCGAAAATGTATCTATAACAAAAAATAATTTAAAACTACAAACTCCACTAAAATC
GAATTAATATCCTGAAACAATGTTACACCCATAAGCAGTGTTCCCATAAAAACCTTGGGTGGTAG
CCCTTTAGTAAGCGAATTCGCAATTATGGAGTTTGTCTCAATATACTTTATAAACACCTGACCAC
TTTAAACTCTTATTTTAACAACTAGGAATTTAAAGCCCATGTACATTGACTTTGATGCCCTCTTG
TTGTTATTGGAATAAAGG
Found at i:9287256 original size:22 final size:23
Alignment explanation
Indices: 9287228--9287275 Score: 62
Period size: 23 Copynumber: 2.1 Consensus size: 23
9287218 CTCGATCCTA
*
9287228 TTTT-AAATCTACTCATATTATT
1 TTTTAAAATATACTCATATTATT
* *
9287250 TTTTAAAATATATTTATATTATT
1 TTTTAAAATATACTCATATTATT
9287273 TTT
1 TTT
9287276 AATTTAATAT
Statistics
Matches: 22, Mismatches: 3, Indels: 1
0.85 0.12 0.04
Matches are distributed among these distances:
22 4 0.18
23 18 0.82
ACGTcount: A:0.33, C:0.06, G:0.00, T:0.60
Consensus pattern (23 bp):
TTTTAAAATATACTCATATTATT
Found at i:9287285 original size:23 final size:24
Alignment explanation
Indices: 9287242--9287293 Score: 63
Period size: 23 Copynumber: 2.2 Consensus size: 24
9287232 AAATCTACTC
9287242 ATATTATTTTTTAAAATATATTT-
1 ATATTATTTTTTAAAATATATTTA
**
9287265 ATATTA-TTTTTAATTTAATATTTA
1 ATATTATTTTTTAAAAT-ATATTTA
9287289 ATATT
1 ATATT
9287294 TAATATATTT
Statistics
Matches: 25, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
22 8 0.32
23 12 0.48
24 5 0.20
ACGTcount: A:0.38, C:0.00, G:0.00, T:0.62
Consensus pattern (24 bp):
ATATTATTTTTTAAAATATATTTA
Found at i:9289480 original size:30 final size:30
Alignment explanation
Indices: 9289445--9289503 Score: 109
Period size: 30 Copynumber: 2.0 Consensus size: 30
9289435 TATAGAAAGA
*
9289445 TAACTTACATTAGTAGATAATCTAAACGCG
1 TAACTTACATTAATAGATAATCTAAACGCG
9289475 TAACTTACATTAATAGATAATCTAAACGC
1 TAACTTACATTAATAGATAATCTAAACGC
9289504 CTCCTTAGTC
Statistics
Matches: 28, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
30 28 1.00
ACGTcount: A:0.42, C:0.17, G:0.10, T:0.31
Consensus pattern (30 bp):
TAACTTACATTAATAGATAATCTAAACGCG
Found at i:9291849 original size:57 final size:56
Alignment explanation
Indices: 9291744--9291898 Score: 265
Period size: 57 Copynumber: 2.8 Consensus size: 56
9291734 GTTATATTAG
* * *
9291744 GATATTATTATGAGATATTATCTTTTAACAATTTGATTCCTAATGTGATATTATAT
1 GATATTATTATGGGATATTATCTTTTAGCAATTTGATTCCTAATGTGATATTATAA
*
9291800 GATATTATTATGGGATATTATCTTTTTAGTAATTTGATTCCTAATGTGATATTATAA
1 GATATTATTATGGGATATTATC-TTTTAGCAATTTGATTCCTAATGTGATATTATAA
9291857 GATATTATTATGGGATATTATCTTTTAGCAATTTGATTCCTA
1 GATATTATTATGGGATATTATCTTTTAGCAATTTGATTCCTA
9291899 CGTAACTACT
Statistics
Matches: 93, Mismatches: 5, Indels: 2
0.93 0.05 0.02
Matches are distributed among these distances:
56 40 0.43
57 53 0.57
ACGTcount: A:0.32, C:0.07, G:0.13, T:0.48
Consensus pattern (56 bp):
GATATTATTATGGGATATTATCTTTTAGCAATTTGATTCCTAATGTGATATTATAA
Found at i:9295406 original size:156 final size:157
Alignment explanation
Indices: 9295109--9295408 Score: 512
Period size: 156 Copynumber: 1.9 Consensus size: 157
9295099 CCATCATTTG
9295109 TGAGCTCAAGTGGCTGAAGACCTTGCTATTGAGCTTAAATGTTCATCATTCTAAAGTAATTCCTT
1 TGAGCTCAAGTGGCTGAAGACCTTGCTATTGAGCTTAAATGTTCATCATTCTAAAGTAATTCCTT
9295174 TATTTTTGTGATAGTCAATCTGCGCTGCATATTGCACAGAATCCCGTATTTCACGAGCATACTAA
66 TATTTTTGTGATAGTCAATCTGCGCTGCATATTGCACAGAATCCCGTATTTCACGAGCATACTAA
9295239 ACATATTGAAGTGGCTTCCATTACTTA
131 ACATATTGAAGTGGCTTCCATTACTTA
* **
9295266 TGAGCTCAAGTGGCTGAAGGCCTTGCTATTGAGCTTAGGTGTTCATCATTCTAAAGTAATTCCTT
1 TGAGCTCAAGTGGCTGAAGACCTTGCTATTGAGCTTAAATGTTCATCATTCTAAAGTAATTCCTT
* * * **
9295331 TA-TTTTGTGATAGTCAATTTGCGCTGTATATTGCACAGAATCCCTTATTTCACGAGTGTACTAA
66 TATTTTTGTGATAGTCAATCTGCGCTGCATATTGCACAGAATCCCGTATTTCACGAGCATACTAA
*
9295395 ATATATTGAAGTGG
131 ACATATTGAAGTGG
9295409 ATTGTCACTT
Statistics
Matches: 134, Mismatches: 9, Indels: 1
0.93 0.06 0.01
Matches are distributed among these distances:
156 70 0.52
157 64 0.48
ACGTcount: A:0.27, C:0.18, G:0.19, T:0.36
Consensus pattern (157 bp):
TGAGCTCAAGTGGCTGAAGACCTTGCTATTGAGCTTAAATGTTCATCATTCTAAAGTAATTCCTT
TATTTTTGTGATAGTCAATCTGCGCTGCATATTGCACAGAATCCCGTATTTCACGAGCATACTAA
ACATATTGAAGTGGCTTCCATTACTTA
Found at i:9295652 original size:13 final size:13
Alignment explanation
Indices: 9295634--9295659 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
9295624 CTAATGGGAA
9295634 ATTATAGGATATT
1 ATTATAGGATATT
9295647 ATTATAGGATATT
1 ATTATAGGATATT
9295660 GTCTTTTAGC
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.38, C:0.00, G:0.15, T:0.46
Consensus pattern (13 bp):
ATTATAGGATATT
Found at i:9295774 original size:17 final size:17
Alignment explanation
Indices: 9295752--9295786 Score: 52
Period size: 17 Copynumber: 2.1 Consensus size: 17
9295742 TCGGCAATTA
*
9295752 ATAAAATTTTTAAATAT
1 ATAAAATTATTAAATAT
*
9295769 ATAAAATTATTGAATAT
1 ATAAAATTATTAAATAT
9295786 A
1 A
9295787 ATTGAATAAA
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
17 16 1.00
ACGTcount: A:0.54, C:0.00, G:0.03, T:0.43
Consensus pattern (17 bp):
ATAAAATTATTAAATAT
Found at i:9296316 original size:24 final size:21
Alignment explanation
Indices: 9296269--9296319 Score: 77
Period size: 21 Copynumber: 2.5 Consensus size: 21
9296259 ATTTTTAAAG
9296269 ATTACTTATTTTTATAATTCT
1 ATTACTTATTTTTATAATTCT
*
9296290 ATTACTTATTTTTTTAATTCT
1 ATTACTTATTTTTATAATTCT
*
9296311 AATA-TTATT
1 ATTACTTATT
9296320 AATAAAATAT
Statistics
Matches: 28, Mismatches: 2, Indels: 1
0.90 0.06 0.03
Matches are distributed among these distances:
20 5 0.18
21 23 0.82
ACGTcount: A:0.29, C:0.08, G:0.00, T:0.63
Consensus pattern (21 bp):
ATTACTTATTTTTATAATTCT
Found at i:9296735 original size:7 final size:7
Alignment explanation
Indices: 9296723--9296752 Score: 60
Period size: 7 Copynumber: 4.3 Consensus size: 7
9296713 AATGTGTTAA
9296723 AAATTGC
1 AAATTGC
9296730 AAATTGC
1 AAATTGC
9296737 AAATTGC
1 AAATTGC
9296744 AAATTGC
1 AAATTGC
9296751 AA
1 AA
9296753 TATATATATA
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 23 1.00
ACGTcount: A:0.47, C:0.13, G:0.13, T:0.27
Consensus pattern (7 bp):
AAATTGC
Found at i:9298516 original size:22 final size:24
Alignment explanation
Indices: 9298491--9298535 Score: 67
Period size: 24 Copynumber: 2.0 Consensus size: 24
9298481 TTTTTTACTC
*
9298491 AATTTAA-TA-AAAAATCAAATTA
1 AATTTAATTATAAAAATAAAATTA
9298513 AATTTAATTATAAAAATAAAATT
1 AATTTAATTATAAAAATAAAATT
9298536 TATCAACTCT
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
22 7 0.35
23 2 0.10
24 11 0.55
ACGTcount: A:0.62, C:0.02, G:0.00, T:0.36
Consensus pattern (24 bp):
AATTTAATTATAAAAATAAAATTA
Found at i:9298582 original size:3 final size:3
Alignment explanation
Indices: 9298574--9298610 Score: 74
Period size: 3 Copynumber: 12.3 Consensus size: 3
9298564 CTCACGACCC
9298574 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT A
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT A
9298611 CAATCACGTG
Statistics
Matches: 34, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 34 1.00
ACGTcount: A:0.68, C:0.00, G:0.00, T:0.32
Consensus pattern (3 bp):
AAT
Found at i:9312899 original size:73 final size:73
Alignment explanation
Indices: 9312780--9313038 Score: 509
Period size: 73 Copynumber: 3.5 Consensus size: 73
9312770 TATTATTATT
9312780 TGGATGTAATGATGTAACTTAGTTGTATTCCAACTAAGTTTGTTAGTGGTAGTAGGTGGTGATTT
1 TGGATGTAATGATGTAACTTAGTTGTATTCCAACTAAGTTTGTTAGTGGTAGTAGGTGGTGATTT
9312845 ATTTTAAG
66 ATTTTAAG
9312853 TGGATGTAATGATGTAACTTAGTTGTATTCCAACTAAGTTTGTTAGTGGTAGTAGGTGGTGATTT
1 TGGATGTAATGATGTAACTTAGTTGTATTCCAACTAAGTTTGTTAGTGGTAGTAGGTGGTGATTT
9312918 ATTTTAAG
66 ATTTTAAG
9312926 TGGATGTAATGATGTAACTTAGTTGTATTCCAACTAAGTTTGTTAGTGGTAGTAGGTGGTGATTT
1 TGGATGTAATGATGTAACTTAGTTGTATTCCAACTAAGTTTGTTAGTGGTAGTAGGTGGTGATTT
9312991 ATTTTAAG
66 ATTTTAAG
*
9312999 TGGATGTAATGATGAAACTTAGTTGTATTCCAACTAAGTT
1 TGGATGTAATGATGTAACTTAGTTGTATTCCAACTAAGTT
9313039 GTCAAGTTGT
Statistics
Matches: 185, Mismatches: 1, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
73 185 1.00
ACGTcount: A:0.27, C:0.06, G:0.25, T:0.42
Consensus pattern (73 bp):
TGGATGTAATGATGTAACTTAGTTGTATTCCAACTAAGTTTGTTAGTGGTAGTAGGTGGTGATTT
ATTTTAAG
Found at i:9314138 original size:43 final size:44
Alignment explanation
Indices: 9314028--9314156 Score: 136
Period size: 43 Copynumber: 2.9 Consensus size: 44
9314018 TACATATGGG
* * *
9314028 TTCGCATACATAGTTAAAGGGATCACATAGCAGTTTCACATAAGGGA
1 TTCGCATA-ACAGTTAAAGGGATCACATAACAGTTTTAC--AAGGGA
** *
9314075 -TCGCATAACAGTTAGGGGGATCGCATAACAGTTTTACAA-GGA
1 TTCGCATAACAGTTAAAGGGATCACATAACAGTTTTACAAGGGA
* * *
9314117 TTCGCATAACAGCTAAAGGGATCACATAATAGTTCTACAA
1 TTCGCATAACAGTTAAAGGGATCACATAACAGTTTTACAA
9314157 TAGCGTTCGC
Statistics
Matches: 69, Mismatches: 12, Indels: 6
0.79 0.14 0.07
Matches are distributed among these distances:
42 3 0.04
43 35 0.51
45 24 0.35
46 7 0.10
ACGTcount: A:0.36, C:0.18, G:0.21, T:0.25
Consensus pattern (44 bp):
TTCGCATAACAGTTAAAGGGATCACATAACAGTTTTACAAGGGA
Found at i:9317487 original size:19 final size:20
Alignment explanation
Indices: 9317436--9317488 Score: 65
Period size: 21 Copynumber: 2.6 Consensus size: 20
9317426 TAAAAAATTC
9317436 AAAAATATATATAATCTATAA
1 AAAAATATATA-AATCTATAA
*
9317457 AAAAACATATAAAT-TAT-A
1 AAAAATATATAAATCTATAA
9317475 AAAAATATGATAAA
1 AAAAATAT-ATAAA
9317489 CGAAAAGAAA
Statistics
Matches: 29, Mismatches: 2, Indels: 4
0.83 0.06 0.11
Matches are distributed among these distances:
18 8 0.28
19 8 0.28
20 3 0.10
21 10 0.34
ACGTcount: A:0.66, C:0.04, G:0.02, T:0.28
Consensus pattern (20 bp):
AAAAATATATAAATCTATAA
Found at i:9317558 original size:18 final size:20
Alignment explanation
Indices: 9317535--9317572 Score: 62
Period size: 20 Copynumber: 2.0 Consensus size: 20
9317525 AATGTAAAAA
9317535 AAAAC-TTGTAA-AAATTAT
1 AAAACTTTGTAACAAATTAT
9317553 AAAACTTTGTAACAAATTAT
1 AAAACTTTGTAACAAATTAT
9317573 TTAAAATTTA
Statistics
Matches: 18, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
18 5 0.28
19 6 0.33
20 7 0.39
ACGTcount: A:0.53, C:0.08, G:0.05, T:0.34
Consensus pattern (20 bp):
AAAACTTTGTAACAAATTAT
Found at i:9317607 original size:20 final size:20
Alignment explanation
Indices: 9317584--9317633 Score: 55
Period size: 20 Copynumber: 2.5 Consensus size: 20
9317574 TAAAATTTAC
*
9317584 TAAAAATATAAAAAAAGTTG
1 TAAAAATATAAAAAAAGTTA
* ** *
9317604 TAAATATATTTAAAAATTTA
1 TAAAAATATAAAAAAAGTTA
9317624 TAAAAATATA
1 TAAAAATATA
9317634 TTTAAAATTT
Statistics
Matches: 23, Mismatches: 7, Indels: 0
0.77 0.23 0.00
Matches are distributed among these distances:
20 23 1.00
ACGTcount: A:0.62, C:0.00, G:0.04, T:0.34
Consensus pattern (20 bp):
TAAAAATATAAAAAAAGTTA
Found at i:9317648 original size:20 final size:22
Alignment explanation
Indices: 9317552--9317651 Score: 81
Period size: 21 Copynumber: 4.8 Consensus size: 22
9317542 GTAAAAATTA
* *
9317552 TAAAACTTTGTAACAAAT-TATT
1 TAAAAATTTATAA-AAATATATT
9317574 T-AAAATTTACTAAAAATATA--
1 TAAAAATTTA-TAAAAATATATT
* * *
9317594 AAAAAAGTTGT--AAATATATT
1 TAAAAATTTATAAAAATATATT
9317614 TAAAAATTTATAAAAATATATT
1 TAAAAATTTATAAAAATATATT
9317636 T-AAAATTTA-AAAAATA
1 TAAAAATTTATAAAAATA
9317652 GATACCTGAT
Statistics
Matches: 63, Mismatches: 8, Indels: 16
0.72 0.09 0.18
Matches are distributed among these distances:
18 7 0.11
20 16 0.25
21 24 0.38
22 16 0.25
ACGTcount: A:0.57, C:0.03, G:0.03, T:0.37
Consensus pattern (22 bp):
TAAAAATTTATAAAAATATATT
Found at i:9326670 original size:48 final size:48
Alignment explanation
Indices: 9326588--9326681 Score: 120
Period size: 48 Copynumber: 2.0 Consensus size: 48
9326578 TTTCTTGGCT
* * *
9326588 TAAAAATGCCTAAGTCAGCCTAATTTCCACCAATAATGGATTCAACCG
1 TAAAAACGCCTAAGTCAGCCTAATTTCCAACAATAAAGGATTCAACCG
*
9326636 TAAAAACGCCTAAGTTAG-CTCAA-TTCGCAACAATAAAGGATTCAAC
1 TAAAAACGCCTAAGTCAGCCT-AATTTC-CAACAATAAAGGATTCAAC
9326682 AGAATTCCCT
Statistics
Matches: 40, Mismatches: 4, Indels: 4
0.83 0.08 0.08
Matches are distributed among these distances:
47 5 0.12
48 35 0.88
ACGTcount: A:0.40, C:0.23, G:0.13, T:0.23
Consensus pattern (48 bp):
TAAAAACGCCTAAGTCAGCCTAATTTCCAACAATAAAGGATTCAACCG
Found at i:9329457 original size:42 final size:42
Alignment explanation
Indices: 9329392--9329480 Score: 142
Period size: 42 Copynumber: 2.1 Consensus size: 42
9329382 TCCTAATTGG
*
9329392 GAAAATAGTTCCCTTATTCTAATAAACTACTAAAATATAAAA
1 GAAAATAGTTCCCTTATTCTAATAAACTACTAAAAGATAAAA
* *
9329434 GAAAATAGTTCCCTTCTTTTAATAAACTACTAAAAGATAAAA
1 GAAAATAGTTCCCTTATTCTAATAAACTACTAAAAGATAAAA
*
9329476 TAAAA
1 GAAAA
9329481 ATATTCATAG
Statistics
Matches: 43, Mismatches: 4, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
42 43 1.00
ACGTcount: A:0.51, C:0.13, G:0.06, T:0.30
Consensus pattern (42 bp):
GAAAATAGTTCCCTTATTCTAATAAACTACTAAAAGATAAAA
Found at i:9333929 original size:26 final size:26
Alignment explanation
Indices: 9333883--9333934 Score: 63
Period size: 26 Copynumber: 2.0 Consensus size: 26
9333873 TTCAAAAGTG
*
9333883 AAAAAATATGTTTAATAAATGGAAAT
1 AAAAAATATGTTTAATAAATGAAAAT
9333909 AAAAAAT-TGTTTTCAAT-AATGAAAAT
1 AAAAAATATG-TTT-AATAAATGAAAAT
9333935 CGTGAAAAAT
Statistics
Matches: 23, Mismatches: 1, Indels: 4
0.82 0.04 0.14
Matches are distributed among these distances:
25 2 0.09
26 18 0.78
27 3 0.13
ACGTcount: A:0.56, C:0.02, G:0.10, T:0.33
Consensus pattern (26 bp):
AAAAAATATGTTTAATAAATGAAAAT
Found at i:9335926 original size:11 final size:12
Alignment explanation
Indices: 9335904--9335928 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
9335894 TAATTCGAAG
9335904 TTGAATTTTTTT
1 TTGAATTTTTTT
9335916 TTGAATTTTTTT
1 TTGAATTTTTTT
9335928 T
1 T
9335929 ATAAACATCA
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 13 1.00
ACGTcount: A:0.16, C:0.00, G:0.08, T:0.76
Consensus pattern (12 bp):
TTGAATTTTTTT
Found at i:9346558 original size:24 final size:24
Alignment explanation
Indices: 9346490--9346558 Score: 68
Period size: 24 Copynumber: 2.8 Consensus size: 24
9346480 TTGATAGTTT
*
9346490 TAAAATTGATAAGTTATACCATATTTG
1 TAAATTTGATAAGTTAT---ATATTTG
* *
9346517 TAATTTTGA-AATGGTATATATTTG
1 TAAATTTGATAA-GTTATATATTTG
9346541 TAAATTTGATAAGTTATA
1 TAAATTTGATAAGTTATA
9346559 CCATATTTAT
Statistics
Matches: 35, Mismatches: 5, Indels: 7
0.74 0.11 0.15
Matches are distributed among these distances:
24 20 0.57
25 2 0.06
26 2 0.06
27 11 0.31
ACGTcount: A:0.39, C:0.03, G:0.13, T:0.45
Consensus pattern (24 bp):
TAAATTTGATAAGTTATATATTTG
Found at i:9346587 original size:51 final size:51
Alignment explanation
Indices: 9346490--9346592 Score: 152
Period size: 51 Copynumber: 2.0 Consensus size: 51
9346480 TTGATAGTTT
* * **
9346490 TAAAATTGATAAGTTATACCATATTTGTAATTTTGAAATGGTATATATTTG
1 TAAAATTGATAAGTTATACCATATTTATAATTATGAAATGACATATATTTG
* *
9346541 TAAATTTGATAAGTTATACCATATTTATAATTATGAAATTACATATATTTG
1 TAAAATTGATAAGTTATACCATATTTATAATTATGAAATGACATATATTTG
9346592 T
1 T
9346593 TGAAGAAATT
Statistics
Matches: 46, Mismatches: 6, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
51 46 1.00
ACGTcount: A:0.39, C:0.05, G:0.11, T:0.46
Consensus pattern (51 bp):
TAAAATTGATAAGTTATACCATATTTATAATTATGAAATGACATATATTTG
Found at i:9366000 original size:16 final size:16
Alignment explanation
Indices: 9365979--9366009 Score: 53
Period size: 16 Copynumber: 1.9 Consensus size: 16
9365969 GATAATAAGT
9365979 AAACATAACATATATG
1 AAACATAACATATATG
*
9365995 AAACATAGCATATAT
1 AAACATAACATATAT
9366010 TAAGAAAATA
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
16 14 1.00
ACGTcount: A:0.55, C:0.13, G:0.06, T:0.26
Consensus pattern (16 bp):
AAACATAACATATATG
Found at i:9371012 original size:13 final size:13
Alignment explanation
Indices: 9370994--9371020 Score: 54
Period size: 13 Copynumber: 2.1 Consensus size: 13
9370984 AGAAGTAAGC
9370994 TTCTAAAGCTTAG
1 TTCTAAAGCTTAG
9371007 TTCTAAAGCTTAG
1 TTCTAAAGCTTAG
9371020 T
1 T
9371021 AAGTTCACAT
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:0.15, G:0.15, T:0.41
Consensus pattern (13 bp):
TTCTAAAGCTTAG
Found at i:9371500 original size:53 final size:54
Alignment explanation
Indices: 9371430--9371637 Score: 224
Period size: 53 Copynumber: 3.9 Consensus size: 54
9371420 TTTCCTTTTT
* *
9371430 GAACTTACCATTGCCATGTCTTGACATGGTCTTA-AGTGGTATCCTTGCCTTAT-
1 GAACTTACCAATGCCATGCCTTGACATGGTCTTACA-TGGTATCCTTGCCTTATA
* * * *
9371483 GAACTCACCAATACCATGCCTTGGCATGGTCTTACATGGGA-CCTTTGCCTTATA
1 GAACTTACCAATGCCATGCCTTGACATGGTCTTACATGGTATCC-TTGCCTTATA
* ** * * * *
9371537 GTAACTTATCAATGCCATATCTTGACATGGTCTTACATGATTTACTTTCCTTATA
1 G-AACTTACCAATGCCATGCCTTGACATGGTCTTACATGGTATCCTTGCCTTATA
* * *
9371592 GAACTTATCAATGCCATGCCTTGGCATGGTCTTACATGATATCCTT
1 GAACTTACCAATGCCATGCCTTGACATGGTCTTACATGGTATCCTT
9371638 ATCTTACCAA
Statistics
Matches: 128, Mismatches: 22, Indels: 9
0.81 0.14 0.06
Matches are distributed among these distances:
52 2 0.02
53 42 0.33
54 42 0.33
55 41 0.32
56 1 0.01
ACGTcount: A:0.24, C:0.24, G:0.16, T:0.36
Consensus pattern (54 bp):
GAACTTACCAATGCCATGCCTTGACATGGTCTTACATGGTATCCTTGCCTTATA
Found at i:9371569 original size:108 final size:109
Alignment explanation
Indices: 9371431--9371629 Score: 285
Period size: 108 Copynumber: 1.8 Consensus size: 109
9371421 TTCCTTTTTG
* * * *
9371431 AACTTACCATTGCCATGTCTTGACATGGTCTTA-AGTGGTATCCTTGCCTTAT-GAACTCACCAA
1 AACTTACCAATGCCATATCTTGACATGGTCTTACA-TGATATACTTGCCTTATAGAACTCACCAA
9371494 TACCATGCCTTGGCATGGTCTTACATGGGACCTTTGCCTTATAGT
65 TACCATGCCTTGGCATGGTCTTACATGGGACCTTTGCCTTATAGT
* * * * *
9371539 AACTTATCAATGCCATATCTTGACATGGTCTTACATGATTTACTTTCCTTATAGAACTTATCAAT
1 AACTTACCAATGCCATATCTTGACATGGTCTTACATGATATACTTGCCTTATAGAACTCACCAAT
*
9371604 GCCATGCCTTGGCATGGTCTTACATG
66 ACCATGCCTTGGCATGGTCTTACATG
9371630 ATATCCTTAT
Statistics
Matches: 79, Mismatches: 10, Indels: 3
0.86 0.11 0.03
Matches are distributed among these distances:
108 43 0.54
109 36 0.46
ACGTcount: A:0.24, C:0.24, G:0.17, T:0.36
Consensus pattern (109 bp):
AACTTACCAATGCCATATCTTGACATGGTCTTACATGATATACTTGCCTTATAGAACTCACCAAT
ACCATGCCTTGGCATGGTCTTACATGGGACCTTTGCCTTATAGT
Found at i:9371570 original size:55 final size:54
Alignment explanation
Indices: 9371416--9371629 Score: 213
Period size: 54 Copynumber: 4.0 Consensus size: 54
9371406 TTATTCAAGA
* * * * *
9371416 ACCTTTTCCTTTTTGAACTTACCATTGCCATGTCTTGACATGGTCTTA-AGTGGT
1 ACCTTTGCCTTATAGAACTTACCAATGCCATGCCTTGACATGGTCTTACA-TGGT
* * * *
9371470 ATCC-TTGCCTTAT-GAACTCACCAATACCATGCCTTGGCATGGTCTTACATGGG
1 A-CCTTTGCCTTATAGAACTTACCAATGCCATGCCTTGACATGGTCTTACATGGT
* ** *
9371523 ACCTTTGCCTTATAGTAACTTATCAATGCCATATCTTGACATGGTCTTACATGATTT
1 ACCTTTGCCTTATAG-AACTTACCAATGCCATGCCTTGACATGGTCTTACATG--GT
* *
9371580 A-CTTT-CCTTATAGAACTTATCAATGCCATGCCTTGGCATGGTCTTACATG
1 ACCTTTGCCTTATAGAACTTACCAATGCCATGCCTTGACATGGTCTTACATG
9371630 ATATCCTTAT
Statistics
Matches: 134, Mismatches: 19, Indels: 14
0.80 0.11 0.08
Matches are distributed among these distances:
52 2 0.01
53 42 0.31
54 44 0.33
55 41 0.31
56 4 0.03
57 1 0.01
ACGTcount: A:0.23, C:0.24, G:0.16, T:0.37
Consensus pattern (54 bp):
ACCTTTGCCTTATAGAACTTACCAATGCCATGCCTTGACATGGTCTTACATGGT
Found at i:9371671 original size:47 final size:47
Alignment explanation
Indices: 9371616--9371737 Score: 208
Period size: 47 Copynumber: 2.6 Consensus size: 47
9371606 CATGCCTTGG
* * *
9371616 CATGGTCTTACATGATATCCTTATCTTACCAAATGCCATGTTCCAAA
1 CATGGTCTTACATGGTATCCTTGTCTTACCAAATGCCAAGTTCCAAA
9371663 CATGGTCTTACATGGTATCCTTGTCTTACCAAATGCCAAGTTCCAAA
1 CATGGTCTTACATGGTATCCTTGTCTTACCAAATGCCAAGTTCCAAA
*
9371710 CATAGTCTTACATGGTATCCTTGTCTTA
1 CATGGTCTTACATGGTATCCTTGTCTTA
9371738 GTGTCAATGC
Statistics
Matches: 71, Mismatches: 4, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
47 71 1.00
ACGTcount: A:0.27, C:0.25, G:0.13, T:0.35
Consensus pattern (47 bp):
CATGGTCTTACATGGTATCCTTGTCTTACCAAATGCCAAGTTCCAAA
Found at i:9371953 original size:44 final size:44
Alignment explanation
Indices: 9371877--9371960 Score: 114
Period size: 44 Copynumber: 1.9 Consensus size: 44
9371867 TCCTTAGCCG
* **
9371877 TCAATTCCTCCTTAAATGCCATGTTATGACCATGGACTTTTCCA
1 TCAATTCCTCCTTAAATGCCATGCTACAACCATGGACTTTTCCA
* * *
9371921 TCAATTCTTCCTTAATTGCCATGCTACAACCATGGGCTTT
1 TCAATTCCTCCTTAAATGCCATGCTACAACCATGGACTTT
9371961 GAGATATCAA
Statistics
Matches: 34, Mismatches: 6, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
44 34 1.00
ACGTcount: A:0.24, C:0.27, G:0.12, T:0.37
Consensus pattern (44 bp):
TCAATTCCTCCTTAAATGCCATGCTACAACCATGGACTTTTCCA
Found at i:9385013 original size:35 final size:35
Alignment explanation
Indices: 9384974--9385040 Score: 98
Period size: 35 Copynumber: 1.9 Consensus size: 35
9384964 GTTTTTAGGG
*
9384974 TTAGGGTTTTGCTAAAATAAGTTAAGGTTTAGTGT
1 TTAGGGTTTTGCTAAAACAAGTTAAGGTTTAGTGT
* * *
9385009 TTAGGTTTTTGTTAAAACAAGTTAGGGTTTAG
1 TTAGGGTTTTGCTAAAACAAGTTAAGGTTTAG
9385041 AATTTTAGTA
Statistics
Matches: 28, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
35 28 1.00
ACGTcount: A:0.28, C:0.03, G:0.25, T:0.43
Consensus pattern (35 bp):
TTAGGGTTTTGCTAAAACAAGTTAAGGTTTAGTGT
Found at i:9388287 original size:25 final size:28
Alignment explanation
Indices: 9388251--9388332 Score: 75
Period size: 25 Copynumber: 3.0 Consensus size: 28
9388241 TATTCTGCCT
9388251 TATTCAAAAAAACTTATATTTTATTAAAA
1 TATT-AAAAAAACTTATATTTTATTAAAA
*
9388280 -A-T-ATAAAA-TTA-ATTTACTATTAAAA
1 TATTAAAAAAACTTATATTT--TATTAAAA
*
9388305 TATTAAAAACAACTTATTTTTTATTAAA
1 TATTAAAAA-AACTTATATTTTATTAAA
9388333 TAAAATAATA
Statistics
Matches: 42, Mismatches: 3, Indels: 16
0.69 0.05 0.26
Matches are distributed among these distances:
23 4 0.10
24 3 0.07
25 13 0.31
26 1 0.02
27 2 0.05
28 4 0.10
29 9 0.21
30 3 0.07
31 3 0.07
ACGTcount: A:0.51, C:0.06, G:0.00, T:0.43
Consensus pattern (28 bp):
TATTAAAAAAACTTATATTTTATTAAAA
Found at i:9388804 original size:30 final size:30
Alignment explanation
Indices: 9388768--9388826 Score: 100
Period size: 30 Copynumber: 2.0 Consensus size: 30
9388758 TGAAGGGGTT
9388768 GTGATTGTGTGGGCGCTGTTGATGGGCCCG
1 GTGATTGTGTGGGCGCTGTTGATGGGCCCG
* *
9388798 GTGATTGTGTGGGTGTTGTTGATGGGCCC
1 GTGATTGTGTGGGCGCTGTTGATGGGCCC
9388827 ATGCCGTCAT
Statistics
Matches: 27, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
30 27 1.00
ACGTcount: A:0.07, C:0.14, G:0.46, T:0.34
Consensus pattern (30 bp):
GTGATTGTGTGGGCGCTGTTGATGGGCCCG
Found at i:9394981 original size:307 final size:307
Alignment explanation
Indices: 9394427--9395039 Score: 1199
Period size: 307 Copynumber: 2.0 Consensus size: 307
9394417 ATTAGTTGTT
*
9394427 TCATTTTGTTGCATACATTTTTTTATGTTATATAGAATAAATTTATGAATTAATTGTAATACCCT
1 TCATTTTGTTGCATACATTTTTTTATGTTATATAGAATAAATTTATGAATTAATTGTAATAACCT
*
9394492 ATATTTGGTTTGATCGTCGAATCAAAGCTATGGAACACCATATTAACCTCCTAAGTAACTCTATA
66 ATACTTGGTTTGATCGTCGAATCAAAGCTATGGAACACCATATTAACCTCCTAAGTAACTCTATA
9394557 TTAACTCCCAATCTAACTTCTAACACACCAGCAGATAACAACATAGAATGTGCTTAAGTTATTAA
131 TTAACTCCCAATCTAACTTCTAACACACCAGCAGATAACAACATAGAATGTGCTTAAGTTATTAA
9394622 TGTGCAGCGAAATGACAAATAAGTACTTAAAGCAAAACTCTTTTAACCAGCTCACATACAAATAA
196 TGTGCAGCGAAATGACAAATAAGTACTTAAAGCAAAACTCTTTTAACCAGCTCACATACAAATAA
9394687 GGGTTCACATACTTGTGGGGGGTTTCGAATAATAAAAAAAATAAAAC
261 GGGTTCACATACTTGTGGGGGGTTTCGAATAATAAAAAAAATAAAAC
9394734 TCATTTTGTTGCATACATTTTTTTATGTTATATAGAATAAATTTATGAATTAATTGTAATAACCT
1 TCATTTTGTTGCATACATTTTTTTATGTTATATAGAATAAATTTATGAATTAATTGTAATAACCT
9394799 ATACTTGGTTTGATCGTCGAATCAAAGCTATGGAACACCATATTAACCTCCTAAGTAACTCTATA
66 ATACTTGGTTTGATCGTCGAATCAAAGCTATGGAACACCATATTAACCTCCTAAGTAACTCTATA
9394864 TTAACTCCCAATCTAACTTCTAACACACCAGCAGATAACAACATAGAATGTGCTTAAGTTATTAA
131 TTAACTCCCAATCTAACTTCTAACACACCAGCAGATAACAACATAGAATGTGCTTAAGTTATTAA
*
9394929 TGTGCAGCGGAATGACAAATAAGTACTTAAAGCAAAACTCTTTTAACCAGCTCACATACAAATAA
196 TGTGCAGCGAAATGACAAATAAGTACTTAAAGCAAAACTCTTTTAACCAGCTCACATACAAATAA
9394994 GGGTTCACATACTTGTGGGGGGTTTCGAATAATAAAAAAAATAAAA
261 GGGTTCACATACTTGTGGGGGGTTTCGAATAATAAAAAAAATAAAA
9395040 GTTACTTTTT
Statistics
Matches: 303, Mismatches: 3, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
307 303 1.00
ACGTcount: A:0.38, C:0.17, G:0.13, T:0.32
Consensus pattern (307 bp):
TCATTTTGTTGCATACATTTTTTTATGTTATATAGAATAAATTTATGAATTAATTGTAATAACCT
ATACTTGGTTTGATCGTCGAATCAAAGCTATGGAACACCATATTAACCTCCTAAGTAACTCTATA
TTAACTCCCAATCTAACTTCTAACACACCAGCAGATAACAACATAGAATGTGCTTAAGTTATTAA
TGTGCAGCGAAATGACAAATAAGTACTTAAAGCAAAACTCTTTTAACCAGCTCACATACAAATAA
GGGTTCACATACTTGTGGGGGGTTTCGAATAATAAAAAAAATAAAAC
Found at i:9401017 original size:39 final size:39
Alignment explanation
Indices: 9400974--9401077 Score: 145
Period size: 39 Copynumber: 2.7 Consensus size: 39
9400964 CATAGTCACT
* * *
9400974 TTTAAGCATATATCACATTACACATATAATCACATAACA
1 TTTAAGCATATATCACAATACTCATATAATCACACAACA
* *
9401013 TTTAAGAATATACCACAATACTCATATAATCACACAACA
1 TTTAAGCATATATCACAATACTCATATAATCACACAACA
* *
9401052 TTCAAACATATATCACAATACTCATA
1 TTTAAGCATATATCACAATACTCATA
9401078 GCATGTTTAT
Statistics
Matches: 56, Mismatches: 9, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
39 56 1.00
ACGTcount: A:0.47, C:0.22, G:0.02, T:0.29
Consensus pattern (39 bp):
TTTAAGCATATATCACAATACTCATATAATCACACAACA
Found at i:9403256 original size:6 final size:6
Alignment explanation
Indices: 9403245--9403941 Score: 1394
Period size: 6 Copynumber: 116.2 Consensus size: 6
9403235 ACACATATAC
9403245 ACATAT ACATAT ACATAT ACATAT ACATAT ACATAT ACATAT ACATAT
1 ACATAT ACATAT ACATAT ACATAT ACATAT ACATAT ACATAT ACATAT
9403293 ACATAT ACATAT ACATAT ACATAT ACATAT ACATAT ACATAT ACATAT
1 ACATAT ACATAT ACATAT ACATAT ACATAT ACATAT ACATAT ACATAT
9403341 ACATAT ACATAT ACATAT ACATAT ACATAT ACATAT ACATAT ACATAT
1 ACATAT ACATAT ACATAT ACATAT ACATAT ACATAT ACATAT ACATAT
9403389 ACATAT ACATAT ACATAT ACATAT ACATAT ACATAT ACATAT ACATAT
1 ACATAT ACATAT ACATAT ACATAT ACATAT ACATAT ACATAT ACATAT
9403437 ACATAT ACATAT ACATAT ACATAT ACATAT ACATAT ACATAT ACATAT
1 ACATAT ACATAT ACATAT ACATAT ACATAT ACATAT ACATAT ACATAT
9403485 ACATAT ACATAT ACATAT ACATAT ACATAT ACATAT ACATAT ACATAT
1 ACATAT ACATAT ACATAT ACATAT ACATAT ACATAT ACATAT ACATAT
9403533 ACATAT ACATAT ACATAT ACATAT ACATAT ACATAT ACATAT ACATAT
1 ACATAT ACATAT ACATAT ACATAT ACATAT ACATAT ACATAT ACATAT
9403581 ACATAT ACATAT ACATAT ACATAT ACATAT ACATAT ACATAT ACATAT
1 ACATAT ACATAT ACATAT ACATAT ACATAT ACATAT ACATAT ACATAT
9403629 ACATAT ACATAT ACATAT ACATAT ACATAT ACATAT ACATAT ACATAT
1 ACATAT ACATAT ACATAT ACATAT ACATAT ACATAT ACATAT ACATAT
9403677 ACATAT ACATAT ACATAT ACATAT ACATAT ACATAT ACATAT ACATAT
1 ACATAT ACATAT ACATAT ACATAT ACATAT ACATAT ACATAT ACATAT
9403725 ACATAT ACATAT ACATAT ACATAT ACATAT ACATAT ACATAT ACATAT
1 ACATAT ACATAT ACATAT ACATAT ACATAT ACATAT ACATAT ACATAT
9403773 ACATAT ACATAT ACATAT ACATAT ACATAT ACATAT ACATAT ACATAT
1 ACATAT ACATAT ACATAT ACATAT ACATAT ACATAT ACATAT ACATAT
9403821 ACATAT ACATAT ACATAT ACATAT ACATAT ACATAT ACATAT ACATAT
1 ACATAT ACATAT ACATAT ACATAT ACATAT ACATAT ACATAT ACATAT
9403869 ACATAT ACATAT ACATAT ACATAT ACATAT ACATAT ACATAT ACATAT
1 ACATAT ACATAT ACATAT ACATAT ACATAT ACATAT ACATAT ACATAT
9403917 ACATAT ACATAT ACATAT ACATAT A
1 ACATAT ACATAT ACATAT ACATAT A
9403942 AGCTCAAAAA
Statistics
Matches: 691, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 691 1.00
ACGTcount: A:0.50, C:0.17, G:0.00, T:0.33
Consensus pattern (6 bp):
ACATAT
Found at i:9412443 original size:15 final size:15
Alignment explanation
Indices: 9412423--9412479 Score: 89
Period size: 15 Copynumber: 3.9 Consensus size: 15
9412413 CGATGAATTT
*
9412423 ATTGAATTTATATTG
1 ATTGAAATTATATTG
*
9412438 ATTGAAATTATTTTG
1 ATTGAAATTATATTG
9412453 ATTGAAATTATATTG
1 ATTGAAATTATATTG
9412468 ATTG-AATTATAT
1 ATTGAAATTATAT
9412480 AATATATATG
Statistics
Matches: 39, Mismatches: 3, Indels: 1
0.91 0.07 0.02
Matches are distributed among these distances:
14 8 0.21
15 31 0.79
ACGTcount: A:0.37, C:0.00, G:0.12, T:0.51
Consensus pattern (15 bp):
ATTGAAATTATATTG
Found at i:9412900 original size:21 final size:21
Alignment explanation
Indices: 9412865--9412960 Score: 129
Period size: 21 Copynumber: 4.5 Consensus size: 21
9412855 AGGCACTTTA
9412865 TGTGTCGTATTTCAGGCACCTCG
1 TGTGTCGTA--TCAGGCACCTCG
9412888 TGTGTCGTATCAGGCACCTCG
1 TGTGTCGTATCAGGCACCTCG
9412909 TGTGTCGTATCAGGCACCTCG
1 TGTGTCGTATCAGGCACCTCG
* * * **
9412930 TGTGTCGTTTTAGGCACTTTA
1 TGTGTCGTATCAGGCACCTCG
9412951 TGTGTCGTAT
1 TGTGTCGTAT
9412961 ATTGATCAGG
Statistics
Matches: 67, Mismatches: 6, Indels: 2
0.89 0.08 0.03
Matches are distributed among these distances:
21 58 0.87
23 9 0.13
ACGTcount: A:0.14, C:0.23, G:0.27, T:0.36
Consensus pattern (21 bp):
TGTGTCGTATCAGGCACCTCG
Found at i:9412935 original size:42 final size:42
Alignment explanation
Indices: 9412852--9412960 Score: 137
Period size: 42 Copynumber: 2.5 Consensus size: 42
9412842 GGCTTTACTG
* *
9412852 ATCAGGCACTTTATGTGTCGTATTTCAGGCACCTCGTGTGTCGT
1 ATCAGGCACCTCATGTGTCGTA--TCAGGCACCTCGTGTGTCGT
*
9412896 ATCAGGCACCTCGTGTGTCGTATCAGGCACCTCGTGTGTCGT
1 ATCAGGCACCTCATGTGTCGTATCAGGCACCTCGTGTGTCGT
* * * *
9412938 TTTAGGCACTTTATGTGTCGTAT
1 ATCAGGCACCTCATGTGTCGTAT
9412961 ATTGATCAGG
Statistics
Matches: 57, Mismatches: 8, Indels: 2
0.85 0.12 0.03
Matches are distributed among these distances:
42 38 0.67
44 19 0.33
ACGTcount: A:0.16, C:0.23, G:0.26, T:0.36
Consensus pattern (42 bp):
ATCAGGCACCTCATGTGTCGTATCAGGCACCTCGTGTGTCGT
Found at i:9418778 original size:17 final size:18
Alignment explanation
Indices: 9418748--9418793 Score: 64
Period size: 18 Copynumber: 2.8 Consensus size: 18
9418738 ATTTAAATTG
9418748 CGGTCGCGGTCGCGTTTT
1 CGGTCGCGGTCGCGTTTT
9418766 CGGTCGC-GTCGCG-TTT
1 CGGTCGCGGTCGCGTTTT
9418782 --GTCGCGGTCGCG
1 CGGTCGCGGTCGCG
9418794 GACATAACGG
Statistics
Matches: 27, Mismatches: 0, Indels: 5
0.84 0.00 0.16
Matches are distributed among these distances:
14 5 0.19
15 6 0.22
16 3 0.11
17 6 0.22
18 7 0.26
ACGTcount: A:0.00, C:0.30, G:0.41, T:0.28
Consensus pattern (18 bp):
CGGTCGCGGTCGCGTTTT
Found at i:9422252 original size:28 final size:28
Alignment explanation
Indices: 9422220--9422276 Score: 114
Period size: 28 Copynumber: 2.0 Consensus size: 28
9422210 ATTATACATT
9422220 ATTAGGAACAAGCAAAGCTATAAAGGGA
1 ATTAGGAACAAGCAAAGCTATAAAGGGA
9422248 ATTAGGAACAAGCAAAGCTATAAAGGGA
1 ATTAGGAACAAGCAAAGCTATAAAGGGA
9422276 A
1 A
9422277 GAGCTATTAA
Statistics
Matches: 29, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
28 29 1.00
ACGTcount: A:0.51, C:0.11, G:0.25, T:0.14
Consensus pattern (28 bp):
ATTAGGAACAAGCAAAGCTATAAAGGGA
Found at i:9438259 original size:13 final size:13
Alignment explanation
Indices: 9438241--9438265 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
9438231 ATTTCATGAG
9438241 GTGAAAAGAAAAC
1 GTGAAAAGAAAAC
9438254 GTGAAAAGAAAA
1 GTGAAAAGAAAA
9438266 AGGAGGCAAG
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:0.64, C:0.04, G:0.24, T:0.08
Consensus pattern (13 bp):
GTGAAAAGAAAAC
Found at i:9441912 original size:41 final size:46
Alignment explanation
Indices: 9441867--9441960 Score: 134
Period size: 50 Copynumber: 1.9 Consensus size: 46
9441857 CTTTTGGCAA
9441867 CTTCTTATTAGCAATTTTAACACAATGCTTTGGGTTGTCCTCTTCTTCT
1 CTTC-TATTAGCAATTTTAACACAATGCTTTGGGTTGTCCTCTTC-T-T
*
9441916 CTTTCCTGTTAGCAATTTTAACACAATGCTTTGGGTTGTCCTCTT
1 C-TT-CTATTAGCAATTTTAACACAATGCTTTGGGTTGTCCTCTT
9441961 TCTTTCCCTT
Statistics
Matches: 42, Mismatches: 1, Indels: 3
0.91 0.02 0.07
Matches are distributed among these distances:
49 1 0.02
50 40 0.95
51 1 0.02
ACGTcount: A:0.18, C:0.22, G:0.14, T:0.46
Consensus pattern (46 bp):
CTTCTATTAGCAATTTTAACACAATGCTTTGGGTTGTCCTCTTCTT
Found at i:9445121 original size:67 final size:68
Alignment explanation
Indices: 9445013--9445148 Score: 256
Period size: 67 Copynumber: 2.0 Consensus size: 68
9445003 AAATAATAAC
9445013 ACCATTTTAAATGAATAATTAAAAATGAAGGAGATCAAAGACATAG-ACACACACACACATTGAC
1 ACCATTTTAAATGAATAATTAAAAATGAAGGAGATCAAAGACATAGAACACACACACACATTGAC
9445077 ATT
66 ATT
9445080 ACCATTTTAAATGAATAATTAAAAATGAAGGAGATCAAAGACATAGACACACACACACACATTGA
1 ACCATTTTAAATGAATAATTAAAAATGAAGGAGATCAAAGACATAGA-ACACACACACACATTGA
9445145 CATT
65 CATT
9445149 GACATTGACA
Statistics
Matches: 67, Mismatches: 0, Indels: 2
0.97 0.00 0.03
Matches are distributed among these distances:
67 46 0.69
69 21 0.31
ACGTcount: A:0.49, C:0.17, G:0.12, T:0.22
Consensus pattern (68 bp):
ACCATTTTAAATGAATAATTAAAAATGAAGGAGATCAAAGACATAGAACACACACACACATTGAC
ATT
Found at i:9447757 original size:15 final size:15
Alignment explanation
Indices: 9447718--9447760 Score: 50
Period size: 15 Copynumber: 2.7 Consensus size: 15
9447708 ACGAGAATGA
9447718 TAAAATTATATTTAAAT
1 TAAAATTATA--TAAAT
* *
9447735 TAATATTATATATAT
1 TAAAATTATATAAAT
9447750 TAAAATTATAT
1 TAAAATTATAT
9447761 TTATCTTAAA
Statistics
Matches: 23, Mismatches: 3, Indels: 2
0.82 0.11 0.07
Matches are distributed among these distances:
15 14 0.61
17 9 0.39
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (15 bp):
TAAAATTATATAAAT
Found at i:9451832 original size:44 final size:45
Alignment explanation
Indices: 9451770--9451865 Score: 133
Period size: 44 Copynumber: 2.2 Consensus size: 45
9451760 TCGTATATTC
* * *
9451770 TTTGA-TTCAGTATTTAAACATGTAATAACTGGTG-AAGCCAATG
1 TTTGAGTTCAGTATTTAAACAAGTAAGAACTGGTGAAAGCCAATA
* *
9451813 TTTGAGTTCTGTATTTAAACAAGTAAGAACTGGTGAAAGGCAATA
1 TTTGAGTTCAGTATTTAAACAAGTAAGAACTGGTGAAAGCCAATA
9451858 TTTGAGTT
1 TTTGAGTT
9451866 GAGAGAGAAT
Statistics
Matches: 46, Mismatches: 5, Indels: 2
0.87 0.09 0.04
Matches are distributed among these distances:
43 5 0.11
44 26 0.57
45 15 0.33
ACGTcount: A:0.34, C:0.09, G:0.21, T:0.35
Consensus pattern (45 bp):
TTTGAGTTCAGTATTTAAACAAGTAAGAACTGGTGAAAGCCAATA
Found at i:9455571 original size:23 final size:23
Alignment explanation
Indices: 9455545--9455590 Score: 92
Period size: 23 Copynumber: 2.0 Consensus size: 23
9455535 ATCATGGTTG
9455545 AATTTGGATGATAATCATCTCTT
1 AATTTGGATGATAATCATCTCTT
9455568 AATTTGGATGATAATCATCTCTT
1 AATTTGGATGATAATCATCTCTT
9455591 CTAGATATGA
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
23 23 1.00
ACGTcount: A:0.30, C:0.13, G:0.13, T:0.43
Consensus pattern (23 bp):
AATTTGGATGATAATCATCTCTT
Found at i:9455885 original size:18 final size:19
Alignment explanation
Indices: 9455862--9455904 Score: 61
Period size: 21 Copynumber: 2.2 Consensus size: 19
9455852 CAGGCAAGCC
9455862 TTTTG-AAGTAGTATTGTA
1 TTTTGTAAGTAGTATTGTA
9455880 TTTTGATTAAGTAGTATTGTA
1 TTTTG--TAAGTAGTATTGTA
9455901 TTTT
1 TTTT
9455905 TGGATAGTTT
Statistics
Matches: 22, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
18 5 0.23
21 17 0.77
ACGTcount: A:0.26, C:0.00, G:0.19, T:0.56
Consensus pattern (19 bp):
TTTTGTAAGTAGTATTGTA
Found at i:9458582 original size:58 final size:57
Alignment explanation
Indices: 9458471--9458585 Score: 144
Period size: 58 Copynumber: 2.0 Consensus size: 57
9458461 NNACCATATT
* * *
9458471 TTAACATAATTATTATTAAATATAATTTAATAAAATAATATATAATTTAATAAAATTC
1 TTAACATAATTATTATT-AATATAAATTAAAAAAATAATATATAATCTAATAAAATTC
*
9458529 TTAATATAATTATTATT-ATATAAATTAAAAAATCATAATATATAATACT-ATAAAATT
1 TTAACATAATTATTATTAATATAAATTAAAAAA--ATAATATATAAT-CTAATAAAATT
9458586 AATATATAAT
Statistics
Matches: 50, Mismatches: 4, Indels: 6
0.83 0.07 0.10
Matches are distributed among these distances:
56 13 0.26
58 36 0.72
59 1 0.02
ACGTcount: A:0.54, C:0.03, G:0.00, T:0.43
Consensus pattern (57 bp):
TTAACATAATTATTATTAATATAAATTAAAAAAATAATATATAATCTAATAAAATTC
Found at i:9460907 original size:23 final size:23
Alignment explanation
Indices: 9460878--9460923 Score: 92
Period size: 23 Copynumber: 2.0 Consensus size: 23
9460868 TCATATCTAG
9460878 AAGAGATGATTATCATCCAAATT
1 AAGAGATGATTATCATCCAAATT
9460901 AAGAGATGATTATCATCCAAATT
1 AAGAGATGATTATCATCCAAATT
9460924 CAACCATGAT
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
23 23 1.00
ACGTcount: A:0.43, C:0.13, G:0.13, T:0.30
Consensus pattern (23 bp):
AAGAGATGATTATCATCCAAATT
Found at i:9463116 original size:19 final size:20
Alignment explanation
Indices: 9463092--9463132 Score: 66
Period size: 20 Copynumber: 2.1 Consensus size: 20
9463082 GTAGCAATAT
*
9463092 AATAGT-AAAACGACACCAA
1 AATAGTAAAAACGACAACAA
9463111 AATAGTAAAAACGACAACAA
1 AATAGTAAAAACGACAACAA
9463131 AA
1 AA
9463133 AACAATAGGT
Statistics
Matches: 20, Mismatches: 1, Indels: 1
0.91 0.05 0.05
Matches are distributed among these distances:
19 6 0.30
20 14 0.70
ACGTcount: A:0.63, C:0.17, G:0.10, T:0.10
Consensus pattern (20 bp):
AATAGTAAAAACGACAACAA
Found at i:9463201 original size:30 final size:29
Alignment explanation
Indices: 9463145--9463204 Score: 120
Period size: 29 Copynumber: 2.1 Consensus size: 29
9463135 CAATAGGTTT
9463145 TTTGTTCAAATTGGTCGGGGAAAAAAAAC
1 TTTGTTCAAATTGGTCGGGGAAAAAAAAC
9463174 TTTGTTCAAATTGGTCGGGGAAAAAAAAC
1 TTTGTTCAAATTGGTCGGGGAAAAAAAAC
9463203 TT
1 TT
9463205 ACACAAGGCC
Statistics
Matches: 31, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
29 31 1.00
ACGTcount: A:0.37, C:0.10, G:0.23, T:0.30
Consensus pattern (29 bp):
TTTGTTCAAATTGGTCGGGGAAAAAAAAC
Found at i:9463447 original size:24 final size:23
Alignment explanation
Indices: 9463420--9463480 Score: 68
Period size: 25 Copynumber: 2.5 Consensus size: 23
9463410 TAGCTCGAAA
*
9463420 GAGCGTCCCGTTGTTAGCTCTCAT
1 GAGCATCCCGTT-TTAGCTCTCAT
*
9463444 GAGCATCCCGATATTTGGCTCTCAT
1 GAGCATCCCG-T-TTTAGCTCTCAT
*
9463469 GAGCTTCCCGTT
1 GAGCATCCCGTT
9463481 ATATGGTTCT
Statistics
Matches: 32, Mismatches: 3, Indels: 5
0.80 0.08 0.12
Matches are distributed among these distances:
23 1 0.03
24 10 0.31
25 20 0.62
26 1 0.03
ACGTcount: A:0.15, C:0.30, G:0.23, T:0.33
Consensus pattern (23 bp):
GAGCATCCCGTTTTAGCTCTCAT
Found at i:9476238 original size:3 final size:3
Alignment explanation
Indices: 9476230--9476254 Score: 50
Period size: 3 Copynumber: 8.3 Consensus size: 3
9476220 ATTACATCCA
9476230 AAT AAT AAT AAT AAT AAT AAT AAT A
1 AAT AAT AAT AAT AAT AAT AAT AAT A
9476255 TAACATGTGA
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 22 1.00
ACGTcount: A:0.68, C:0.00, G:0.00, T:0.32
Consensus pattern (3 bp):
AAT
Found at i:9480594 original size:3 final size:3
Alignment explanation
Indices: 9480586--9480626 Score: 82
Period size: 3 Copynumber: 13.7 Consensus size: 3
9480576 ATTACATCCA
9480586 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AA
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AA
9480627 AACATGTGAT
Statistics
Matches: 38, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 38 1.00
ACGTcount: A:0.68, C:0.00, G:0.00, T:0.32
Consensus pattern (3 bp):
AAT
Found at i:9480901 original size:18 final size:18
Alignment explanation
Indices: 9480878--9480918 Score: 64
Period size: 18 Copynumber: 2.3 Consensus size: 18
9480868 TTGCTTTAAC
*
9480878 GGATGAGGACGAGGACGA
1 GGATGAGGACGAGGAAGA
*
9480896 GGATGAGGATGAGGAAGA
1 GGATGAGGACGAGGAAGA
9480914 GGATG
1 GGATG
9480919 TTGTAACAGA
Statistics
Matches: 21, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
18 21 1.00
ACGTcount: A:0.34, C:0.05, G:0.51, T:0.10
Consensus pattern (18 bp):
GGATGAGGACGAGGAAGA
Found at i:9480903 original size:12 final size:12
Alignment explanation
Indices: 9480878--9480918 Score: 55
Period size: 12 Copynumber: 3.4 Consensus size: 12
9480868 TTGCTTTAAC
*
9480878 GGATGAGGACGA
1 GGATGAGGAAGA
* *
9480890 GGACGAGGATGA
1 GGATGAGGAAGA
9480902 GGATGAGGAAGA
1 GGATGAGGAAGA
9480914 GGATG
1 GGATG
9480919 TTGTAACAGA
Statistics
Matches: 25, Mismatches: 4, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
12 25 1.00
ACGTcount: A:0.34, C:0.05, G:0.51, T:0.10
Consensus pattern (12 bp):
GGATGAGGAAGA
Found at i:9482170 original size:18 final size:18
Alignment explanation
Indices: 9482147--9482182 Score: 54
Period size: 18 Copynumber: 2.0 Consensus size: 18
9482137 CAACAAGTAT
9482147 GTTTTTAAAAAAAAATTA
1 GTTTTTAAAAAAAAATTA
* *
9482165 GTTTTTTAGAAAAAATTA
1 GTTTTTAAAAAAAAATTA
9482183 TGACATGTTT
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
18 16 1.00
ACGTcount: A:0.50, C:0.00, G:0.08, T:0.42
Consensus pattern (18 bp):
GTTTTTAAAAAAAAATTA
Found at i:9491533 original size:30 final size:27
Alignment explanation
Indices: 9491499--9491571 Score: 89
Period size: 25 Copynumber: 2.7 Consensus size: 27
9491489 TTAATAAGAT
9491499 AAAATTAATTGATCAATCATTCTTAAAAAA
1 AAAATTAATT-AT--ATCATTCTTAAAAAA
*
9491529 AAAATTAATTATTTCATTCTT--AAAA
1 AAAATTAATTATATCATTCTTAAAAAA
9491554 AAAATTAATTAT-TCATTC
1 AAAATTAATTATATCATTC
9491572 ACTTATATCT
Statistics
Matches: 42, Mismatches: 1, Indels: 6
0.86 0.02 0.12
Matches are distributed among these distances:
24 6 0.14
25 16 0.38
27 8 0.19
29 2 0.05
30 10 0.24
ACGTcount: A:0.49, C:0.10, G:0.01, T:0.40
Consensus pattern (27 bp):
AAAATTAATTATATCATTCTTAAAAAA
Found at i:9491534 original size:26 final size:27
Alignment explanation
Indices: 9491505--9491557 Score: 72
Period size: 27 Copynumber: 2.0 Consensus size: 27
9491495 AGATAAAATT
*
9491505 AATTGATCA-ATCATTCTTAAAAAAAA
1 AATTAATCATATCATTCTTAAAAAAAA
* *
9491531 AATTAATTATTTCATTCTTAAAAAAAA
1 AATTAATCATATCATTCTTAAAAAAAA
9491558 TTAATTATTC
Statistics
Matches: 23, Mismatches: 3, Indels: 1
0.85 0.11 0.04
Matches are distributed among these distances:
26 7 0.30
27 16 0.70
ACGTcount: A:0.53, C:0.09, G:0.02, T:0.36
Consensus pattern (27 bp):
AATTAATCATATCATTCTTAAAAAAAA
Found at i:9492160 original size:19 final size:20
Alignment explanation
Indices: 9492112--9492154 Score: 56
Period size: 19 Copynumber: 2.3 Consensus size: 20
9492102 TTTTATAAAT
9492112 AATTAT-AA-AATAGTAATA
1 AATTATGAATAATAGTAATA
*
9492130 TATTATGAATAATA-TAATA
1 AATTATGAATAATAGTAATA
9492149 AATTAT
1 AATTAT
9492155 TGATAAATCT
Statistics
Matches: 21, Mismatches: 2, Indels: 3
0.81 0.08 0.12
Matches are distributed among these distances:
18 5 0.24
19 12 0.57
20 4 0.19
ACGTcount: A:0.56, C:0.00, G:0.05, T:0.40
Consensus pattern (20 bp):
AATTATGAATAATAGTAATA
Found at i:9496133 original size:70 final size:65
Alignment explanation
Indices: 9496047--9496200 Score: 173
Period size: 65 Copynumber: 2.3 Consensus size: 65
9496037 GCACTACCGT
* **
9496047 AGCTCTTTGTGGGCGTCCTATTACATGATTCGATCGATTGTGATCCTGCATATGTTGCGGACACA
1 AGCTCTTTGTGAGCGTCCTATT--ATG---CGATCGATTGTGATCCTGCATACATTGCGGACACA
9496112 AACGC
61 AACGC
* * * * *
9496117 AGCTATTTGTGAGCGTCCTGTTATGCGATCGGTTGTGATCTTGCATACATTGCGGACATAAACGC
1 AGCTCTTTGTGAGCGTCCTATTATGCGATCGATTGTGATCCTGCATACATTGCGGACACAAACGC
* *
9496182 AACTCTTTATGAGCGTCCT
1 AGCTCTTTGTGAGCGTCCT
9496201 GTTAAGCTCG
Statistics
Matches: 73, Mismatches: 11, Indels: 5
0.82 0.12 0.06
Matches are distributed among these distances:
65 51 0.70
68 3 0.04
70 19 0.26
ACGTcount: A:0.21, C:0.22, G:0.24, T:0.32
Consensus pattern (65 bp):
AGCTCTTTGTGAGCGTCCTATTATGCGATCGATTGTGATCCTGCATACATTGCGGACACAAACGC
Found at i:9496155 original size:65 final size:65
Alignment explanation
Indices: 9496077--9496204 Score: 184
Period size: 65 Copynumber: 2.0 Consensus size: 65
9496067 TTACATGATT
** * *
9496077 CGATCGATTGTGATCCTGCATATGTTGCGGACACAAACGCAGCTATTTGTGAGCGTCCTGTTATG
1 CGATCGATTGTGATCCTGCATACATTGCGGACACAAACGCAACTATTTATGAGCGTCCTGTTATG
* * * *
9496142 CGATCGGTTGTGATCTTGCATACATTGCGGACATAAACGCAACTCTTTATGAGCGTCCTGTTA
1 CGATCGATTGTGATCCTGCATACATTGCGGACACAAACGCAACTATTTATGAGCGTCCTGTTA
9496205 AGCTCGCTTG
Statistics
Matches: 55, Mismatches: 8, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
65 55 1.00
ACGTcount: A:0.23, C:0.22, G:0.24, T:0.31
Consensus pattern (65 bp):
CGATCGATTGTGATCCTGCATACATTGCGGACACAAACGCAACTATTTATGAGCGTCCTGTTATG
Found at i:9497698 original size:23 final size:23
Alignment explanation
Indices: 9497671--9497716 Score: 92
Period size: 23 Copynumber: 2.0 Consensus size: 23
9497661 ATTATTTGTG
9497671 ATAGTGCGATATATCTTGACCAT
1 ATAGTGCGATATATCTTGACCAT
9497694 ATAGTGCGATATATCTTGACCAT
1 ATAGTGCGATATATCTTGACCAT
9497717 TTTAAGTGTA
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
23 23 1.00
ACGTcount: A:0.30, C:0.17, G:0.17, T:0.35
Consensus pattern (23 bp):
ATAGTGCGATATATCTTGACCAT
Found at i:9504952 original size:28 final size:28
Alignment explanation
Indices: 9504920--9504988 Score: 102
Period size: 28 Copynumber: 2.5 Consensus size: 28
9504910 TGTGAATCTT
***
9504920 GCACTAAGTGTGCGAATGTGGTTATTGA
1 GCACTAAGTGTGCGAATGTAAATATTGA
*
9504948 GCACTAAGTGTGCGAATTTAAATATTGA
1 GCACTAAGTGTGCGAATGTAAATATTGA
9504976 GCACTAAGTGTGC
1 GCACTAAGTGTGC
9504989 AAATTGTGTA
Statistics
Matches: 37, Mismatches: 4, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
28 37 1.00
ACGTcount: A:0.29, C:0.13, G:0.28, T:0.30
Consensus pattern (28 bp):
GCACTAAGTGTGCGAATGTAAATATTGA
Found at i:9509323 original size:30 final size:30
Alignment explanation
Indices: 9509289--9509361 Score: 76
Period size: 30 Copynumber: 2.4 Consensus size: 30
9509279 CTTATTTTTA
* * *
9509289 TTTTAGATTTTGATTGATTTTTTTTCT-AAT
1 TTTTAGATTTTGAAT-ATTTTATTTATAAAT
*
9509319 TTTTATATTTTTGAATATTTTATTTATAAAT
1 TTTTAGA-TTTTGAATATTTTATTTATAAAT
*
9509350 TTTTAGAATTTG
1 TTTTAGATTTTG
9509362 GACTAAATTA
Statistics
Matches: 35, Mismatches: 6, Indels: 4
0.78 0.13 0.09
Matches are distributed among these distances:
30 19 0.54
31 16 0.46
ACGTcount: A:0.26, C:0.01, G:0.08, T:0.64
Consensus pattern (30 bp):
TTTTAGATTTTGAATATTTTATTTATAAAT
Found at i:9529172 original size:30 final size:27
Alignment explanation
Indices: 9529128--9529214 Score: 113
Period size: 26 Copynumber: 3.1 Consensus size: 27
9529118 TATTTTGGAG
*
9529128 AGAAGAGATTTTTTTTTTTGATATTCA
1 AGAAGAGATTTTTTTTTTTGAGATTCA
9529155 AGAAGAGA-TTTTTTTTTTGAGATTCA
1 AGAAGAGATTTTTTTTTTTGAGATTCA
* *
9529181 AGAGGGGATTTTTCTTTTTTTTGAGATTCA
1 AGAAGAGA--TTT-TTTTTTTTGAGATTCA
9529211 AGAA
1 AGAA
9529215 CAAAAAATCA
Statistics
Matches: 52, Mismatches: 4, Indels: 5
0.85 0.07 0.08
Matches are distributed among these distances:
26 23 0.44
27 8 0.15
29 2 0.04
30 19 0.37
ACGTcount: A:0.29, C:0.05, G:0.20, T:0.47
Consensus pattern (27 bp):
AGAAGAGATTTTTTTTTTTGAGATTCA
Found at i:9529993 original size:22 final size:22
Alignment explanation
Indices: 9529963--9530023 Score: 61
Period size: 22 Copynumber: 2.8 Consensus size: 22
9529953 NNNNNATATC
*
9529963 TTTTACTATTATTATTGTTGTA
1 TTTTACTATTATTATTGTTATA
* * *
9529985 TTTTTCTATTATTGTTATTATA
1 TTTTACTATTATTATTGTTATA
* *
9530007 TTTTCCT-TTATTTTTGT
1 TTTTACTATTATTATTGT
9530024 ATTTACTTAT
Statistics
Matches: 32, Mismatches: 7, Indels: 1
0.80 0.17 0.03
Matches are distributed among these distances:
21 8 0.25
22 24 0.75
ACGTcount: A:0.18, C:0.07, G:0.07, T:0.69
Consensus pattern (22 bp):
TTTTACTATTATTATTGTTATA
Found at i:9531433 original size:25 final size:25
Alignment explanation
Indices: 9531399--9531455 Score: 105
Period size: 25 Copynumber: 2.3 Consensus size: 25
9531389 ATATTTATGG
*
9531399 GTGAAGTAAGAATTTAGAAGAATTT
1 GTGAAATAAGAATTTAGAAGAATTT
9531424 GTGAAATAAGAATTTAGAAGAATTT
1 GTGAAATAAGAATTTAGAAGAATTT
9531449 GTGAAAT
1 GTGAAAT
9531456 GGTGAAATTA
Statistics
Matches: 31, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
25 31 1.00
ACGTcount: A:0.46, C:0.00, G:0.23, T:0.32
Consensus pattern (25 bp):
GTGAAATAAGAATTTAGAAGAATTT
Found at i:9532724 original size:35 final size:35
Alignment explanation
Indices: 9532697--9532862 Score: 172
Period size: 35 Copynumber: 4.6 Consensus size: 35
9532687 CATGGAAAAG
*
9532697 TGTGAAATGTAGGTATGGTATCATCCATACTGAGT
1 TGTGAAATGTAGGTATGGTATCATCCATACTGAGC
*
9532732 TGTGAAATGTAGGTATGGTATTATCCATACTGAGC
1 TGTGAAATGTAGGTATGGTATCATCCATACTGAGC
*
9532767 TGTGAAATGTAGGTATGGTATTATCAAATCCATACTGAGT
1 TGTGAAATGTAGGTATGG---TATC--ATCCATACTGAGC
** * * * *
9532807 TAAGAAATGTAGGTATGGCAT-TTCCCATACCGAGT
1 TGTGAAATGTAGGTATGGTATCAT-CCATACTGAGC
**
9532842 TGAAAAATGTAGGTATGGTAT
1 TGTGAAATGTAGGTATGGTAT
9532863 TTCAATAAGG
Statistics
Matches: 113, Mismatches: 12, Indels: 12
0.82 0.09 0.09
Matches are distributed among these distances:
34 1 0.01
35 79 0.70
37 2 0.02
38 3 0.03
40 28 0.25
ACGTcount: A:0.31, C:0.11, G:0.25, T:0.33
Consensus pattern (35 bp):
TGTGAAATGTAGGTATGGTATCATCCATACTGAGC
Found at i:9532816 original size:75 final size:75
Alignment explanation
Indices: 9532697--9532867 Score: 221
Period size: 75 Copynumber: 2.4 Consensus size: 75
9532687 CATGGAAAAG
** *
9532697 TGTGAAATGTAGGTATGG---TATC--ATCCATACTGAGTTGTGAAATGTAGGTATGGTATTAT-
1 TGTGAAATGTAGGTATGGTATTATCAAATCCATACTGAGTTAAGAAATGTAGGTATGGCATT-TC
*
9532756 CCATACTGAGC
65 CCATACCGAGC
9532767 TGTGAAATGTAGGTATGGTATTATCAAATCCATACTGAGTTAAGAAATGTAGGTATGGCATTTCC
1 TGTGAAATGTAGGTATGGTATTATCAAATCCATACTGAGTTAAGAAATGTAGGTATGGCATTTCC
*
9532832 CATACCGAGT
66 CATACCGAGC
**
9532842 TGAAAAATGTAGGTATGGTATT-TCAA
1 TGTGAAATGTAGGTATGGTATTATCAA
9532868 TAAGGAAAAC
Statistics
Matches: 88, Mismatches: 7, Indels: 8
0.85 0.07 0.08
Matches are distributed among these distances:
70 18 0.20
73 4 0.05
74 5 0.06
75 61 0.69
ACGTcount: A:0.32, C:0.11, G:0.24, T:0.33
Consensus pattern (75 bp):
TGTGAAATGTAGGTATGGTATTATCAAATCCATACTGAGTTAAGAAATGTAGGTATGGCATTTCC
CATACCGAGC
Found at i:9535907 original size:15 final size:15
Alignment explanation
Indices: 9535887--9535917 Score: 62
Period size: 15 Copynumber: 2.1 Consensus size: 15
9535877 TTTACTTTCC
9535887 AGAGAGGTAGAAAAG
1 AGAGAGGTAGAAAAG
9535902 AGAGAGGTAGAAAAG
1 AGAGAGGTAGAAAAG
9535917 A
1 A
9535918 AAATCTGGAA
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 16 1.00
ACGTcount: A:0.55, C:0.00, G:0.39, T:0.06
Consensus pattern (15 bp):
AGAGAGGTAGAAAAG
Found at i:9544222 original size:205 final size:205
Alignment explanation
Indices: 9543842--9544973 Score: 1870
Period size: 205 Copynumber: 5.5 Consensus size: 205
9543832 TAGGCCGCAG
* ** * *
9543842 CATAACAGATCTGGCCTACAGATG-TTATACTGAAGCAGATCCAAGATGGTTTGGCATCCTTGTG
1 CATAGCAGATCTCACCTTCAGATGATTACACTGAAGCAGATCCAAGATGGTTTGGCATCCTTGTG
*
9543906 TTTACAAGGAGCAAATCGAAGACATAGCTGATTTGGCTTTCACGTGATTACGATGAAGCAAATCT
66 TTTACAAGGAACAAATCGAAGACATAGCTGATTTGGCTTTCACGTGATTACGATGAAGCAAATCT
9543971 AAGATGATTTGTCGTCTCTGTATTGTCAGAGAACAAATCGAAGTTTGGCATCTTCACTTTGATGG
131 AAGATGATTTGTCGTCTCTGTATTGTCAGAGAACAAATCGAAGTTTGGCATCTTCACTTTGATGG
9544036 AGAGCAGACA
196 AGAGCAGACA
* *
9544046 CATAGCAGATCCCACCTTCAGATGATTACACTGAAGCAGATCTAAGATGGTTTGGCATCCTTGTG
1 CATAGCAGATCTCACCTTCAGATGATTACACTGAAGCAGATCCAAGATGGTTTGGCATCCTTGTG
* *
9544111 TTTACAAGGAGCAAGTCGAAGACATAGCTGATTTGGCTTTCACGTGATTACGATGAAGCAAATCT
66 TTTACAAGGAACAAATCGAAGACATAGCTGATTTGGCTTTCACGTGATTACGATGAAGCAAATCT
9544176 AAGATGATTTGTCGTCTCTGTATTGTCAGAGAACAAATCGAAGTTTGGCATCTTCACTTTGATGG
131 AAGATGATTTGTCGTCTCTGTATTGTCAGAGAACAAATCGAAGTTTGGCATCTTCACTTTGATGG
9544241 AGAGCAGACA
196 AGAGCAGACA
* * *
9544251 CATAGCATATCTCACCTTCAGATGATTCCACTAAAGCAGATCCAAGATGGTTTGGCATCCTTGTG
1 CATAGCAGATCTCACCTTCAGATGATTACACTGAAGCAGATCCAAGATGGTTTGGCATCCTTGTG
* *
9544316 TTTACAAGGAGCAAGTCGAAGACATAGCTGATTTGGCTTTCACGTGATTACGATGAAGCAAATCT
66 TTTACAAGGAACAAATCGAAGACATAGCTGATTTGGCTTTCACGTGATTACGATGAAGCAAATCT
*
9544381 AAGATGATTTGTCGTCTCTGTATTGTCAGATAACAAATCGAAGTTTGGCATCTTCACTTTGATGG
131 AAGATGATTTGTCGTCTCTGTATTGTCAGAGAACAAATCGAAGTTTGGCATCTTCACTTTGATGG
9544446 AGAGCAGACA
196 AGAGCAGACA
* *
9544456 CATAGCAGATCCCACCTTCAGATGATTACACTGAAGCAGATCTAAGATGGTTTGGCATCCTTGTG
1 CATAGCAGATCTCACCTTCAGATGATTACACTGAAGCAGATCCAAGATGGTTTGGCATCCTTGTG
*
9544521 TTTACAAGGAACAAATCGAAGACATAGCTGATTTGGCTTTCACGTGATTACGATGAAGCAACTCT
66 TTTACAAGGAACAAATCGAAGACATAGCTGATTTGGCTTTCACGTGATTACGATGAAGCAAATCT
*
9544586 AAGATGATTTGTCGTCTCTGTATTGTCAGAGAACGAATCGAAGTTTGGCATCTTCACTTTGATGG
131 AAGATGATTTGTCGTCTCTGTATTGTCAGAGAACAAATCGAAGTTTGGCATCTTCACTTTGATGG
9544651 AGAGCAGACA
196 AGAGCAGACA
* * *
9544661 CATAGTAGATCTCGCCTTCAGATGATTTCACTGAAGCAGATCCAAGATGGTTTGGCATCCTTGTG
1 CATAGCAGATCTCACCTTCAGATGATTACACTGAAGCAGATCCAAGATGGTTTGGCATCCTTGTG
* *
9544726 CTTATAAGGAACAAATCGAAGACATAGCTGATTTGGCTTTCACGTGATTACGATGAAGCAAATCT
66 TTTACAAGGAACAAATCGAAGACATAGCTGATTTGGCTTTCACGTGATTACGATGAAGCAAATCT
* * * **
9544791 AAGATGATTTGTAGTCTCTGTATTGTCAGAGAACAAATCGAAGTCTGGCATCTCCACTTCAATGG
131 AAGATGATTTGTCGTCTCTGTATTGTCAGAGAACAAATCGAAGTTTGGCATCTTCACTTTGATGG
* *
9544856 AGAGTAGATA
196 AGAGCAGACA
* * * * *
9544866 CATAGCAGATCTAACCTTCAGATGTTTATACTAAAGCAAGATCCAAGATGATTTGGCATCCTTGT
1 CATAGCAGATCTCACCTTCAGATGATTACACTGAAGC-AGATCCAAGATGGTTTGGCATCCTTGT
* * * * *
9544931 GCTTACAAAGAACAAATCGAAAACATAGCAGATTTGACTTTCA
65 GTTTACAAGGAACAAATCGAAGACATAGCTGATTTGGCTTTCA
9544974 GATGTTCCCA
Statistics
Matches: 873, Mismatches: 53, Indels: 2
0.94 0.06 0.00
Matches are distributed among these distances:
204 19 0.02
205 790 0.90
206 64 0.07
ACGTcount: A:0.31, C:0.19, G:0.22, T:0.29
Consensus pattern (205 bp):
CATAGCAGATCTCACCTTCAGATGATTACACTGAAGCAGATCCAAGATGGTTTGGCATCCTTGTG
TTTACAAGGAACAAATCGAAGACATAGCTGATTTGGCTTTCACGTGATTACGATGAAGCAAATCT
AAGATGATTTGTCGTCTCTGTATTGTCAGAGAACAAATCGAAGTTTGGCATCTTCACTTTGATGG
AGAGCAGACA
Found at i:9545160 original size:44 final size:45
Alignment explanation
Indices: 9545112--9545311 Score: 175
Period size: 44 Copynumber: 4.6 Consensus size: 45
9545102 CCGTATTGTC
** *
9545112 AGGGAACAAG-TTAAAAACAGCAGATTTGGCATCCCTGTGCTTAT
1 AGGGAACAAGATCGAAAATAGCAGATTTGGCATCCCTGTGCTTAT
* * * *
9545156 AGGGAAC-AGATCGAAGATAGCAGATCTGACATTCCTGTGCTTAT
1 AGGGAACAAGATCGAAAATAGCAGATTTGGCATCCCTGTGCTTAT
** *
9545200 -GGTGAAGC-AGATCGAAAATTTCAGCA--TGGAATCCCTGTGCTTAT
1 AGG-GAA-CAAGATCGAAAATAGCAG-ATTTGGCATCCCTGTGCTTAT
* * *
9545244 AGGGAACAAG-TTGAAGATAGCAGATTTGGCATCCCTGTGTTTAT
1 AGGGAACAAGATCGAAAATAGCAGATTTGGCATCCCTGTGCTTAT
* *
9545288 GGGGAAC-AGATCGAAGA-AGCAGAT
1 AGGGAACAAGATCGAAAATAGCAGAT
9545312 CAAAAACTCA
Statistics
Matches: 126, Mismatches: 21, Indels: 19
0.76 0.13 0.11
Matches are distributed among these distances:
42 1 0.01
43 23 0.18
44 85 0.67
45 16 0.13
46 1 0.01
ACGTcount: A:0.33, C:0.17, G:0.27, T:0.24
Consensus pattern (45 bp):
AGGGAACAAGATCGAAAATAGCAGATTTGGCATCCCTGTGCTTAT
Found at i:9546633 original size:16 final size:15
Alignment explanation
Indices: 9546602--9546644 Score: 59
Period size: 16 Copynumber: 2.8 Consensus size: 15
9546592 CCTTCATTCC
*
9546602 ATTATTATTATTACT
1 ATTATTATTTTTACT
9546617 ATTATTATATTTTACT
1 ATTATTAT-TTTTACT
*
9546633 ATCATTATTTTT
1 ATTATTATTTTT
9546645 CATACGTATA
Statistics
Matches: 25, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
15 12 0.48
16 13 0.52
ACGTcount: A:0.30, C:0.07, G:0.00, T:0.63
Consensus pattern (15 bp):
ATTATTATTTTTACT
Found at i:9546770 original size:16 final size:16
Alignment explanation
Indices: 9546749--9546780 Score: 55
Period size: 16 Copynumber: 2.0 Consensus size: 16
9546739 CTATTGTTAC
9546749 TGTTATTATCATCACT
1 TGTTATTATCATCACT
*
9546765 TGTTATTCTCATCACT
1 TGTTATTATCATCACT
9546781 ATTATTATAA
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
16 15 1.00
ACGTcount: A:0.22, C:0.22, G:0.06, T:0.50
Consensus pattern (16 bp):
TGTTATTATCATCACT
Found at i:9546822 original size:11 final size:13
Alignment explanation
Indices: 9546792--9546823 Score: 50
Period size: 13 Copynumber: 2.6 Consensus size: 13
9546782 TTATTATAAT
9546792 TTATTATTGTTAC
1 TTATTATTGTTAC
9546805 TTATTATT-TTAC
1 TTATTATTGTTAC
9546817 -TATTATT
1 TTATTATT
9546824 ATCTAATATA
Statistics
Matches: 19, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
11 7 0.37
12 4 0.21
13 8 0.42
ACGTcount: A:0.25, C:0.06, G:0.03, T:0.66
Consensus pattern (13 bp):
TTATTATTGTTAC
Found at i:9547111 original size:22 final size:22
Alignment explanation
Indices: 9547081--9547141 Score: 61
Period size: 22 Copynumber: 2.8 Consensus size: 22
9547071 TTATTATATC
*
9547081 TTTTACTATTATTATTGTTGTA
1 TTTTACTATTATTATTGTTATA
* * *
9547103 TTTTTCTATTATTGTTATTATA
1 TTTTACTATTATTATTGTTATA
* *
9547125 TTTTCCT-TTATTTTTGT
1 TTTTACTATTATTATTGT
9547142 ATTTACTTAT
Statistics
Matches: 32, Mismatches: 7, Indels: 1
0.80 0.17 0.03
Matches are distributed among these distances:
21 8 0.25
22 24 0.75
ACGTcount: A:0.18, C:0.07, G:0.07, T:0.69
Consensus pattern (22 bp):
TTTTACTATTATTATTGTTATA
Found at i:9547115 original size:3 final size:3
Alignment explanation
Indices: 9546249--9547096 Score: 394
Period size: 3 Copynumber: 277.3 Consensus size: 3
9546239 TGCATTTTAA
9546249 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT
1 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT
9546297 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT
1 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT
*
9546345 TAT TAA TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT ATAT
1 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT -TAT
* *
9546391 TAGT GTA- TAT TTT TAT GTA- CAT ATAT GTAT GTAT ATACT T-T TA- TAT
1 TA-T -TAT TAT TAT TAT -TAT TAT -TAT -TAT -TAT -TA-T TAT TAT TAT
* * * * * *
9546437 ATAG TAT TGT T-T T-T TA- AATT TAA TAT TTT TAT T-T GCTCT T-T GTAT
1 -TAT TAT TAT TAT TAT TAT TA-T TAT TAT TAT TAT TAT --TAT TAT -TAT
* * *
9546482 T-T CTA- TAT TAT TAT TAT TAT TAT TA- TAT GGTAG TGT GTAT T-T GCAT
1 TAT -TAT TAT TAT TAT TAT TAT TAT TAT TAT --TAT TAT -TAT TAT -TAT
* * * *
9546528 TA- TAT ATAT ATAT ATAT TGA- TAT ATAG TAT TAT TTT TGTT TAC T-T
1 TAT TAT -TAT -TAT -TAT T-AT TAT -TAT TAT TAT TAT T-AT TAT TAT
* * *
9546573 TAC T-T TAA TAT TAT TAT TACCT TCAT TCCAT TAT TAT TAT TAC TAT
1 TAT TAT TAT TAT TAT TAT TA--T T-AT T--AT TAT TAT TAT TAT TAT
* * * *
9546619 TAT TA- TAT T-T TAC TAT CAT TAT TTT TCA- TACG TAT ATAT GCTAT
1 TAT TAT TAT TAT TAT TAT TAT TAT TAT T-AT TA-T TAT -TAT --TAT
* * * * * * * *
9546663 TGT T-T ATAT TAT TAT TAC TAT AAC TAC TA- TAT TTT TTT TAC TACCT
1 TAT TAT -TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TA--T
* * * * * * *
9546709 CTAT TAT GTAT TAC TAA TA- TAT TAT TAC TAC TAT TGT TAC TGT TAT
1 -TAT TAT -TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT
* * * * * * * * *
9546755 TAT CAT CACT TGT TAT TCT CAT CAC TAT TAT TAT AATT TAT TAT TGT
1 TAT TAT TA-T TAT TAT TAT TAT TAT TAT TAT TAT TA-T TAT TAT TAT
* * * * *
9546802 TACT TAT TAT T-T TAC TAT TAT TAT CTAA TA- TAT CAT CAT TAT CAT
1 TA-T TAT TAT TAT TAT TAT TAT TAT -TAT TAT TAT TAT TAT TAT TAT
* *
9546847 TAT T-T TCAT TAT AACT TAA TA- TAT TAT TAT TAT TAT TAT TAT TAT
1 TAT TAT T-AT TAT TA-T TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT
9546892 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT
1 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT
9546940 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT
1 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT
* * * * * * *
9546988 TAG CAC TACT T-T TAT TAC TAT TAT T-T AAT ATAT TAT TTT TAC TAT
1 TAT TAT TA-T TAT TAT TAT TAT TAT TAT TAT -TAT TAT TAT TAT TAT
** * * * * *
9547033 TAT GGT CA- TAT TGT TAC TAT TAC TAT TA- TAT TAT TA- TGT TAT TA-
1 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT
* *
9547077 TAT CTTT TAC TAT TAT TAT T
1 TAT -TAT TAT TAT TAT TAT T
9547097 GTTGTATTTT
Statistics
Matches: 654, Mismatches: 117, Indels: 148
0.71 0.13 0.16
Matches are distributed among these distances:
2 52 0.08
3 512 0.78
4 72 0.11
5 15 0.02
6 3 0.00
ACGTcount: A:0.31, C:0.06, G:0.04, T:0.59
Consensus pattern (3 bp):
TAT
Found at i:9549066 original size:164 final size:164
Alignment explanation
Indices: 9548753--9549083 Score: 369
Period size: 164 Copynumber: 2.0 Consensus size: 164
9548743 TCTCTCGATA
* * * *
9548753 GCTACCCTGATCTGAATTCTAATAGCATGCATGTTTACTAACTAAAACGAAGGGCCAAGGATGAA
1 GCTACCCTAATCTGAATTCAAATAGCATGCATGTTTACCAACTAAAACGAAGGGCCAAGCATGAA
** * * * * *
9548818 AATAGTATTAGTATTAAGCAATGTTGACAGCTTCAGGAGTGTCTGGTTATGTAATAAACTGTTGG
66 AATAGTATTAGTATTAAGCAACATTGACAGCTTCAAGAGTGTCTGGATATGCAATAAACTATTGC
* * * *
9548883 CACAATTCTATACCCTTTATCTAATTTCATCCTT
131 CACAATTCCATACCCTTTATCGAAATTAATCCTT
* * * *
9548917 GCTATCCTAATCTGATTTCAAATAGTATGCATGTTTACCATCTAAAACGGAA-GGCCAAGCATGA
1 GCTACCCTAATCTGAATTCAAATAGCATGCATGTTTACCAACTAAAAC-GAAGGGCCAAGCATGA
* * * * * * *
9548981 GATTTGTATTAGTGTTATGCGACATTGAGAG-TTCAAGAGTGTCTGGATATGCAATAAACTCATT
65 AAATAGTATTAGTATTAAGCAACATTGACAGCTTCAAGAGTGTCTGGATATGCAATAAACT-ATT
* **
9549045 GCCATAATTCCATTTCCTTTATCGAAATTAATCCTT
129 GCCACAATTCCATACCCTTTATCGAAATTAATCCTT
9549081 GCT
1 GCT
9549084 TTTGTTTAAC
Statistics
Matches: 136, Mismatches: 29, Indels: 4
0.80 0.17 0.02
Matches are distributed among these distances:
163 26 0.19
164 107 0.79
165 3 0.02
ACGTcount: A:0.31, C:0.18, G:0.18, T:0.34
Consensus pattern (164 bp):
GCTACCCTAATCTGAATTCAAATAGCATGCATGTTTACCAACTAAAACGAAGGGCCAAGCATGAA
AATAGTATTAGTATTAAGCAACATTGACAGCTTCAAGAGTGTCTGGATATGCAATAAACTATTGC
CACAATTCCATACCCTTTATCGAAATTAATCCTT
Found at i:9549997 original size:18 final size:18
Alignment explanation
Indices: 9549967--9550001 Score: 54
Period size: 19 Copynumber: 1.9 Consensus size: 18
9549957 ACTGTAACTG
9549967 AATTTTTTAAATAGAAAAC
1 AATTTTTTAAATA-AAAAC
9549986 AATTTTTT-AATAAAAA
1 AATTTTTTAAATAAAAA
9550002 AAAGTACATA
Statistics
Matches: 16, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
17 4 0.25
18 4 0.25
19 8 0.50
ACGTcount: A:0.54, C:0.03, G:0.03, T:0.40
Consensus pattern (18 bp):
AATTTTTTAAATAAAAAC
Found at i:9550003 original size:19 final size:19
Alignment explanation
Indices: 9549967--9550002 Score: 56
Period size: 18 Copynumber: 1.9 Consensus size: 19
9549957 ACTGTAACTG
*
9549967 AATTTTTTAAATAGAAAAC
1 AATTTTTTAAATAAAAAAC
9549986 AATTTTTT-AATAAAAAA
1 AATTTTTTAAATAAAAAA
9550003 AAGTACATAC
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
18 8 0.50
19 8 0.50
ACGTcount: A:0.56, C:0.03, G:0.03, T:0.39
Consensus pattern (19 bp):
AATTTTTTAAATAAAAAAC
Found at i:9550361 original size:15 final size:15
Alignment explanation
Indices: 9550343--9550390 Score: 53
Period size: 15 Copynumber: 3.3 Consensus size: 15
9550333 GGTTTATGGG
9550343 TTTAAAGTTTTAAGA
1 TTTAAAGTTTTAAGA
* *
9550358 TTT-ATGCTTTAAGA
1 TTTAAAGTTTTAAGA
* *
9550372 TTTAAGGTTTTGAGA
1 TTTAAAGTTTTAAGA
9550387 TTTA
1 TTTA
9550391 GGATTTAAGG
Statistics
Matches: 27, Mismatches: 5, Indels: 2
0.79 0.15 0.06
Matches are distributed among these distances:
14 12 0.44
15 15 0.56
ACGTcount: A:0.31, C:0.02, G:0.17, T:0.50
Consensus pattern (15 bp):
TTTAAAGTTTTAAGA
Found at i:9550376 original size:29 final size:29
Alignment explanation
Indices: 9550343--9550404 Score: 79
Period size: 29 Copynumber: 2.1 Consensus size: 29
9550333 GGTTTATGGG
* *
9550343 TTTAAAGTTTTAAGATTTATGCTTTAAGA
1 TTTAAAGTTTTAAGATTTAGGATTTAAGA
* * *
9550372 TTTAAGGTTTTGAGATTTAGGATTTAAGG
1 TTTAAAGTTTTAAGATTTAGGATTTAAGA
9550401 TTTA
1 TTTA
9550405 GCCACGTCAG
Statistics
Matches: 28, Mismatches: 5, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
29 28 1.00
ACGTcount: A:0.31, C:0.02, G:0.19, T:0.48
Consensus pattern (29 bp):
TTTAAAGTTTTAAGATTTAGGATTTAAGA
Found at i:9564978 original size:19 final size:19
Alignment explanation
Indices: 9564953--9565024 Score: 71
Period size: 19 Copynumber: 3.9 Consensus size: 19
9564943 ATAATCTTCA
9564953 ATGATATGCAAACTTAGAT
1 ATGATATGCAAACTTAGAT
*
9564972 GTGATATGCAATA-TTAGAT
1 ATGATATGCAA-ACTTAGAT
* *
9564991 ATGACA--CAATCTTAGAT
1 ATGATATGCAAACTTAGAT
*
9565008 ATGA-ATGCAATCTTAGA
1 ATGATATGCAAACTTAGA
9565025 AGATATGATT
Statistics
Matches: 45, Mismatches: 4, Indels: 9
0.78 0.07 0.16
Matches are distributed among these distances:
16 1 0.02
17 13 0.29
18 10 0.22
19 20 0.44
20 1 0.02
ACGTcount: A:0.40, C:0.11, G:0.17, T:0.32
Consensus pattern (19 bp):
ATGATATGCAAACTTAGAT
Found at i:9565005 original size:17 final size:17
Alignment explanation
Indices: 9564960--9565024 Score: 60
Period size: 17 Copynumber: 3.6 Consensus size: 17
9564950 TCAATGATAT
* *
9564960 GCAAACTTAGATGTGATA
1 GCAATCTTAGATATGA-A
*
9564978 TGCAATATTAGATATGACA
1 -GCAATCTTAGATATGA-A
9564997 -CAATCTTAGATATGAA
1 GCAATCTTAGATATGAA
9565013 TGCAATCTTAGA
1 -GCAATCTTAGA
9565025 AGATATGATT
Statistics
Matches: 39, Mismatches: 5, Indels: 5
0.80 0.10 0.10
Matches are distributed among these distances:
16 1 0.03
17 14 0.36
18 10 0.26
19 14 0.36
ACGTcount: A:0.40, C:0.12, G:0.17, T:0.31
Consensus pattern (17 bp):
GCAATCTTAGATATGAA
Found at i:9570256 original size:12 final size:11
Alignment explanation
Indices: 9570239--9570294 Score: 58
Period size: 12 Copynumber: 4.6 Consensus size: 11
9570229 TTCTATTTTA
9570239 AAAAAAAAGAAG
1 AAAAAAAA-AAG
9570251 AAAAAAGAAAAG
1 AAAAAA-AAAAG
*
9570263 AAAAAAATAAAA
1 AAAAAAA-AAAG
9570275 AATAAAAAAAAG
1 AA-AAAAAAAAG
9570287 AGAAAAAA
1 A-AAAAAA
9570295 GAAAATGGAG
Statistics
Matches: 38, Mismatches: 2, Indels: 8
0.79 0.04 0.17
Matches are distributed among these distances:
11 1 0.03
12 29 0.76
13 8 0.21
ACGTcount: A:0.86, C:0.00, G:0.11, T:0.04
Consensus pattern (11 bp):
AAAAAAAAAAG
Found at i:9571449 original size:87 final size:87
Alignment explanation
Indices: 9571241--9572738 Score: 2296
Period size: 87 Copynumber: 17.4 Consensus size: 87
9571231 ACAAAATTCA
* * * * * *
9571241 GCGCCTTAATCCCCTAAGTAGTGGGGTAACAGGCTAAAATTGCAGATCTTATCTCCCTAAGCAGT
1 GCGCCTTAACCCCCTAAGCAGTAGGGTAACAGGCTAAAATTACAAATCTTATCTCCCTAAGTAGT
* *
9571306 AGTGGAGCAGATCGAAGAC---
66 AGCGAAGCAGATCGAAGACGAT
* *
9571325 CCGCCTTAACCCCATAAGCAGTAGGGTAACAGGCTAAAATTACAAATCTTATCTCCCTAAGTAGT
1 GCGCCTTAACCCCCTAAGCAGTAGGGTAACAGGCTAAAATTACAAATCTTATCTCCCTAAGTAGT
9571390 AGCGAAGCAGATCGAAGACGAT
66 AGCGAAGCAGATCGAAGACGAT
9571412 GCGCCTTAACCCCCTAAGCAGTAGGGTAACAGGCTAAAATTACAAATCTTATCTCCCTAAGTAGT
1 GCGCCTTAACCCCCTAAGCAGTAGGGTAACAGGCTAAAATTACAAATCTTATCTCCCTAAGTAGT
9571477 AGCGAAGCAGATCGAAGACGAT
66 AGCGAAGCAGATCGAAGACGAT
9571499 GCGCCTTAACCCCCTAAGCAGTAGGGTAACAGGCTAAAATTACAAATCTTATCTCCCTAAGTAGT
1 GCGCCTTAACCCCCTAAGCAGTAGGGTAACAGGCTAAAATTACAAATCTTATCTCCCTAAGTAGT
9571564 AGCGAAGCAGATCGAAGACGAT
66 AGCGAAGCAGATCGAAGACGAT
9571586 GCGCCTTAACCCCCTAAGCAGTAGGGTAACAGGCTAAAATTACAAATCTTATCTCCCTAAGTAGT
1 GCGCCTTAACCCCCTAAGCAGTAGGGTAACAGGCTAAAATTACAAATCTTATCTCCCTAAGTAGT
9571651 AGCGAAGCAGATCGAAGACGAT
66 AGCGAAGCAGATCGAAGACGAT
9571673 GCGCCTTAACCCCCTAAGCAGTAGGGTAACAGGCTAAAATTACAAATCTTATCTCCCTAAGTAGT
1 GCGCCTTAACCCCCTAAGCAGTAGGGTAACAGGCTAAAATTACAAATCTTATCTCCCTAAGTAGT
9571738 AGCGAAGCAGATCGAAGACGAT
66 AGCGAAGCAGATCGAAGACGAT
9571760 GCGCCTTAACCCCCTAAGCAGTAGGGTAACAGGCTAAAATTACAAATCTTATCTCCCTAAGTAGT
1 GCGCCTTAACCCCCTAAGCAGTAGGGTAACAGGCTAAAATTACAAATCTTATCTCCCTAAGTAGT
9571825 AGCGAAGCAGATCGAAGACGAT
66 AGCGAAGCAGATCGAAGACGAT
9571847 GCGCCTTAACCCCCTAAGCAGTAGGGTAACAGGCTAAAATTACAAATCTTATCTCCCTAAGTAGT
1 GCGCCTTAACCCCCTAAGCAGTAGGGTAACAGGCTAAAATTACAAATCTTATCTCCCTAAGTAGT
9571912 AGCGAAGCAGATCGAAGACGAT
66 AGCGAAGCAGATCGAAGACGAT
9571934 GCGCCTTAACCCCCTAAGCAGTAGGGTAACAGGCTAAAATTACAAATCTTATCTCCCTAAGTAGT
1 GCGCCTTAACCCCCTAAGCAGTAGGGTAACAGGCTAAAATTACAAATCTTATCTCCCTAAGTAGT
9571999 AGCGAAGCAGATCGAAGACGAT
66 AGCGAAGCAGATCGAAGACGAT
9572021 GCGCCTTAACCCCCTAAGCAGTAGGGTAACAGGCTAAAATTACAAATCTTATCTCCCTAAGTAGT
1 GCGCCTTAACCCCCTAAGCAGTAGGGTAACAGGCTAAAATTACAAATCTTATCTCCCTAAGTAGT
9572086 AGCGAAGCAGATCGAAGACGAT
66 AGCGAAGCAGATCGAAGACGAT
* * *
9572108 GCGCCTTAACCCCCTAAGCAGTAGGGTAACAGGCTAAAATTGCAGATCTTATCTCCCTAAGCAGT
1 GCGCCTTAACCCCCTAAGCAGTAGGGTAACAGGCTAAAATTACAAATCTTATCTCCCTAAGTAGT
* *
9572173 AGTGGAGCAGATCGAAGAC---
66 AGCGAAGCAGATCGAAGACGAT
* * * *
9572192 CCGCCTTAACCCCCTAAGCAGTAGGGTAACAGGCTAAAATTACAGATCTTATCTCCTTAAGCAGT
1 GCGCCTTAACCCCCTAAGCAGTAGGGTAACAGGCTAAAATTACAAATCTTATCTCCCTAAGTAGT
9572257 AGC-AGAGCAGATCGAAGACGAT
66 AGCGA-AGCAGATCGAAGACGAT
* * * *
9572279 GCACCTTAACCCCCTAAGCAGTAGGGTAACAGGCTAAAATTGCAGATCTTATCTCCCTAAGCAGT
1 GCGCCTTAACCCCCTAAGCAGTAGGGTAACAGGCTAAAATTACAAATCTTATCTCCCTAAGTAGT
* *
9572344 AGTGGAGCAGATCGAAGAC--T
66 AGCGAAGCAGATCGAAGACGAT
* * * * * ** *
9572364 -CGCCTTAATCCCTTAAACAGTAGGGTAACAGGTTAAATTTGTAGATCTTATCTCCCTAAGTAGT
1 GCGCCTTAACCCCCTAAGCAGTAGGGTAACAGGCTAAAATTACAAATCTTATCTCCCTAAGTAGT
* *
9572428 AGTGGAGCAGATCGAAGAC--T
66 AGCGAAGCAGATCGAAGACGAT
* * * * * * *
9572448 -CGACTTAATCCCCTAAGCAGTAGGGTAACAGGTTAAAATTGCAGATCTTATCTTCCTAAGCAGT
1 GCGCCTTAACCCCCTAAGCAGTAGGGTAACAGGCTAAAATTACAAATCTTATCTCCCTAAGTAGT
* *
9572512 AGTGGAGCAGATCG-A-A-GAT
66 AGCGAAGCAGATCGAAGACGAT
* * * *
9572531 GCGCCTTAACCCCCTAAGCAGTAGGGTAACAGGCTAAAATTATAGATCTTATCTCCCTAAGCAGC
1 GCGCCTTAACCCCCTAAGCAGTAGGGTAACAGGCTAAAATTACAAATCTTATCTCCCTAAGTAGT
* * *
9572596 AGCGGAGTAGATCGAAGATGAT
66 AGCGAAGCAGATCGAAGACGAT
* * *
9572618 GCGCCTTAACCCCCTAAGTAGTAGGGTAACAGGCTAAAATTACAAATCCTATCTCCCTAAGCAGT
1 GCGCCTTAACCCCCTAAGCAGTAGGGTAACAGGCTAAAATTACAAATCTTATCTCCCTAAGTAGT
* * ** **
9572683 AGTGGAGTGGATTAAAGAC--T
66 AGCGAAGCAGATCGAAGACGAT
* *
9572703 -CGCCTTAACTCCCTAAGCAGTAGGGTAATAGGCTAA
1 GCGCCTTAACCCCCTAAGCAGTAGGGTAACAGGCTAA
9572739 GATATAGCAG
Statistics
Matches: 1335, Mismatches: 65, Indels: 28
0.93 0.05 0.02
Matches are distributed among these distances:
82 1 0.00
83 2 0.00
84 401 0.30
85 3 0.00
86 1 0.00
87 927 0.69
ACGTcount: A:0.33, C:0.23, G:0.21, T:0.22
Consensus pattern (87 bp):
GCGCCTTAACCCCCTAAGCAGTAGGGTAACAGGCTAAAATTACAAATCTTATCTCCCTAAGTAGT
AGCGAAGCAGATCGAAGACGAT
Found at i:9572462 original size:41 final size:41
Alignment explanation
Indices: 9572162--9572554 Score: 146
Period size: 43 Copynumber: 9.3 Consensus size: 41
9572152 GATCTTATCT
* * *
9572162 CCCTAAGCAGTAGTGGAGCAGATCGAAGACCCGCCTTAACC
1 CCCTAAGCAGTAGTGGAGCAGATCGAAGACTCGACTTAATC
* * * * *
9572203 CCCTAAGCAGTAG-GGTAACAG-GCTAAAATTACAGATCTT-ATC
1 CCCTAAGCAGTAGTGG-AGCAGATCGAAGACT-C-GA-CTTAATC
* ** *
9572245 TCCTTAAGCAGTAGCAGAGCAGATCGAAGACGAT-GCACCTTAACC
1 -CCCTAAGCAGTAGTGGAGCAGATCGAAGAC--TCG-A-CTTAATC
* * * * *
9572290 CCCTAAGCAGTAG-GGTAACAG-GCTAAAATTGCAGATCTT-ATC
1 CCCTAAGCAGTAGTGG-AGCAGATCGAAGACT-C-GA-CTTAATC
*
9572332 TCCCTAAGCAGTAGTGGAGCAGATCGAAGACTCGCCTTAATC
1 -CCCTAAGCAGTAGTGGAGCAGATCGAAGACTCGACTTAATC
* * * * ** *** *
9572374 CCTTAAACAGTAG-GGTAACAGGTTAAATTTGTAGATCTT-ATC
1 CCCTAAGCAGTAGTGG-AGCAGATCGAA-GACTCGA-CTTAATC
*
9572416 TCCCTAAGTAGTAGTGGAGCAGATCGAAGACTCGACTTAATC
1 -CCCTAAGCAGTAGTGGAGCAGATCGAAGACTCGACTTAATC
* * * * *
9572458 CCCTAAGCAGTAG-GGTAACAGGT-TAAAATTGCAGATCTT-ATC
1 CCCTAAGCAGTAGTGG-AGCAGATCGAAGACT-C-GA-CTTAATC
* * *
9572500 TTCCTAAGCAGTAGTGGAGCAGATCGAAGA-TGCGCCTTAACC
1 -CCCTAAGCAGTAGTGGAGCAGATCGAAGACT-CGACTTAATC
9572542 CCCTAAGCAGTAG
1 CCCTAAGCAGTAG
9572555 GGTAACAGGC
Statistics
Matches: 251, Mismatches: 68, Indels: 66
0.65 0.18 0.17
Matches are distributed among these distances:
40 14 0.06
41 76 0.30
42 28 0.11
43 90 0.36
44 40 0.16
45 2 0.01
46 1 0.00
ACGTcount: A:0.32, C:0.23, G:0.22, T:0.23
Consensus pattern (41 bp):
CCCTAAGCAGTAGTGGAGCAGATCGAAGACTCGACTTAATC
Found at i:9572823 original size:44 final size:44
Alignment explanation
Indices: 9572773--9572860 Score: 142
Period size: 44 Copynumber: 2.0 Consensus size: 44
9572763 TGCTTACATC
*
9572773 GAAGCAGATCTAAGAT-GACAGATTTGGCGTCTCTGTATTGTCAG
1 GAAGCAGATCGAAGATAG-CAGATTTGGCGTCTCTGTATTGTCAG
*
9572817 GAAGCAGATCGAAGATAGTAGATTTGGCGTCTCTGTATTGTCAG
1 GAAGCAGATCGAAGATAGCAGATTTGGCGTCTCTGTATTGTCAG
9572861 AGGGCAGATC
Statistics
Matches: 41, Mismatches: 2, Indels: 2
0.91 0.04 0.04
Matches are distributed among these distances:
44 40 0.98
45 1 0.02
ACGTcount: A:0.27, C:0.15, G:0.28, T:0.30
Consensus pattern (44 bp):
GAAGCAGATCGAAGATAGCAGATTTGGCGTCTCTGTATTGTCAG
Found at i:9572868 original size:44 final size:44
Alignment explanation
Indices: 9572773--9572876 Score: 140
Period size: 44 Copynumber: 2.4 Consensus size: 44
9572763 TGCTTACATC
* *
9572773 GAAGCAGATCTAAGAT-GACAGATTTGGCGTCTCTGTATTGTCAG
1 GAAGCAGATCAAAGATAG-TAGATTTGGCGTCTCTGTATTGTCAG
*
9572817 GAAGCAGATCGAAGATAGTAGATTTGGCGTCTCTGTATTGTCA-
1 GAAGCAGATCAAAGATAGTAGATTTGGCGTCTCTGTATTGTCAG
*
9572860 GAGGGCAGATCAAAGAT
1 GA-AGCAGATCAAAGAT
9572877 TTCAGCATGA
Statistics
Matches: 54, Mismatches: 4, Indels: 4
0.87 0.06 0.06
Matches are distributed among these distances:
43 2 0.04
44 51 0.94
45 1 0.02
ACGTcount: A:0.30, C:0.14, G:0.29, T:0.27
Consensus pattern (44 bp):
GAAGCAGATCAAAGATAGTAGATTTGGCGTCTCTGTATTGTCAG
Found at i:9572945 original size:44 final size:44
Alignment explanation
Indices: 9572887--9573237 Score: 244
Period size: 44 Copynumber: 7.9 Consensus size: 44
9572877 TTCAGCATGA
* * *
9572887 CATCCTTGTATTTATAGGGAACAAGTTGAAGATAGCAGATTTGG
1 CATCCCTGTGTTTATAGGGAACAAGTCGAAGATAGCAGATTTGG
* * *
9572931 CATCCCTGTGTTTATAGGGAACAAATCGAAGATAGCAGATCTGA
1 CATCCCTGTGTTTATAGGGAACAAGTCGAAGATAGCAGATTTGG
* * * * ** **
9572975 CATTCTTGTGCTTACAGCAAAGC-AGATCGAAGATTTCAGCA--TGG
1 CATCCCTGTGTTTATAGGGAA-CAAG-TCGAAGATAGCAG-ATTTGG
* *
9573019 CATCCCTGCGTTTATAGGGAACAAGTTGAAGATAGCAGATTTGG
1 CATCCCTGTGTTTATAGGGAACAAGTCGAAGATAGCAGATTTGG
* * * * *
9573063 CATCCTTGTTTTTATAGGAAACAAATCGAAGATAGCAGATTTGA
1 CATCCCTGTGTTTATAGGGAACAAGTCGAAGATAGCAGATTTGG
* * * * ** **
9573107 CATTCCTGTGCTTACAGTGAAGTAGATCGAAGATTTCAGCA--TGG
1 CATCCCTGTGTTTATAGGGAACAAG-TCGAAGATAGCAG-ATTTGG
** * *
9573151 CATCCCTGTGTTTATAGAAAACAAGTTGAAGATAGCATATTTGGG
1 CATCCCTGTGTTTATAGGGAACAAGTCGAAGATAGCAGATTT-GG
* * ** * *
9573196 CATTCTTGTGTTTGCAAGGAACAAATCGAAGACATAGCAGAT
1 CATCCCTGTGTTTATAGGGAACAAGTCGAAG--ATAGCAGAT
9573238 CTAACCTTTA
Statistics
Matches: 227, Mismatches: 67, Indels: 23
0.72 0.21 0.07
Matches are distributed among these distances:
42 2 0.01
43 20 0.09
44 148 0.65
45 47 0.21
46 2 0.01
47 8 0.04
ACGTcount: A:0.32, C:0.16, G:0.23, T:0.29
Consensus pattern (44 bp):
CATCCCTGTGTTTATAGGGAACAAGTCGAAGATAGCAGATTTGG
Found at i:9573033 original size:132 final size:132
Alignment explanation
Indices: 9572864--9573239 Score: 545
Period size: 132 Copynumber: 2.8 Consensus size: 132
9572854 TTGTCAGAGG
* * * *
9572864 GCAGATCAAAGATTTCAGCATGACATCCTTGTATTTATAGGGAACAAGTTGAAGATAGCAGATTT
1 GCAGATCGAAGATTTCAGCATGGCATCCCTGTGTTTATAGGGAACAAGTTGAAGATAGCAGATTT
* *
9572929 GGCATCCCTGTGTTTATAGGGAACAAATCGAAGATAGCAGATCTGACATTCTTGTGCTTACAGCA
66 GGCATCCTTGTGTTTATAGGGAACAAATCGAAGATAGCAGATCTGACATTCCTGTGCTTACAGCA
9572994 AA
131 AA
*
9572996 GCAGATCGAAGATTTCAGCATGGCATCCCTGCGTTTATAGGGAACAAGTTGAAGATAGCAGATTT
1 GCAGATCGAAGATTTCAGCATGGCATCCCTGTGTTTATAGGGAACAAGTTGAAGATAGCAGATTT
* * * **
9573061 GGCATCCTTGTTTTTATAGGAAACAAATCGAAGATAGCAGATTTGACATTCCTGTGCTTACAGTG
66 GGCATCCTTGTGTTTATAGGGAACAAATCGAAGATAGCAGATCTGACATTCCTGTGCTTACAGCA
9573126 AA
131 AA
* ** *
9573128 GTAGATCGAAGATTTCAGCATGGCATCCCTGTGTTTATAGAAAACAAGTTGAAGATAGCATATTT
1 GCAGATCGAAGATTTCAGCATGGCATCCCTGTGTTTATAGGGAACAAGTTGAAGATAGCAGATTT
* ** *
9573193 GGGCATTCTTGTGTTTGCAAGGAACAAATCGAAGACATAGCAGATCT
66 -GGCATCCTTGTGTTTATAGGGAACAAATCGAAG--ATAGCAGATCT
9573240 AACCTTTAGA
Statistics
Matches: 217, Mismatches: 24, Indels: 3
0.89 0.10 0.01
Matches are distributed among these distances:
132 180 0.83
133 27 0.12
135 10 0.05
ACGTcount: A:0.32, C:0.16, G:0.23, T:0.28
Consensus pattern (132 bp):
GCAGATCGAAGATTTCAGCATGGCATCCCTGTGTTTATAGGGAACAAGTTGAAGATAGCAGATTT
GGCATCCTTGTGTTTATAGGGAACAAATCGAAGATAGCAGATCTGACATTCCTGTGCTTACAGCA
AA
Found at i:9573876 original size:17 final size:18
Alignment explanation
Indices: 9573863--9573898 Score: 63
Period size: 19 Copynumber: 1.9 Consensus size: 18
9573853 TAATCTTCAA
9573863 TGATATGCAATCTTAGATG
1 TGATATGCAATCTTAGA-G
9573882 TGATATGCAATCTTAGA
1 TGATATGCAATCTTAGA
9573899 AGATATGATT
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
19 17 1.00
ACGTcount: A:0.33, C:0.11, G:0.19, T:0.36
Consensus pattern (18 bp):
TGATATGCAATCTTAGAG
Found at i:9573905 original size:17 final size:18
Alignment explanation
Indices: 9573864--9573905 Score: 59
Period size: 19 Copynumber: 2.3 Consensus size: 18
9573854 AATCTTCAAT
*
9573864 GATATGCAATCTTAGATGT
1 GATATGCAATCTTAGA-GA
9573883 GATATGCAATCTTAGA-A
1 GATATGCAATCTTAGAGA
9573900 GATATG
1 GATATG
9573906 ATTTTGTAAT
Statistics
Matches: 22, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
17 6 0.27
19 16 0.73
ACGTcount: A:0.36, C:0.10, G:0.21, T:0.33
Consensus pattern (18 bp):
GATATGCAATCTTAGAGA
Found at i:9576003 original size:21 final size:21
Alignment explanation
Indices: 9575960--9576004 Score: 54
Period size: 21 Copynumber: 2.1 Consensus size: 21
9575950 CTTTTTTATC
* * *
9575960 ATTGTTATTATTCTTATTTTT
1 ATTGCTATTATTCTTAATATT
*
9575981 ATTGCTATTATTTTTAATATT
1 ATTGCTATTATTCTTAATATT
9576002 ATT
1 ATT
9576005 ATTGTTATAT
Statistics
Matches: 20, Mismatches: 4, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
21 20 1.00
ACGTcount: A:0.24, C:0.04, G:0.04, T:0.67
Consensus pattern (21 bp):
ATTGCTATTATTCTTAATATT
Found at i:9576265 original size:85 final size:85
Alignment explanation
Indices: 9576160--9576331 Score: 299
Period size: 85 Copynumber: 2.0 Consensus size: 85
9576150 AGATTTTTTT
* *
9576160 TTTTGCAAATAAGGCGATGCTTGGTGTTTGGAAATTTCGAGAAAGTAGTGCCCTAACTTATTGGG
1 TTTTGCAAATAAGGCAATGCTTGGTGTTTCGAAATTTCGAGAAAGTAGTGCCCTAACTTATTGGG
9576225 TTGCCACTTTTCTCGTTGAA
66 TTGCCACTTTTCTCGTTGAA
* **
9576245 TTTTGCAAGTAAGGCAATGCTTGGTGTTTCGAAATTTTTAGAAAGTAGTGCCCTAACTTATTGGG
1 TTTTGCAAATAAGGCAATGCTTGGTGTTTCGAAATTTCGAGAAAGTAGTGCCCTAACTTATTGGG
9576310 TTGCCACTTTTCTCGTTGAA
66 TTGCCACTTTTCTCGTTGAA
9576330 TT
1 TT
9576332 CGAATAATTA
Statistics
Matches: 82, Mismatches: 5, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
85 82 1.00
ACGTcount: A:0.23, C:0.15, G:0.23, T:0.38
Consensus pattern (85 bp):
TTTTGCAAATAAGGCAATGCTTGGTGTTTCGAAATTTCGAGAAAGTAGTGCCCTAACTTATTGGG
TTGCCACTTTTCTCGTTGAA
Found at i:9579491 original size:14 final size:14
Alignment explanation
Indices: 9579472--9579498 Score: 54
Period size: 14 Copynumber: 1.9 Consensus size: 14
9579462 AAGATATTCT
9579472 TTTTCTAAATAAAA
1 TTTTCTAAATAAAA
9579486 TTTTCTAAATAAA
1 TTTTCTAAATAAA
9579499 GTTGAACCAG
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 13 1.00
ACGTcount: A:0.48, C:0.07, G:0.00, T:0.44
Consensus pattern (14 bp):
TTTTCTAAATAAAA
Found at i:9587870 original size:205 final size:205
Alignment explanation
Indices: 9587568--9588085 Score: 734
Period size: 205 Copynumber: 2.5 Consensus size: 205
9587558 TAGGCTGCAG
*
9587568 CATAGCAGATCTCGCCTTTAGATGTTTATGCTGAAGCAGATCCAAGATGGTTTGGTATCCTTGTG
1 CATAGCAGATCTCGCCTTCAGATGTTTATGCTGAAGCAGATCCAAGATGGTTTGGTATCCTTGTG
* * *
9587633 CTTACAAGGAGCAGATCGAAGACATAGCTGATTCGGCTTTCACGTATTTACGATGAAGCAAATCT
66 CTTACAAGAAGCAAATCGAAGACATAGCTGATTTGGCTTTCACGTATTTACGATGAAGCAAATCT
* * * * * * **
9587698 AAGATGATTTGTCGTCTCTATATTGTCAGAGAACGAATCGAAGTTTGGCATCTTCAATTTGATAG
131 AAGATGATTTGTCATCTCTATAGTGTCAGAGAACAAATCGAAGTCTAGCATCTCCAATTCAATAG
9587763 AGAGCAAACA
196 AGAGCAAACA
* * *
9587773 CATAGCAGATCTCGCCTTCGGATGTTTATGCTGAAGCAGATCCAACATGGTTTGGTACCCTTGTG
1 CATAGCAGATCTCGCCTTCAGATGTTTATGCTGAAGCAGATCCAAGATGGTTTGGTATCCTTGTG
* *
9587838 CTCACAAGAAGCAAATCGAAGACATAGCTGATTTGGCTTTCACGTGTTTACGATGAAGCAAATCT
66 CTTACAAGAAGCAAATCGAAGACATAGCTGATTTGGCTTTCACGTATTTACGATGAAGCAAATCT
* * *
9587903 AAGATGATTTGTCATCTCTGTAGTGTCAGAGAACAAATCGAAGTCTAGCATCTCCACTTCAATGG
131 AAGATGATTTGTCATCTCTATAGTGTCAGAGAACAAATCGAAGTCTAGCATCTCCAATTCAATAG
* *
9587968 AGAGCAGATA
196 AGAGCAAACA
* ** *
9587978 CATAGCAGATCT-GACCTTCAGATGTTTATACTGAAGCAAGATCCAAGATGGTTTGGCGTCCTTA
1 CATAGCAGATCTCG-CCTTCAGATGTTTATGCTGAAGC-AGATCCAAGATGGTTTGGTATCCTTG
* * *
9588042 TGTTTACAAGGAA-CAAATCGAAGACATAGCAGATTTGACTTTCA
64 TGCTTACAA-GAAGCAAATCGAAGACATAGCTGATTTGGCTTTCA
9588086 GATGTTCCCA
Statistics
Matches: 277, Mismatches: 33, Indels: 5
0.88 0.10 0.02
Matches are distributed among these distances:
204 1 0.00
205 216 0.78
206 57 0.21
207 3 0.01
ACGTcount: A:0.30, C:0.19, G:0.22, T:0.29
Consensus pattern (205 bp):
CATAGCAGATCTCGCCTTCAGATGTTTATGCTGAAGCAGATCCAAGATGGTTTGGTATCCTTGTG
CTTACAAGAAGCAAATCGAAGACATAGCTGATTTGGCTTTCACGTATTTACGATGAAGCAAATCT
AAGATGATTTGTCATCTCTATAGTGTCAGAGAACAAATCGAAGTCTAGCATCTCCAATTCAATAG
AGAGCAAACA
Found at i:9589198 original size:12 final size:12
Alignment explanation
Indices: 9589180--9589212 Score: 50
Period size: 12 Copynumber: 2.8 Consensus size: 12
9589170 CTAGCCAAAA
9589180 GGAGAGAAACAGG
1 GGAGAGAAA-AGG
9589193 GG-GAGAAAAGG
1 GGAGAGAAAAGG
9589204 GGAGAGAAA
1 GGAGAGAAA
9589213 GCAAAAAAAA
Statistics
Matches: 19, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
11 5 0.26
12 12 0.63
13 2 0.11
ACGTcount: A:0.48, C:0.03, G:0.48, T:0.00
Consensus pattern (12 bp):
GGAGAGAAAAGG
Done.