Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Gbar_A02
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: 100057689
ACGTcount: A:0.31, C:0.17, G:0.17, T:0.31
Warning! 3589301 characters in sequence are not A, C, G, or T
File 227 of 295
Found at i:78289389 original size:45 final size:45
Alignment explanation
Indices: 78289274--78289389 Score: 115
Period size: 45 Copynumber: 2.6 Consensus size: 45
78289264 TTAAAATGAG
* * * * *
78289274 TAAGAGTATAGCTAAAAGATACTATGATATCATGACGGAAATGAG
1 TAAGACTATAGCTAAAAGATACTATGACATCATGACAGAAAGGAC
* * * ** **
78289319 TAAGACCATAGCTGAAAGATGCTATGACATCATGGTAGTTAGGAC
1 TAAGACTATAGCTAAAAGATACTATGACATCATGACAGAAAGGAC
*
78289364 TAAGACTATAGCTAAAAGACACTATG
1 TAAGACTATAGCTAAAAGATACTATG
78289390 GTATCCTTTG
Statistics
Matches: 55, Mismatches: 16, Indels: 0
0.77 0.23 0.00
Matches are distributed among these distances:
45 55 1.00
ACGTcount: A:0.41, C:0.13, G:0.22, T:0.24
Consensus pattern (45 bp):
TAAGACTATAGCTAAAAGATACTATGACATCATGACAGAAAGGAC
Found at i:78289536 original size:27 final size:27
Alignment explanation
Indices: 78289506--78289633 Score: 123
Period size: 27 Copynumber: 4.7 Consensus size: 27
78289496 ATAGTTCAAT
* *
78289506 GGGATGTTAAGCATGAGATAGTTTGAC
1 GGGATGTTAAACATGAGATAGTCTGAC
** * *
78289533 GGGACATTAAACACGAGATAGTCTAAC
1 GGGATGTTAAACATGAGATAGTCTGAC
* * *
78289560 GGGACGTTAAACATG-GTATAGCCTGAT
1 GGGATGTTAAACATGAG-ATAGTCTGAC
* * *
78289587 GAGATGGTAAACATGAGATAGTCTGAT
1 GGGATGTTAAACATGAGATAGTCTGAC
*
78289614 GGGATGTTAAACACGAGATA
1 GGGATGTTAAACATGAGATA
78289634 CTTTATTAGG
Statistics
Matches: 81, Mismatches: 18, Indels: 4
0.79 0.17 0.04
Matches are distributed among these distances:
26 1 0.01
27 79 0.98
28 1 0.01
ACGTcount: A:0.35, C:0.12, G:0.29, T:0.24
Consensus pattern (27 bp):
GGGATGTTAAACATGAGATAGTCTGAC
Found at i:78289802 original size:39 final size:39
Alignment explanation
Indices: 78289748--78289826 Score: 140
Period size: 39 Copynumber: 2.0 Consensus size: 39
78289738 GAAGGATGCT
*
78289748 AAGGGTAAGAGTAGAGACTGTGTTGTGCAAGGGATTGTG
1 AAGGGTAAGAGTAGAGACTGCGTTGTGCAAGGGATTGTG
*
78289787 AAGGGTAATAGTAGAGACTGCGTTGTGCAAGGGATTGTG
1 AAGGGTAAGAGTAGAGACTGCGTTGTGCAAGGGATTGTG
78289826 A
1 A
78289827 TATCCCGAAT
Statistics
Matches: 38, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
39 38 1.00
ACGTcount: A:0.29, C:0.06, G:0.39, T:0.25
Consensus pattern (39 bp):
AAGGGTAAGAGTAGAGACTGCGTTGTGCAAGGGATTGTG
Found at i:78291933 original size:49 final size:49
Alignment explanation
Indices: 78291880--78292111 Score: 275
Period size: 49 Copynumber: 4.7 Consensus size: 49
78291870 CTGGTACGCA
* * *
78291880 TAGTAGCCTGCACATAGTACTACACATGCGACCAATTATCCGGTACACG
1 TAGTAGCCTGCACTTAGTACTACACATGTGACCAATTATCCGATACACG
78291929 TAGTAGCCTGCACTTAGTACTACACATGTGACCAATTATCCGATACACG
1 TAGTAGCCTGCACTTAGTACTACACATGTGACCAATTATCCGATACACG
** ** *
78291978 TAGTAGCCTGCACTTAGTACTACACACATGACCTAACCATCTGATACACG
1 TAGTAGCCTGCACTTAGTACTACACATGTGACC-AATTATCCGATACACG
* * * * * * *
78292028 TAGTAGCCTGCACTTAGTACTACACACGTGATCACAGTTTTCGGGTACGCA
1 TAGTAGCCTGCACTTAGTACTACACATGTGA-C-CAATTATCCGATACACG
* * *
78292079 TAGTAGCCAGCACTTAGTATTACACATGCGACC
1 TAGTAGCCTGCACTTAGTACTACACATGTGACC
78292112 TCACAATAGA
Statistics
Matches: 159, Mismatches: 21, Indels: 6
0.85 0.11 0.03
Matches are distributed among these distances:
49 78 0.49
50 44 0.28
51 36 0.23
52 1 0.01
ACGTcount: A:0.30, C:0.28, G:0.18, T:0.25
Consensus pattern (49 bp):
TAGTAGCCTGCACTTAGTACTACACATGTGACCAATTATCCGATACACG
Found at i:78292050 original size:99 final size:100
Alignment explanation
Indices: 78291878--78292104 Score: 278
Period size: 99 Copynumber: 2.3 Consensus size: 100
78291868 ATCTGGTACG
* ** ** *
78291878 CATAGTAGCCTGCACATAGTACTACACATGCGACCAATTATCCGGTACACGTAGTAGCCTGCACT
1 CATAGTAGCCTGCACTTAGTACTACACACACGACCAACCATCCGATACACGTAGTAGCCTGCACT
*
78291943 TAGTACTACACATGTGA-C-CAATTATCCGATACA
66 TAGTACTACACACGTGATCACAATTATCCGATACA
* * *
78291976 CGTAGTAGCCTGCACTTAGTACTACACACATGACCTAACCATCTGATACACGTAGTAGCCTGCAC
1 CATAGTAGCCTGCACTTAGTACTACACACACGACC-AACCATCCGATACACGTAGTAGCCTGCAC
* * * * *
78292041 TTAGTACTACACACGTGATCACAGTTTTCGGGTACG
65 TTAGTACTACACACGTGATCACAATTATCCGATACA
* *
78292077 CATAGTAGCCAGCACTTAGTATTACACA
1 CATAGTAGCCTGCACTTAGTACTACACA
78292105 TGCGACCTCA
Statistics
Matches: 108, Mismatches: 18, Indels: 3
0.84 0.14 0.02
Matches are distributed among these distances:
98 30 0.28
99 42 0.39
100 1 0.01
101 35 0.32
ACGTcount: A:0.30, C:0.27, G:0.17, T:0.25
Consensus pattern (100 bp):
CATAGTAGCCTGCACTTAGTACTACACACACGACCAACCATCCGATACACGTAGTAGCCTGCACT
TAGTACTACACACGTGATCACAATTATCCGATACA
Found at i:78294178 original size:46 final size:46
Alignment explanation
Indices: 78294121--78294391 Score: 221
Period size: 46 Copynumber: 5.8 Consensus size: 46
78294111 GATATTTGGG
*
78294121 CATCCGAACTCGTTGAGTTAAGTCCGAGTTCACTTATGGATGCGAA
1 CATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAA
* * * *
78294167 CATCTGAACTCGTTGAGTTGAGTTCGAGTTC-GTGA--GATGTC-ACTA
1 CATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATG-CGA--A
* * *
78294212 GGCATCCAAACTCATTGAGTTGAGTCTGAGTTCACTTATGGATGCGAA
1 --CATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAA
* * * ** * * * *
78294260 CGTCCGAACTCGTTGAGTTGAGTCCAAGTTCGTCAGATGTA-ACTAGG
1 CATCCGAACTCGTTGAGTTGAGTCCGAGTTC-ACTTATGGATGCGA-A
* *
78294307 CATCC-AAGCTTGTTGAGTTGAGTCCGAGTTCACTTATGGATGTGAA
1 CATCCGAA-CTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAA
** * *
78294353 CGCCCGAGCTCGTTGAGTTGAGTCTGAGTTCACTTATGG
1 CATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGG
78294392 GCGGGTTACA
Statistics
Matches: 171, Mismatches: 40, Indels: 28
0.72 0.17 0.12
Matches are distributed among these distances:
43 5 0.03
44 1 0.01
45 3 0.02
46 95 0.56
47 58 0.34
48 3 0.02
49 1 0.01
50 5 0.03
ACGTcount: A:0.23, C:0.20, G:0.27, T:0.30
Consensus pattern (46 bp):
CATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAA
Found at i:78294278 original size:93 final size:93
Alignment explanation
Indices: 78294119--78294383 Score: 379
Period size: 93 Copynumber: 2.8 Consensus size: 93
78294109 CAGATATTTG
* * * *
78294119 GGCATCCGAACTCGTTGAGTTAAGTCCGAGTTCACTTATGGATGCGAACATCTGAACTCGTTGAG
1 GGCATCCAAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGTCCGAACTCGTTGAG
* *
78294184 TTGAGTTCGAGTTCGTGAGATGTCACTA
66 TTGAGTTCGAGTTCGTCAGATGTAACTA
* *
78294212 GGCATCCAAACTCATTGAGTTGAGTCTGAGTTCACTTATGGATGCGAACGTCCGAACTCGTTGAG
1 GGCATCCAAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGTCCGAACTCGTTGAG
* *
78294277 TTGAGTCCAAGTTCGTCAGATGTAACTA
66 TTGAGTTCGAGTTCGTCAGATGTAACTA
* * * * *
78294305 GGCATCCAAGCTTGTTGAGTTGAGTCCGAGTTCACTTATGGATGTGAACGCCCGAGCTCGTTGAG
1 GGCATCCAAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGTCCGAACTCGTTGAG
78294370 TTGAG-TCTGAGTTC
66 TTGAGTTC-GAGTTC
78294384 ACTTATGGGC
Statistics
Matches: 152, Mismatches: 19, Indels: 2
0.88 0.11 0.01
Matches are distributed among these distances:
92 1 0.01
93 151 0.99
ACGTcount: A:0.23, C:0.20, G:0.27, T:0.30
Consensus pattern (93 bp):
GGCATCCAAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGTCCGAACTCGTTGAG
TTGAGTTCGAGTTCGTCAGATGTAACTA
Found at i:78302621 original size:39 final size:39
Alignment explanation
Indices: 78302578--78302654 Score: 127
Period size: 39 Copynumber: 2.0 Consensus size: 39
78302568 AATTATATTA
* *
78302578 CCAGCACAAAGCCTGCGGGACTTTAGCCTGGATACATTT
1 CCAGCACAAAGCCTACGGGACTTTAGCCCGGATACATTT
*
78302617 CCAGCACGAAGCCTACGGGACTTTAGCCCGGATACATT
1 CCAGCACAAAGCCTACGGGACTTTAGCCCGGATACATT
78302655 GCCCGGATAC
Statistics
Matches: 35, Mismatches: 3, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
39 35 1.00
ACGTcount: A:0.26, C:0.30, G:0.23, T:0.21
Consensus pattern (39 bp):
CCAGCACAAAGCCTACGGGACTTTAGCCCGGATACATTT
Found at i:78302660 original size:13 final size:13
Alignment explanation
Indices: 78302642--78302667 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
78302632 CGGGACTTTA
78302642 GCCCGGATACATT
1 GCCCGGATACATT
78302655 GCCCGGATACATT
1 GCCCGGATACATT
78302668 TCCAGCACGA
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:0.23, C:0.31, G:0.23, T:0.23
Consensus pattern (13 bp):
GCCCGGATACATT
Found at i:78302690 original size:52 final size:52
Alignment explanation
Indices: 78302607--78302706 Score: 182
Period size: 52 Copynumber: 1.9 Consensus size: 52
78302597 ACTTTAGCCT
*
78302607 GGATACATTTCCAGCACGAAGCCTACGGGACTTTAGCCCGGATACATTGCCC
1 GGATACATTTCCAGCACGAAGCCTACAGGACTTTAGCCCGGATACATTGCCC
*
78302659 GGATACATTTCCAGCACGAAGCCTGCAGGACTTTAGCCCGGATACATT
1 GGATACATTTCCAGCACGAAGCCTACAGGACTTTAGCCCGGATACATT
78302707 TCTAGCACGA
Statistics
Matches: 46, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
52 46 1.00
ACGTcount: A:0.26, C:0.29, G:0.23, T:0.22
Consensus pattern (52 bp):
GGATACATTTCCAGCACGAAGCCTACAGGACTTTAGCCCGGATACATTGCCC
Found at i:78302714 original size:39 final size:39
Alignment explanation
Indices: 78302655--78302750 Score: 174
Period size: 39 Copynumber: 2.5 Consensus size: 39
78302645 CGGATACATT
78302655 GCCCGGATACATTTCCAGCACGAAGCCTGCAGGACTTTA
1 GCCCGGATACATTTCCAGCACGAAGCCTGCAGGACTTTA
* *
78302694 GCCCGGATACATTTCTAGCACGAAGCCTGCGGGACTTTA
1 GCCCGGATACATTTCCAGCACGAAGCCTGCAGGACTTTA
78302733 GCCCGGATACATTTCCAG
1 GCCCGGATACATTTCCAG
78302751 TGTCTTGTAT
Statistics
Matches: 54, Mismatches: 3, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
39 54 1.00
ACGTcount: A:0.24, C:0.30, G:0.24, T:0.22
Consensus pattern (39 bp):
GCCCGGATACATTTCCAGCACGAAGCCTGCAGGACTTTA
Found at i:78302733 original size:91 final size:91
Alignment explanation
Indices: 78302578--78302745 Score: 291
Period size: 91 Copynumber: 1.8 Consensus size: 91
78302568 AATTATATTA
* *
78302578 CCAGCACAAAGCCTGCGGGACTTTAGCCTGGATACATTTCCAGCACGAAGCCTACGGGACTTTAG
1 CCAGCACAAAGCCTGCAGGACTTTAGCCCGGATACATTTCCAGCACGAAGCCTACGGGACTTTAG
78302643 CCCGGATACATTGCCCGGATACATTT
66 CCCGGATACATTGCCCGGATACATTT
* * *
78302669 CCAGCACGAAGCCTGCAGGACTTTAGCCCGGATACATTTCTAGCACGAAGCCTGCGGGACTTTAG
1 CCAGCACAAAGCCTGCAGGACTTTAGCCCGGATACATTTCCAGCACGAAGCCTACGGGACTTTAG
78302734 CCCGGATACATT
66 CCCGGATACATT
78302746 TCCAGTGTCT
Statistics
Matches: 72, Mismatches: 5, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
91 72 1.00
ACGTcount: A:0.25, C:0.30, G:0.24, T:0.21
Consensus pattern (91 bp):
CCAGCACAAAGCCTGCAGGACTTTAGCCCGGATACATTTCCAGCACGAAGCCTACGGGACTTTAG
CCCGGATACATTGCCCGGATACATTT
Found at i:78307024 original size:37 final size:37
Alignment explanation
Indices: 78306974--78307052 Score: 115
Period size: 37 Copynumber: 2.1 Consensus size: 37
78306964 TTATTACGAA
* *
78306974 GTCTTACCCGGACATAA-TCTCCACACGAAGTTATCGG
1 GTCTTACCCGGACAAAATTC-CCACACGAAGTCATCGG
*
78307011 GTCTTACCCGGACAAAATTCCCACACGTAGTCATCGG
1 GTCTTACCCGGACAAAATTCCCACACGAAGTCATCGG
78307048 GTCTT
1 GTCTT
78307053 TAGAGCTCGG
Statistics
Matches: 38, Mismatches: 3, Indels: 2
0.88 0.07 0.05
Matches are distributed among these distances:
37 36 0.95
38 2 0.05
ACGTcount: A:0.25, C:0.30, G:0.19, T:0.25
Consensus pattern (37 bp):
GTCTTACCCGGACAAAATTCCCACACGAAGTCATCGG
Found at i:78307249 original size:47 final size:47
Alignment explanation
Indices: 78307171--78307518 Score: 588
Period size: 47 Copynumber: 7.4 Consensus size: 47
78307161 CCCTTCGGGA
* * * * * * *
78307171 CTTATCACATTTATGCACTTTCACATCCATCACGTTGGCCACTCGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
* *
78307218 CCTGTCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
78307265 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
*
78307312 CTTATCACACATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
*
78307359 CTTATCACATATATACACTTTCACATTCATCACATCGGCTATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
78307406 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
*
78307453 CTTATCACACATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
78307500 CTTATCACATATATACACT
1 CTTATCACATATATACACT
78307519 GTCTTGGCTG
Statistics
Matches: 284, Mismatches: 17, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
47 284 1.00
ACGTcount: A:0.29, C:0.31, G:0.09, T:0.32
Consensus pattern (47 bp):
CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
Found at i:78308297 original size:29 final size:29
Alignment explanation
Indices: 78308265--78308326 Score: 124
Period size: 29 Copynumber: 2.1 Consensus size: 29
78308255 CATTTGGCAA
78308265 CATATCATATCAATAACTTACCTATACTT
1 CATATCATATCAATAACTTACCTATACTT
78308294 CATATCATATCAATAACTTACCTATACTT
1 CATATCATATCAATAACTTACCTATACTT
78308323 CATA
1 CATA
78308327 ATAGCCATTA
Statistics
Matches: 33, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
29 33 1.00
ACGTcount: A:0.39, C:0.24, G:0.00, T:0.37
Consensus pattern (29 bp):
CATATCATATCAATAACTTACCTATACTT
Found at i:78310970 original size:50 final size:50
Alignment explanation
Indices: 78310891--78310991 Score: 148
Period size: 50 Copynumber: 2.0 Consensus size: 50
78310881 AGTTCATGAC
* ** *
78310891 ACCATATCGTGTAAGACCATAGTTGGTGGGCTACGGCATCATATGGAAAG
1 ACCATATCGTATAAGACCATAACTAGTGGGCTACGGCATCATATGGAAAG
* *
78310941 ACCATATCGTATAAGACCATAACTAGTGGGTTATGGCATCATATGGAAAG
1 ACCATATCGTATAAGACCATAACTAGTGGGCTACGGCATCATATGGAAAG
78310991 A
1 A
78310992 AAAAAAAGAA
Statistics
Matches: 45, Mismatches: 6, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
50 45 1.00
ACGTcount: A:0.34, C:0.17, G:0.25, T:0.25
Consensus pattern (50 bp):
ACCATATCGTATAAGACCATAACTAGTGGGCTACGGCATCATATGGAAAG
Found at i:78311152 original size:28 final size:26
Alignment explanation
Indices: 78311084--78311159 Score: 89
Period size: 27 Copynumber: 2.8 Consensus size: 26
78311074 ACACACTGGA
78311084 GAAACAGAAGCCTTTGTGGCAATCTAT
1 GAAA-AGAAGCCTTTGTGGCAATCTAT
* *
78311111 GAAATGTAAGCCTTTGTGGCGATCTAT
1 GAAAAG-AAGCCTTTGTGGCAATCTAT
*
78311138 GGAAAAGAAGGCCTTCGTGGCA
1 -GAAAAGAA-GCCTTTGTGGCA
78311160 CAGTCTAAAG
Statistics
Matches: 41, Mismatches: 5, Indels: 5
0.80 0.10 0.10
Matches are distributed among these distances:
26 1 0.02
27 25 0.61
28 15 0.37
ACGTcount: A:0.30, C:0.17, G:0.28, T:0.25
Consensus pattern (26 bp):
GAAAAGAAGCCTTTGTGGCAATCTAT
Found at i:78311307 original size:27 final size:27
Alignment explanation
Indices: 78311293--78311524 Score: 198
Period size: 27 Copynumber: 8.6 Consensus size: 27
78311283 GACTAGATAG
*
78311293 TATGGTAAACACTGAAGGAATAGTACA
1 TATGGAAAACACTGAAGGAATAGTACA
* *
78311320 TATGGAAAACACTAAAGGAATAGCACA
1 TATGGAAAACACTGAAGGAATAGTACA
** * * *
78311347 TATGGTGAACTCTGAAAGAATAGTACG
1 TATGGAAAACACTGAAGGAATAGTACA
* * *
78311374 CATGGAAAACACTAAAGGAATGGTACA
1 TATGGAAAACACTGAAGGAATAGTACA
*
78311401 TAT-GACAAACACTGAAGGAATAATACA
1 TATGGA-AAACACTGAAGGAATAGTACA
** * * *
78311428 TATGGTGAACTCTGAAAGAATAGTACG
1 TATGGAAAACACTGAAGGAATAGTACA
* * * *
78311455 TATAGAAAAAACTAAAGGAATGGT-CTA
1 TATGGAAAACACTGAAGGAATAGTAC-A
** * *
78311482 TATGGCGAACACTAAAGGAATAGTGCA
1 TATGGAAAACACTGAAGGAATAGTACA
*
78311509 TATGGAGAACACTGAA
1 TATGGAAAACACTGAA
78311525 AGACACAATT
Statistics
Matches: 157, Mismatches: 44, Indels: 8
0.75 0.21 0.04
Matches are distributed among these distances:
26 3 0.02
27 152 0.97
28 2 0.01
ACGTcount: A:0.45, C:0.12, G:0.22, T:0.20
Consensus pattern (27 bp):
TATGGAAAACACTGAAGGAATAGTACA
Found at i:78311411 original size:81 final size:81
Alignment explanation
Indices: 78311294--78311527 Score: 310
Period size: 81 Copynumber: 2.9 Consensus size: 81
78311284 ACTAGATAGT
* * * *
78311294 ATGGTAAACACTGAAGGAATAGTACATATGGA-AAACACTAAAGGAATAGCACATATGGTGAACT
1 ATGGAAAACACTAAAGGAATGGTACATAT-GACAAACACTAAAGGAATAGTACATATGGTGAACT
78311358 CTGAAAGAATAGTACGC
65 CTGAAAGAATAGTACGC
* *
78311375 ATGGAAAACACTAAAGGAATGGTACATATGACAAACACTGAAGGAATAATACATATGGTGAACTC
1 ATGGAAAACACTAAAGGAATGGTACATATGACAAACACTAAAGGAATAGTACATATGGTGAACTC
*
78311440 TGAAAGAATAGTACGT
66 TGAAAGAATAGTACGC
* * * * * * *
78311456 ATAGAAAAAACTAAAGGAATGGT-CTATATGGCGAACACTAAAGGAATAGTGCATATGGAGAACA
1 ATGGAAAACACTAAAGGAATGGTAC-ATATGACAAACACTAAAGGAATAGTACATATGGTGAACT
78311520 CTGAAAGA
65 CTGAAAGA
78311528 CACAATTCCG
Statistics
Matches: 135, Mismatches: 16, Indels: 4
0.87 0.10 0.03
Matches are distributed among these distances:
80 3 0.02
81 132 0.98
ACGTcount: A:0.46, C:0.12, G:0.22, T:0.20
Consensus pattern (81 bp):
ATGGAAAACACTAAAGGAATGGTACATATGACAAACACTAAAGGAATAGTACATATGGTGAACTC
TGAAAGAATAGTACGC
Found at i:78325130 original size:48 final size:48
Alignment explanation
Indices: 78325058--78325517 Score: 412
Period size: 48 Copynumber: 9.7 Consensus size: 48
78325048 CATGTGAACC
* * * **
78325058 AGTGTAAGACCATGTTTGGAACATGGCATTGGCATTGTTACAAGAGCT
1 AGTGTAAGACCATGTTTGGGACATGGCATCGGCATTATTATGAGAGCT
* * * * * * *
78325106 AGTGTAAGACTATGTTTGGGACATGACATCGGCCTCAATATGTGAGCC
1 AGTGTAAGACCATGTTTGGGACATGGCATCGGCATTATTATGAGAGCT
* * * *
78325154 AGTGTAAAACCATGTTTGGAACATGGCATTGGCATTGTTATGAGAGCT
1 AGTGTAAGACCATGTTTGGGACATGGCATCGGCATTATTATGAGAGCT
* * * * * * *
78325202 AGCGTAAGGCCATGTTTGGGACATGGCATCGGCCTCAATATGTGAGCC
1 AGTGTAAGACCATGTTTGGGACATGGCATCGGCATTATTATGAGAGCT
* *
78325250 AGTGTAAGACCATGTTT-GGA-AT----T-AGCATTGTTATGAGAGCT
1 AGTGTAAGACCATGTTTGGGACATGGCATCGGCATTATTATGAGAGCT
* * * * * * *
78325291 AGTGTAAGACCATGTTTTGGACATAGCATCAGCCTCAATATGTGAGCT
1 AGTGTAAGACCATGTTTGGGACATGGCATCGGCATTATTATGAGAGCT
* * ** *
78325339 AGTGTAAGACCATGTTTGGAACATGGCTTCAACATTGTTATGAGAGCT
1 AGTGTAAGACCATGTTTGGGACATGGCATCGGCATTATTATGAGAGCT
* * * * * *
78325387 AGTGTAAGACCATGTCTGGGACATGGCATCGGCCTCAATATGTGAGCC
1 AGTGTAAGACCATGTTTGGGACATGGCATCGGCATTATTATGAGAGCT
* ** * *
78325435 AGTGTAAGACCATGTTTGGAACATGGCATTAGCATTATTACGAGAGCA
1 AGTGTAAGACCATGTTTGGGACATGGCATCGGCATTATTATGAGAGCT
* * *
78325483 AGTGTAAGACCATGTCTGGGAAATGGTATCGGCAT
1 AGTGTAAGACCATGTTTGGGACATGGCATCGGCAT
78325518 CTTACCCTTT
Statistics
Matches: 320, Mismatches: 85, Indels: 14
0.76 0.20 0.03
Matches are distributed among these distances:
41 28 0.09
42 4 0.01
43 2 0.01
46 2 0.01
47 4 0.01
48 280 0.88
ACGTcount: A:0.28, C:0.17, G:0.27, T:0.28
Consensus pattern (48 bp):
AGTGTAAGACCATGTTTGGGACATGGCATCGGCATTATTATGAGAGCT
Found at i:78325377 original size:185 final size:185
Alignment explanation
Indices: 78325089--78325455 Score: 594
Period size: 185 Copynumber: 2.0 Consensus size: 185
78325079 CATGGCATTG
* *
78325089 GCATTGTTACAAGAGCTAGTGTAAGACTATGTTTGGGACATGACATCGGCCTCAATATGTGAGCC
1 GCATTGTTACAAGAGCTAGTGTAAGACCATGTTTGGGACATGACATCAGCCTCAATATGTGAGCC
** * *
78325154 AGTGTAAAACCATGTTTGGAACATGGCATTGGCATTGTTATGAGAGCTAGCGTAAGGCCATGTTT
66 AGTGTAAAACCATGTTTGGAACATGGCATTAACATTGTTATGAGAGCTAGCGTAAGACCATGTCT
78325219 GGGACATGGCATCGGCCTCAATATGTGAGCCAGTGTAAGACCATGTTTGGAATTA
131 GGGACATGGCATCGGCCTCAATATGTGAGCCAGTGTAAGACCATGTTTGGAATTA
** *
78325274 GCATTGTTATGAGAGCTAGTGTAAGACCATGTTTTGGACAT-AGCATCAGCCTCAATATGTGAGC
1 GCATTGTTACAAGAGCTAGTGTAAGACCATGTTTGGGACATGA-CATCAGCCTCAATATGTGAGC
* * *
78325338 TAGTGTAAGACCATGTTTGGAACATGGC-TTCAACATTGTTATGAGAGCTAGTGTAAGACCATGT
65 CAGTGTAAAACCATGTTTGGAACATGGCATT-AACATTGTTATGAGAGCTAGCGTAAGACCATGT
78325402 CTGGGACATGGCATCGGCCTCAATATGTGAGCCAGTGTAAGACCATGTTTGGAA
129 CTGGGACATGGCATCGGCCTCAATATGTGAGCCAGTGTAAGACCATGTTTGGAA
78325456 CATGGCATTA
Statistics
Matches: 168, Mismatches: 12, Indels: 4
0.91 0.07 0.02
Matches are distributed among these distances:
184 3 0.02
185 165 0.98
ACGTcount: A:0.28, C:0.17, G:0.27, T:0.28
Consensus pattern (185 bp):
GCATTGTTACAAGAGCTAGTGTAAGACCATGTTTGGGACATGACATCAGCCTCAATATGTGAGCC
AGTGTAAAACCATGTTTGGAACATGGCATTAACATTGTTATGAGAGCTAGCGTAAGACCATGTCT
GGGACATGGCATCGGCCTCAATATGTGAGCCAGTGTAAGACCATGTTTGGAATTA
Found at i:78325514 original size:96 final size:96
Alignment explanation
Indices: 78325049--78325515 Score: 671
Period size: 96 Copynumber: 4.9 Consensus size: 96
78325039 GTTAGGGTAC
* * **
78325049 ATGTGAACCAGTGTAAGACCATGTTTGGAACATGGCATTGGCATTGTTACAAGAGCTAGTGTAAG
1 ATGTGAGCCAGTGTAAGACCATGTTTGGAACATGGCATTAGCATTGTTATGAGAGCTAGTGTAAG
* *
78325114 ACTATGTTTGGGACATGACATCGGCCTCAAT
66 ACCATGTTTGGGACATGGCATCGGCCTCAAT
* * *
78325145 ATGTGAGCCAGTGTAAAACCATGTTTGGAACATGGCATTGGCATTGTTATGAGAGCTAGCGTAAG
1 ATGTGAGCCAGTGTAAGACCATGTTTGGAACATGGCATTAGCATTGTTATGAGAGCTAGTGTAAG
*
78325210 GCCATGTTTGGGACATGGCATCGGCCTCAAT
66 ACCATGTTTGGGACATGGCATCGGCCTCAAT
78325241 ATGTGAGCCAGTGTAAGACCATGTTTGG---A----ATTAGCATTGTTATGAGAGCTAGTGTAAG
1 ATGTGAGCCAGTGTAAGACCATGTTTGGAACATGGCATTAGCATTGTTATGAGAGCTAGTGTAAG
* * *
78325299 ACCATGTTTTGGACATAGCATCAGCCTCAAT
66 ACCATGTTTGGGACATGGCATCGGCCTCAAT
* *
78325330 ATGTGAGCTAGTGTAAGACCATGTTTGGAACATGGC-TTCAACATTGTTATGAGAGCTAGTGTAA
1 ATGTGAGCCAGTGTAAGACCATGTTTGGAACATGGCATT-AGCATTGTTATGAGAGCTAGTGTAA
*
78325394 GACCATGTCTGGGACATGGCATCGGCCTCAAT
65 GACCATGTTTGGGACATGGCATCGGCCTCAAT
* * *
78325426 ATGTGAGCCAGTGTAAGACCATGTTTGGAACATGGCATTAGCATTATTACGAGAGCAAGTGTAAG
1 ATGTGAGCCAGTGTAAGACCATGTTTGGAACATGGCATTAGCATTGTTATGAGAGCTAGTGTAAG
* * *
78325491 ACCATGTCTGGGAAATGGTATCGGC
66 ACCATGTTTGGGACATGGCATCGGC
78325516 ATCTTACCCT
Statistics
Matches: 334, Mismatches: 28, Indels: 18
0.88 0.07 0.05
Matches are distributed among these distances:
89 81 0.24
92 1 0.00
93 1 0.00
95 2 0.01
96 247 0.74
97 2 0.01
ACGTcount: A:0.28, C:0.17, G:0.27, T:0.28
Consensus pattern (96 bp):
ATGTGAGCCAGTGTAAGACCATGTTTGGAACATGGCATTAGCATTGTTATGAGAGCTAGTGTAAG
ACCATGTTTGGGACATGGCATCGGCCTCAAT
Found at i:78333050 original size:48 final size:48
Alignment explanation
Indices: 78332975--78333268 Score: 295
Period size: 48 Copynumber: 6.1 Consensus size: 48
78332965 GTGAGCCAGC
* *
78332975 GTAAGACCATGTTTGGAACATGGCATCGGCATTTTTACGAGAGCTAGT
1 GTAAGACCATGTTTGGAACATGGCATCGGCATTGTTATGAGAGCTAGT
* * * * * * * *
78333023 GTAAGACCATGTCTGGGAGATGACATCGGCCTTCTTATGTGACCTAGT
1 GTAAGACCATGTTTGGAACATGGCATCGGCATTGTTATGAGAGCTAGT
* * *
78333071 GTAAGACAATGTTTGGAACATGGCATCTGCATTGTTATAAGAGCTAGT
1 GTAAGACCATGTTTGGAACATGGCATCGGCATTGTTATGAGAGCTAGT
* * * * ** * *
78333119 GTAGGACCATGTCTAGG-ATATGGCATCAGC-TTCAATATGTGAGCCAGT
1 GTAAGACCATGT-TTGGAACATGGCATCGGCATT-GTTATGAGAGCTAGT
* * * *
78333167 GTAAAACCATGTTTAGAACATGGCATCGACATTGTTATGAGAGCTGGT
1 GTAAGACCATGTTTGGAACATGGCATCGGCATTGTTATGAGAGCTAGT
* * * *
78333215 GTAAGACCATGTTTGGAACATGGCATCAGCATTGTTACGAAAGCTAGA
1 GTAAGACCATGTTTGGAACATGGCATCGGCATTGTTATGAGAGCTAGT
78333263 GTAAGA
1 GTAAGA
78333269 TTATATCTGG
Statistics
Matches: 192, Mismatches: 50, Indels: 8
0.77 0.20 0.03
Matches are distributed among these distances:
47 4 0.02
48 183 0.95
49 5 0.03
ACGTcount: A:0.29, C:0.16, G:0.26, T:0.28
Consensus pattern (48 bp):
GTAAGACCATGTTTGGAACATGGCATCGGCATTGTTATGAGAGCTAGT
Found at i:78333127 original size:96 final size:95
Alignment explanation
Indices: 78332963--78333226 Score: 343
Period size: 96 Copynumber: 2.7 Consensus size: 95
78332953 ATTAGGGTAC
* * *
78332963 ATGTGAGCCAGCGTAAGACCATGTTTGGAACATGGCATCGGCATTTTTACGAGAGCTAGTGTAAG
1 ATGTGAGCCAGTGTAAGACCATGTTTGGAACATGGCATC-GCATTGTTATGAGAGCTAGTGTAAG
* * *
78333028 ACCATGTCTGGGAGATGACATCGGCCTTC-TT
65 ACCATGTCTAGGAGATGACATCAG-CTTCAAT
* * *
78333059 ATGTGA-CCTAGTGTAAGACAATGTTTGGAACATGGCATCTGCATTGTTATAAGAGCTAGTGTAG
1 ATGTGAGCC-AGTGTAAGACCATGTTTGGAACATGGCATC-GCATTGTTATGAGAGCTAGTGTAA
* *
78333123 GACCATGTCTAGGATATGGCATCAGCTTCAAT
64 GACCATGTCTAGGAGATGACATCAGCTTCAAT
* * *
78333155 ATGTGAGCCAGTGTAAAACCATGTTTAGAACATGGCATCGACATTGTTATGAGAGCTGGTGTAAG
1 ATGTGAGCCAGTGTAAGACCATGTTTGGAACATGGCATCG-CATTGTTATGAGAGCTAGTGTAAG
78333220 ACCATGT
65 ACCATGT
78333227 TTGGAACATG
Statistics
Matches: 146, Mismatches: 18, Indels: 8
0.85 0.10 0.05
Matches are distributed among these distances:
95 7 0.05
96 137 0.94
97 2 0.01
ACGTcount: A:0.28, C:0.17, G:0.27, T:0.28
Consensus pattern (95 bp):
ATGTGAGCCAGTGTAAGACCATGTTTGGAACATGGCATCGCATTGTTATGAGAGCTAGTGTAAGA
CCATGTCTAGGAGATGACATCAGCTTCAAT
Found at i:78344785 original size:47 final size:47
Alignment explanation
Indices: 78344734--78344946 Score: 286
Period size: 47 Copynumber: 4.6 Consensus size: 47
78344724 GATAATTTTG
*
78344734 ATGTGAATGTGTATATATGTGATAAGGCCTAATGACCGATGTGATGA
1 ATGTGAAAGTGTATATATGTGATAAGGCCTAATGACCGATGTGATGA
78344781 ATGTGAAAGTGTATATATGTGATAAGGCCTAAT-AGCCGATGTGATGA
1 ATGTGAAAGTGTATATATGTGATAAGGCCTAATGA-CCGATGTGATGA
* * *
78344828 ATGTGAAAGTGTATATATGTGATGAGGCCTAATGGCCGATGTGATTA
1 ATGTGAAAGTGTATATATGTGATAAGGCCTAATGACCGATGTGATGA
* * * * * * * *
78344875 ATGTGAAAGTGTATATATGTGACAGGGCCGAGTGGCCAACGTGATGG
1 ATGTGAAAGTGTATATATGTGATAAGGCCTAATGACCGATGTGATGA
*
78344922 ATGTG-AAGTGTATAAATGTGATAAG
1 ATGTGAAAGTGTATATATGTGATAAG
78344947 TCCGAAGGGC
Statistics
Matches: 148, Mismatches: 16, Indels: 5
0.88 0.09 0.03
Matches are distributed among these distances:
46 18 0.12
47 130 0.88
ACGTcount: A:0.32, C:0.08, G:0.30, T:0.30
Consensus pattern (47 bp):
ATGTGAAAGTGTATATATGTGATAAGGCCTAATGACCGATGTGATGA
Found at i:78347225 original size:40 final size:40
Alignment explanation
Indices: 78347166--78347470 Score: 449
Period size: 40 Copynumber: 7.7 Consensus size: 40
78347156 AGGTCTCGAC
78347166 GATG-ATCCGGGCTAAGTCCCGAAGAGCATTCGTGCTAGT
1 GATGTATCCGGGCTAAGTCCCGAAGAGCATTCGTGCTAGT
*
78347205 GATGTATCCGGGCTAAGTCCCGAAGAGCATTCATGCTAGT
1 GATGTATCCGGGCTAAGTCCCGAAGAGCATTCGTGCTAGT
*
78347245 GATGTA-CCGGGCTAAGT-CCGAAGAGCATTCATGCTAGT
1 GATGTATCCGGGCTAAGTCCCGAAGAGCATTCGTGCTAGT
78347283 GATGTATCCGGGCTAAGTCCCGAAGAGCATTCGTGCTAGT
1 GATGTATCCGGGCTAAGTCCCGAAGAGCATTCGTGCTAGT
* *
78347323 GATGTATCCGGACTAAGTCCCAAAGAGCATTCGTGCTAGT
1 GATGTATCCGGGCTAAGTCCCGAAGAGCATTCGTGCTAGT
*
78347363 GATGTATCCGGGCTAAGTTCCGAAGAGCATTCGTGCTAGT
1 GATGTATCCGGGCTAAGTCCCGAAGAGCATTCGTGCTAGT
* * * * *
78347403 AATATATCCGTGCTAA-ACCTCGAAGAGCATTCGTGCTGGT
1 GATGTATCCGGGCTAAGTCC-CGAAGAGCATTCGTGCTAGT
* * *
78347443 GTTATAT-CGGGCTAGGTCCCGAAGAGCA
1 GATGTATCCGGGCTAAGTCCCGAAGAGCA
78347471 ATCATGCTGG
Statistics
Matches: 243, Mismatches: 18, Indels: 10
0.90 0.07 0.04
Matches are distributed among these distances:
38 27 0.11
39 42 0.17
40 174 0.72
ACGTcount: A:0.25, C:0.22, G:0.28, T:0.25
Consensus pattern (40 bp):
GATGTATCCGGGCTAAGTCCCGAAGAGCATTCGTGCTAGT
Found at i:78347750 original size:58 final size:57
Alignment explanation
Indices: 78347681--78347789 Score: 164
Period size: 57 Copynumber: 1.9 Consensus size: 57
78347671 CGAATGATTA
* *
78347681 GAGGCACTGTGTGTGCAAATTCTTTTAACCGAGCACTATGTGTGCGAAATCGGTAATT
1 GAGGCACTGTGTGTGCAAATTC-TTCAACCAAGCACTATGTGTGCGAAATCGGTAATT
* * *
78347739 GAGGCACTGTGTGTGCGAGTTCTTCAACCAAGCACTATGTGTGCGAGATCG
1 GAGGCACTGTGTGTGCAAATTCTTCAACCAAGCACTATGTGTGCGAAATCG
78347790 ATCAGTGGGC
Statistics
Matches: 46, Mismatches: 5, Indels: 1
0.88 0.10 0.02
Matches are distributed among these distances:
57 26 0.57
58 20 0.43
ACGTcount: A:0.24, C:0.19, G:0.28, T:0.28
Consensus pattern (57 bp):
GAGGCACTGTGTGTGCAAATTCTTCAACCAAGCACTATGTGTGCGAAATCGGTAATT
Found at i:78351459 original size:47 final size:47
Alignment explanation
Indices: 78351408--78351621 Score: 322
Period size: 47 Copynumber: 4.6 Consensus size: 47
78351398 GATAATTGTG
*
78351408 ATGTGAATGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGA
1 ATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGA
*
78351455 ATGTGAAAGTGTATATATGTGATAAGGCCTAATAGCCGATGTGATGA
1 ATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGA
*
78351502 ATGTGAAAGTGTATATATGTGATGAGGCCTAATGGCCGATGTGATGA
1 ATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGA
* * * * * *
78351549 ATGTGAAAGTGTATATATGTGA-CAGAGCCGAGTGGCCAACGTGATGG
1 ATGTGAAAGTGTATATATGTGATAAG-GCCTAATGGCCGATGTGATGA
*
78351596 ATGTGAAAGTGTATAAATGTGATAAG
1 ATGTGAAAGTGTATATATGTGATAAG
78351622 TCCCGAAGGG
Statistics
Matches: 153, Mismatches: 12, Indels: 3
0.91 0.07 0.02
Matches are distributed among these distances:
46 2 0.01
47 149 0.97
48 2 0.01
ACGTcount: A:0.32, C:0.08, G:0.30, T:0.29
Consensus pattern (47 bp):
ATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGA
Found at i:78359805 original size:17 final size:17
Alignment explanation
Indices: 78359783--78359816 Score: 68
Period size: 17 Copynumber: 2.0 Consensus size: 17
78359773 ACTCGTCATC
78359783 ATATAACAATGAGCTAT
1 ATATAACAATGAGCTAT
78359800 ATATAACAATGAGCTAT
1 ATATAACAATGAGCTAT
78359817 CTCATCAAAC
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
17 17 1.00
ACGTcount: A:0.47, C:0.12, G:0.12, T:0.29
Consensus pattern (17 bp):
ATATAACAATGAGCTAT
Found at i:78365675 original size:29 final size:28
Alignment explanation
Indices: 78365635--78365714 Score: 101
Period size: 29 Copynumber: 2.8 Consensus size: 28
78365625 ACATGGCCCA
78365635 TTAGGCCTAAATCACATTTATATGG-TCTT
1 TTAGGCC-AAATCACATTTATATGGCTC-T
78365664 TTAGGTCCAAATCACATTTATATGGCTCT
1 TTAGG-CCAAATCACATTTATATGGCTCT
*
78365693 TTAGGCCCAAATAACA-TTATAT
1 TTAGG-CCAAATCACATTTATAT
78365715 TCATGCTCAC
Statistics
Matches: 47, Mismatches: 2, Indels: 5
0.87 0.04 0.09
Matches are distributed among these distances:
28 6 0.13
29 37 0.79
30 4 0.09
ACGTcount: A:0.31, C:0.19, G:0.12, T:0.38
Consensus pattern (28 bp):
TTAGGCCAAATCACATTTATATGGCTCT
Found at i:78369064 original size:17 final size:18
Alignment explanation
Indices: 78369042--78369075 Score: 52
Period size: 18 Copynumber: 1.9 Consensus size: 18
78369032 CACATTGAAG
78369042 TGTTTT-AGTGAAAACCT
1 TGTTTTCAGTGAAAACCT
*
78369059 TGTTTTCATTGAAAACC
1 TGTTTTCAGTGAAAACC
78369076 CTTCCTTGGA
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
17 6 0.40
18 9 0.60
ACGTcount: A:0.29, C:0.15, G:0.15, T:0.41
Consensus pattern (18 bp):
TGTTTTCAGTGAAAACCT
Found at i:78370227 original size:28 final size:28
Alignment explanation
Indices: 78370196--78370257 Score: 70
Period size: 29 Copynumber: 2.2 Consensus size: 28
78370186 GCCCACTAAA
* *
78370196 CCCAATTATATTCACATGGCCCATTAGG
1 CCCAATCACATTCACATGGCCCATTAGG
* * *
78370224 CCCAAATCACATTTATATGGCCCTTTAGG
1 CCC-AATCACATTCACATGGCCCATTAGG
78370253 CCCAA
1 CCCAA
78370258 ATAACACAAT
Statistics
Matches: 28, Mismatches: 5, Indels: 2
0.80 0.14 0.06
Matches are distributed among these distances:
28 5 0.18
29 23 0.82
ACGTcount: A:0.29, C:0.31, G:0.13, T:0.27
Consensus pattern (28 bp):
CCCAATCACATTCACATGGCCCATTAGG
Found at i:78382426 original size:14 final size:13
Alignment explanation
Indices: 78382406--78382442 Score: 58
Period size: 14 Copynumber: 2.8 Consensus size: 13
78382396 AATATTTGAT
78382406 TTGTTCTTAATTA
1 TTGTTCTTAATTA
78382419 TGTGTTCTTAATTA
1 T-TGTTCTTAATTA
78382433 TTGTT-TTAAT
1 TTGTTCTTAAT
78382443 ATTCCAGGAT
Statistics
Matches: 23, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
12 5 0.22
13 5 0.22
14 13 0.57
ACGTcount: A:0.22, C:0.05, G:0.11, T:0.62
Consensus pattern (13 bp):
TTGTTCTTAATTA
Found at i:78392250 original size:31 final size:31
Alignment explanation
Indices: 78392212--78392286 Score: 132
Period size: 31 Copynumber: 2.4 Consensus size: 31
78392202 ACGGTTACTA
78392212 GGCCGAAGCCTTTTCATAAATCAAATCACTG
1 GGCCGAAGCCTTTTCATAAATCAAATCACTG
* *
78392243 GGCCGAAGCCTTTTCATAAATCATATCGCTG
1 GGCCGAAGCCTTTTCATAAATCAAATCACTG
78392274 GGCCGAAGCCTTT
1 GGCCGAAGCCTTT
78392287 ATTGTAAACG
Statistics
Matches: 42, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
31 42 1.00
ACGTcount: A:0.27, C:0.27, G:0.20, T:0.27
Consensus pattern (31 bp):
GGCCGAAGCCTTTTCATAAATCAAATCACTG
Found at i:78392370 original size:42 final size:42
Alignment explanation
Indices: 78392310--78392401 Score: 166
Period size: 42 Copynumber: 2.2 Consensus size: 42
78392300 TGGCCCATAG
*
78392310 GCCCATTTCAATAACACATGAAATATCAATGAATGTATGCAA
1 GCCCATTTCAATAACACATGAAATACCAATGAATGTATGCAA
*
78392352 GCCCATTTCAATATCACATGAAATACCAATGAATGTATGCAA
1 GCCCATTTCAATAACACATGAAATACCAATGAATGTATGCAA
78392394 GCCCATTT
1 GCCCATTT
78392402 GGGGAGACTA
Statistics
Matches: 48, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
42 48 1.00
ACGTcount: A:0.39, C:0.22, G:0.12, T:0.27
Consensus pattern (42 bp):
GCCCATTTCAATAACACATGAAATACCAATGAATGTATGCAA
Found at i:78392617 original size:26 final size:26
Alignment explanation
Indices: 78392549--78392667 Score: 188
Period size: 26 Copynumber: 4.7 Consensus size: 26
78392539 CTTTAATAAT
**
78392549 TGGGGCA-AAGCCCTTTTCGGTAAAC
1 TGGGGCATAAGCCCTTTTCAATAAAC
78392574 TGGGGCA-AAGCCCTTTTCAATAAAC
1 TGGGGCATAAGCCCTTTTCAATAAAC
*
78392599 TGGGGCATAAGCCCTTTTCGATAAAC
1 TGGGGCATAAGCCCTTTTCAATAAAC
*
78392625 TGAGGCATAAGCCCTTTTCAATAAAC
1 TGGGGCATAAGCCCTTTTCAATAAAC
78392651 TGGGGCATAAGCCCTTT
1 TGGGGCATAAGCCCTTT
78392668 CGCACTTCCT
Statistics
Matches: 87, Mismatches: 6, Indels: 1
0.93 0.06 0.01
Matches are distributed among these distances:
25 30 0.34
26 57 0.66
ACGTcount: A:0.28, C:0.24, G:0.23, T:0.26
Consensus pattern (26 bp):
TGGGGCATAAGCCCTTTTCAATAAAC
Found at i:78392743 original size:20 final size:20
Alignment explanation
Indices: 78392718--78392772 Score: 71
Period size: 20 Copynumber: 2.9 Consensus size: 20
78392708 TTATGAATTC
*
78392718 ATCATGTGCATTTCATA-CA
1 ATCATGTGCATATCATATCA
78392737 TATCATGTGCATATCATATCA
1 -ATCATGTGCATATCATATCA
78392758 ATCATGT--ATATCATA
1 ATCATGTGCATATCATA
78392773 CCCCACTATC
Statistics
Matches: 33, Mismatches: 1, Indels: 4
0.87 0.03 0.11
Matches are distributed among these distances:
18 8 0.24
20 23 0.70
21 2 0.06
ACGTcount: A:0.35, C:0.18, G:0.09, T:0.38
Consensus pattern (20 bp):
ATCATGTGCATATCATATCA
Found at i:78393521 original size:26 final size:27
Alignment explanation
Indices: 78393460--78393535 Score: 75
Period size: 26 Copynumber: 2.9 Consensus size: 27
78393450 GGCATATTCT
* *
78393460 TCATTTTACCATACAGGGGTATTACGG
1 TCATTTTACCATATAGGGCTATTACGG
* *
78393487 TCACTTTACCATATAGGGCT-TTATGG
1 TCATTTTACCATATAGGGCTATTACGG
* *
78393513 TCTTTTTACC-TAATAGGGGTATT
1 TCATTTTACCAT-ATAGGGCTATT
78393536 TTAGTCATTT
Statistics
Matches: 40, Mismatches: 7, Indels: 4
0.78 0.14 0.08
Matches are distributed among these distances:
25 1 0.03
26 20 0.50
27 19 0.47
ACGTcount: A:0.24, C:0.17, G:0.20, T:0.39
Consensus pattern (27 bp):
TCATTTTACCATATAGGGCTATTACGG
Found at i:78393606 original size:27 final size:27
Alignment explanation
Indices: 78393553--78393821 Score: 173
Period size: 27 Copynumber: 9.9 Consensus size: 27
78393543 TTTCATCGTA
* * * *
78393553 CAAGGGTGTTTTGGTAAATCTACAAAC
1 CAAGGGTATTTCGGTAATTTTACAAAC
* **
78393580 CAAGGGTATTTCAGTAATTTTGTAAAC
1 CAAGGGTATTTCGGTAATTTTACAAAC
* * ** * *
78393607 CAATGGTGTTTCTATAATTTTTAGAAAGT
1 CAAGGGTATTTCGGTAA-TTTTACAAA-C
* * * ** *
78393636 TAAGGGTATTTCTGTAACTTTGTAAAT
1 CAAGGGTATTTCGGTAATTTTACAAAC
* * *
78393663 CAGGGGTATTTTGGTAATTTTACAAAT
1 CAAGGGTATTTCGGTAATTTTACAAAC
** * *
78393690 TGAGGGTATTTCTGTAATTTCACAAAC
1 CAAGGGTATTTCGGTAATTTTACAAAC
*
78393717 C-AGTGGTATTTTGGTAATTTTACAAAC
1 CAAG-GGTATTTCGGTAATTTTACAAAC
* * *
78393744 TAGGGGTATTTTGGTAATTTTACAAA-
1 CAAGGGTATTTCGGTAATTTTACAAAC
* *
78393770 CTAGGGTATTTTGGTAATTTTACAAAC
1 CAAGGGTATTTCGGTAATTTTACAAAC
* * * *
78393797 TAGGGGTATTTCAGTAATTTCACAA
1 CAAGGGTATTTCGGTAATTTTACAA
78393822 TCGAGGGTAA
Statistics
Matches: 187, Mismatches: 50, Indels: 10
0.76 0.20 0.04
Matches are distributed among these distances:
26 25 0.13
27 135 0.72
28 14 0.07
29 13 0.07
ACGTcount: A:0.31, C:0.10, G:0.20, T:0.39
Consensus pattern (27 bp):
CAAGGGTATTTCGGTAATTTTACAAAC
Found at i:78393706 original size:54 final size:52
Alignment explanation
Indices: 78393639--78393816 Score: 218
Period size: 54 Copynumber: 3.3 Consensus size: 52
78393629 AGAAAGTTAA
* *
78393639 GGGTATTTCTGTAACTTTGTAAATCAGGGGTATTTTGGTAATTTTACAAA-TTG
1 GGGTATTTCTGTAA-TTT-TAAAACAGGGGTATTTTGGTAATTTTACAAACTAG
* *
78393692 AGGGTATTTCTGTAATTTCACAAACCAGTGGTATTTTGGTAATTTTACAAACTAG
1 -GGGTATTTCTGTAATTTTA-AAA-CAGGGGTATTTTGGTAATTTTACAAACTAG
78393747 GGGTATTT-TGGTAATTTTACAAACTA-GGGTATTTTGGTAATTTTACAAACTAG
1 GGGTATTTCT-GTAATTTTA-AAAC-AGGGGTATTTTGGTAATTTTACAAACTAG
*
78393800 GGGTATTTCAGTAATTT
1 GGGTATTTCTGTAATTT
78393817 CACAATCGAG
Statistics
Matches: 111, Mismatches: 7, Indels: 13
0.85 0.05 0.10
Matches are distributed among these distances:
52 1 0.01
53 48 0.43
54 60 0.54
55 2 0.02
ACGTcount: A:0.29, C:0.09, G:0.21, T:0.42
Consensus pattern (52 bp):
GGGTATTTCTGTAATTTTAAAACAGGGGTATTTTGGTAATTTTACAAACTAG
Found at i:78393828 original size:27 final size:27
Alignment explanation
Indices: 78393664--78393821 Score: 214
Period size: 27 Copynumber: 5.9 Consensus size: 27
78393654 TTTGTAAATC
78393664 AGGGGTATTTTGGTAATTTTACAAA-T
1 AGGGGTATTTTGGTAATTTTACAAACT
* * *
78393690 TGAGGGTATTTCT-GTAATTTCACAAACC
1 AG-GGGTATTT-TGGTAATTTTACAAACT
*
78393718 AGTGGTATTTTGGTAATTTTACAAACT
1 AGGGGTATTTTGGTAATTTTACAAACT
78393745 AGGGGTATTTTGGTAATTTTACAAACT
1 AGGGGTATTTTGGTAATTTTACAAACT
78393772 A-GGGTATTTTGGTAATTTTACAAACT
1 AGGGGTATTTTGGTAATTTTACAAACT
** *
78393798 AGGGGTATTTCAGTAATTTCACAA
1 AGGGGTATTTTGGTAATTTTACAA
78393822 TCGAGGGTAA
Statistics
Matches: 116, Mismatches: 11, Indels: 9
0.85 0.08 0.07
Matches are distributed among these distances:
26 28 0.24
27 86 0.74
28 2 0.02
ACGTcount: A:0.30, C:0.09, G:0.20, T:0.40
Consensus pattern (27 bp):
AGGGGTATTTTGGTAATTTTACAAACT
Found at i:78393843 original size:53 final size:53
Alignment explanation
Indices: 78393666--78393830 Score: 233
Period size: 53 Copynumber: 3.1 Consensus size: 53
78393656 TGTAAATCAG
* *
78393666 GGGTATTTTGGTAATTTTACAAA-TTGAGGGTATTTCTGTAATTTCACAAACCA
1 GGGTATTTTGGTAATTTTACAAACTAG-GGGTATTTCAGTAATTTCACAAACCA
** * *
78393719 GTGGTATTTTGGTAATTTTACAAACTAGGGGTATTTTGGTAATTTTACAAACTA
1 G-GGTATTTTGGTAATTTTACAAACTAGGGGTATTTCAGTAATTTCACAAACCA
* *
78393773 GGGTATTTTGGTAATTTTACAAACTAGGGGTATTTCAGTAATTTCACAATCGA
1 GGGTATTTTGGTAATTTTACAAACTAGGGGTATTTCAGTAATTTCACAAACCA
78393826 GGGTA
1 GGGTA
78393831 AAATAATAAT
Statistics
Matches: 100, Mismatches: 10, Indels: 4
0.88 0.09 0.04
Matches are distributed among these distances:
53 53 0.53
54 45 0.45
55 2 0.02
ACGTcount: A:0.30, C:0.10, G:0.21, T:0.39
Consensus pattern (53 bp):
GGGTATTTTGGTAATTTTACAAACTAGGGGTATTTCAGTAATTTCACAAACCA
Found at i:78393854 original size:27 final size:27
Alignment explanation
Indices: 78393820--78394181 Score: 438
Period size: 27 Copynumber: 13.3 Consensus size: 27
78393810 GTAATTTCAC
** * *
78393820 AATCGAGGGTAAAATAATAATTTTGTA
1 AATCGAGGGTAAAATGGTAATTCTATA
*
78393847 AA-CTGAGGGTAAAATGGTAATTTTATA
1 AATC-GAGGGTAAAATGGTAATTCTATA
* * *
78393874 AATCAAGGGTAAAATAGTAATTCTGTA
1 AATCGAGGGTAAAATGGTAATTCTATA
78393901 AATCGAGGGTAAAATGGTAATTCTATA
1 AATCGAGGGTAAAATGGTAATTCTATA
* * *
78393928 AATCGAGGGTAAAATGATAATTTTGTA
1 AATCGAGGGTAAAATGGTAATTCTATA
* **
78393955 AATCGAGGGTGAAACAGTAATTCTATA
1 AATCGAGGGTAAAATGGTAATTCTATA
* *
78393982 AATTGAGGGTAAAACGGTAATTCTATA
1 AATCGAGGGTAAAATGGTAATTCTATA
78394009 AATCGAGGGTAAAATGGTAATTCTATA
1 AATCGAGGGTAAAATGGTAATTCTATA
* *
78394036 AATCGAAGGTAAAATGGTAATTCTGTA
1 AATCGAGGGTAAAATGGTAATTCTATA
78394063 AATCGAGGGTAAAATGGTAATTCTATA
1 AATCGAGGGTAAAATGGTAATTCTATA
* * *
78394090 AATCGAGAGTAAAATGGTAATTTTGTA
1 AATCGAGGGTAAAATGGTAATTCTATA
* * * *
78394117 AATAGAGGGTAAAAAACGGTAATTTTGTA
1 AATCGAGGGT--AAAATGGTAATTCTATA
* *
78394146 AATCGAGGGTAAAATGGTAATTTTACA
1 AATCGAGGGTAAAATGGTAATTCTATA
*
78394173 AATTGAGGG
1 AATCGAGGG
78394182 CATTTTAGTA
Statistics
Matches: 292, Mismatches: 39, Indels: 8
0.86 0.12 0.02
Matches are distributed among these distances:
26 1 0.00
27 265 0.91
28 1 0.00
29 25 0.09
ACGTcount: A:0.41, C:0.06, G:0.22, T:0.30
Consensus pattern (27 bp):
AATCGAGGGTAAAATGGTAATTCTATA
Found at i:78394554 original size:13 final size:13
Alignment explanation
Indices: 78394536--78394562 Score: 54
Period size: 13 Copynumber: 2.1 Consensus size: 13
78394526 GCACGCCATA
78394536 CAGCGAAAGGGAT
1 CAGCGAAAGGGAT
78394549 CAGCGAAAGGGAT
1 CAGCGAAAGGGAT
78394562 C
1 C
78394563 CCTCCAACAT
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:0.37, C:0.19, G:0.37, T:0.07
Consensus pattern (13 bp):
CAGCGAAAGGGAT
Found at i:78398001 original size:20 final size:23
Alignment explanation
Indices: 78397965--78398009 Score: 69
Period size: 20 Copynumber: 2.1 Consensus size: 23
78397955 TGCAATATTA
78397965 AAAATGCTAACTAAAATGT-CTT
1 AAAATGCTAACTAAAATGTACTT
78397987 AAAATGC-AA-TAAAATGTACTT
1 AAAATGCTAACTAAAATGTACTT
78398008 AA
1 AA
78398010 GTACAAGTAA
Statistics
Matches: 22, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
20 8 0.36
21 7 0.32
22 7 0.32
ACGTcount: A:0.51, C:0.11, G:0.09, T:0.29
Consensus pattern (23 bp):
AAAATGCTAACTAAAATGTACTT
Found at i:78400375 original size:26 final size:26
Alignment explanation
Indices: 78400317--78400427 Score: 163
Period size: 26 Copynumber: 4.3 Consensus size: 26
78400307 CTGGAGGCCT
* *
78400317 AGCCTTTTTTAAT-AACTGGGGCA-A
1 AGCCCTTTTCAATAAACTGGGGCATA
78400341 AGCCCTTTTCAATAAACTGGGGCATA
1 AGCCCTTTTCAATAAACTGGGGCATA
**
78400367 AGCCCTTTTCGGTAAACTGGGGCATA
1 AGCCCTTTTCAATAAACTGGGGCATA
*
78400393 AGCCCTTTTCAATAAACTAGGGCATA
1 AGCCCTTTTCAATAAACTGGGGCATA
78400419 AGCCCTTTT
1 AGCCCTTTT
78400428 GCACTTCCTC
Statistics
Matches: 78, Mismatches: 7, Indels: 2
0.90 0.08 0.02
Matches are distributed among these distances:
24 11 0.14
25 10 0.13
26 57 0.73
ACGTcount: A:0.28, C:0.23, G:0.20, T:0.30
Consensus pattern (26 bp):
AGCCCTTTTCAATAAACTGGGGCATA
Found at i:78401255 original size:27 final size:27
Alignment explanation
Indices: 78401225--78401288 Score: 76
Period size: 27 Copynumber: 2.4 Consensus size: 27
78401215 GGGCACATTC
78401225 GTCATTTTACCATACAGGGG-TATTAAG
1 GTCATTTTACCATACAGGGGCT-TTAAG
* * *
78401252 GTCACTTTACCCTACAGGGGCTTTACG
1 GTCATTTTACCATACAGGGGCTTTAAG
*
78401279 GTCTTTTTAC
1 GTCATTTTAC
78401289 TTAATAGGGG
Statistics
Matches: 31, Mismatches: 5, Indels: 2
0.82 0.13 0.05
Matches are distributed among these distances:
27 30 0.97
28 1 0.03
ACGTcount: A:0.22, C:0.22, G:0.20, T:0.36
Consensus pattern (27 bp):
GTCATTTTACCATACAGGGGCTTTAAG
Found at i:78401522 original size:81 final size:81
Alignment explanation
Indices: 78401431--78401665 Score: 312
Period size: 81 Copynumber: 2.9 Consensus size: 81
78401421 TTTGTAAATC
*
78401431 AGGGGTATTTTGGTAATTTTACAAATTGAAGGTATTTCGGTAATTTCACAAACC-AGTGGTATTT
1 AGGGGTATTTTGGTAATTTTACAAATTGAGGGTATTTCGGTAATTTCACAAACCAAG-GGTATTT
* *
78401495 TGGTAATTTTACAAACT
65 TAGCAATTTTACAAACT
* *
78401512 AGGGGCATTTTGGTAATTTTACAAATTGAGGGTATTTCGGTAATTTTACAAACCAAGGGTATTTT
1 AGGGGTATTTTGGTAATTTTACAAATTGAGGGTATTTCGGTAATTTCACAAACCAAGGGTATTTT
78401577 AGCAATTTTACAAACT
66 AGCAATTTTACAAACT
** * * *** **
78401593 A-GGGTATTTTGGTAATTTTACTGATCGAGGGTATTTTGGTAATTTTGTAAACTGAGGGTATTTT
1 AGGGGTATTTTGGTAATTTTACAAATTGAGGGTATTTCGGTAATTTCACAAACCAAGGGTATTTT
*
78401657 AGTAATTTT
66 AGCAATTTT
78401666 GTAAATCAAG
Statistics
Matches: 138, Mismatches: 15, Indels: 3
0.88 0.10 0.02
Matches are distributed among these distances:
80 62 0.45
81 74 0.54
82 2 0.01
ACGTcount: A:0.29, C:0.09, G:0.21, T:0.41
Consensus pattern (81 bp):
AGGGGTATTTTGGTAATTTTACAAATTGAGGGTATTTCGGTAATTTCACAAACCAAGGGTATTTT
AGCAATTTTACAAACT
Found at i:78401795 original size:27 final size:27
Alignment explanation
Indices: 78401425--78401826 Score: 231
Period size: 27 Copynumber: 14.9 Consensus size: 27
78401415 TATAACTTTG
78401425 TAAATC-AGGGGTATTTTGGTAATTTTA
1 TAAATCGA-GGGTATTTTGGTAATTTTA
* * * * *
78401452 CAAATTGAAGGTATTTCGGTAATTTCA
1 TAAATCGAGGGTATTTTGGTAATTTTA
* *
78401479 CAAA-CCAGTGGTATTTTGGTAATTTTA
1 TAAATCGAG-GGTATTTTGGTAATTTTA
* * *
78401506 CAAA-CTAGGGGCATTTTGGTAATTTTA
1 TAAATCGA-GGGTATTTTGGTAATTTTA
* * *
78401533 CAAATTGAGGGTATTTCGGTAATTTTA
1 TAAATCGAGGGTATTTTGGTAATTTTA
* * * * *
78401560 CAAACCAAGGGTATTTTAGCAATTTTA
1 TAAATCGAGGGTATTTTGGTAATTTTA
* *
78401587 CAAA-CTAGGGTATTTTGGTAATTTTA
1 TAAATCGAGGGTATTTTGGTAATTTTA
* *
78401613 CT-GATCGAGGGTATTTTGGTAATTTTG
1 -TAAATCGAGGGTATTTTGGTAATTTTA
* *
78401640 TAAA-CTGAGGGTATTTTAGTAATTTTG
1 TAAATC-GAGGGTATTTTGGTAATTTTA
* ***** * *
78401667 TAAATCAAGGGTAAAACAGTAATTCTG
1 TAAATCGAGGGTATTTTGGTAATTTTA
* **** *
78401694 TAAATCAAGGGTAAAACGGTAATTCTA
1 TAAATCGAGGGTATTTTGGTAATTTTA
***** *
78401721 TAAATCGAGGGTAAAACAGTAATTCTA
1 TAAATCGAGGGTATTTTGGTAATTTTA
****
78401748 TAAATCGAGGGTAAAACGGTAATTTTA
1 TAAATCGAGGGTATTTTGGTAATTTTA
*
78401775 TAAATCGAGGGTACTTTGGTAATTTTA
1 TAAATCGAGGGTATTTTGGTAATTTTA
* * * **
78401802 CAATTTGAGGGTATTTCAGTAATTT
1 TAAATCGAGGGTATTTTGGTAATTT
78401827 GGTAAACTAA
Statistics
Matches: 313, Mismatches: 53, Indels: 18
0.82 0.14 0.05
Matches are distributed among these distances:
26 23 0.07
27 286 0.91
28 4 0.01
ACGTcount: A:0.33, C:0.09, G:0.21, T:0.37
Consensus pattern (27 bp):
TAAATCGAGGGTATTTTGGTAATTTTA
Found at i:78404140 original size:37 final size:36
Alignment explanation
Indices: 78404075--78404238 Score: 179
Period size: 37 Copynumber: 4.4 Consensus size: 36
78404065 TGTTTTGGAA
* * * * *
78404075 TGTTTTCGGTTGGACTAGCTCCTATGAGCATCTAGCG
1 TGTTATCGG-TGGATTAGCTCTTATGAGCATCTGGTG
*
78404112 TGTTATCGAGTGGATTAGCTCTTATGAGCATTTGGTG
1 TGTTATCG-GTGGATTAGCTCTTATGAGCATCTGGTG
* *
78404149 TGTTATTGGGTGGATTAGCACTTATGAGCATCTGGTG
1 TGTTA-TCGGTGGATTAGCTCTTATGAGCATCTGGTG
*
78404186 TGTTATCGGTTGGATTAGCTCTTATGAGAGAT-TGGTG
1 TGTTATCGG-TGGATTAGCTCTTATGAG-CATCTGGTG
78404223 TGTT-TCGGTTGGATTA
1 TGTTATCGG-TGGATTA
78404239 TCTATGTACT
Statistics
Matches: 111, Mismatches: 12, Indels: 9
0.84 0.09 0.07
Matches are distributed among these distances:
36 15 0.14
37 91 0.82
38 5 0.05
ACGTcount: A:0.18, C:0.12, G:0.30, T:0.40
Consensus pattern (36 bp):
TGTTATCGGTGGATTAGCTCTTATGAGCATCTGGTG
Found at i:78410435 original size:45 final size:45
Alignment explanation
Indices: 78410384--78410474 Score: 146
Period size: 45 Copynumber: 2.0 Consensus size: 45
78410374 CCAAAACATG
*
78410384 TGCCACATACATCATGAACTCAGACCATAACTCAATGAGTTCAGA
1 TGCCACATACATCATGAACTCAGACCACAACTCAATGAGTTCAGA
* * *
78410429 TGCCACATATATCATGAACTTAGACCACAACTCAATGAGTTTAGA
1 TGCCACATACATCATGAACTCAGACCACAACTCAATGAGTTCAGA
78410474 T
1 T
78410475 CACATAGTTC
Statistics
Matches: 42, Mismatches: 4, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
45 42 1.00
ACGTcount: A:0.37, C:0.24, G:0.13, T:0.25
Consensus pattern (45 bp):
TGCCACATACATCATGAACTCAGACCACAACTCAATGAGTTCAGA
Found at i:78413712 original size:43 final size:43
Alignment explanation
Indices: 78413665--78413754 Score: 153
Period size: 43 Copynumber: 2.1 Consensus size: 43
78413655 ATTGAGATGT
*
78413665 GATTACATGTAAGACCATGTCTGGGACATTGGCATTGTATTGA
1 GATTACATGTAAGACCATGTCTGGGACATTGGCATCGTATTGA
* *
78413708 GATTACGTGTAAGACCATGTCTGGGACATTGGCATCGTATTGT
1 GATTACATGTAAGACCATGTCTGGGACATTGGCATCGTATTGA
78413751 GATT
1 GATT
78413755 TTGGGGAAGA
Statistics
Matches: 44, Mismatches: 3, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
43 44 1.00
ACGTcount: A:0.26, C:0.14, G:0.27, T:0.33
Consensus pattern (43 bp):
GATTACATGTAAGACCATGTCTGGGACATTGGCATCGTATTGA
Found at i:78413765 original size:43 final size:43
Alignment explanation
Indices: 78413675--78413787 Score: 145
Period size: 43 Copynumber: 2.6 Consensus size: 43
78413665 GATTACATGT
* * *
78413675 AAGACCATGTCTGGGACATTGGCATTGTATTGAGATTACGTGT
1 AAGACCATGTCTGGGACATTGGCATCGTATTGAGATTACGGGG
* **
78413718 AAGACCATGTCTGGGACATTGGCATCGTATTGTGATTTTGGGG
1 AAGACCATGTCTGGGACATTGGCATCGTATTGAGATTACGGGG
* * *
78413761 AAGACCCTGTCTGGGATAGTGGCATCG
1 AAGACCATGTCTGGGACATTGGCATCG
78413788 ATATGTATTT
Statistics
Matches: 61, Mismatches: 9, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
43 61 1.00
ACGTcount: A:0.23, C:0.16, G:0.31, T:0.30
Consensus pattern (43 bp):
AAGACCATGTCTGGGACATTGGCATCGTATTGAGATTACGGGG
Found at i:78414180 original size:19 final size:19
Alignment explanation
Indices: 78414158--78414202 Score: 72
Period size: 20 Copynumber: 2.3 Consensus size: 19
78414148 TGAATATGTT
78414158 TATATGATAGCTTTATTTG
1 TATATGATAGCTTTATTTG
*
78414177 TATATGGCTAGCTTTATTTG
1 TATAT-GATAGCTTTATTTG
78414197 TATATG
1 TATATG
78414203 GCTTACTAAG
Statistics
Matches: 24, Mismatches: 1, Indels: 2
0.89 0.04 0.07
Matches are distributed among these distances:
19 6 0.25
20 18 0.75
ACGTcount: A:0.24, C:0.07, G:0.18, T:0.51
Consensus pattern (19 bp):
TATATGATAGCTTTATTTG
Found at i:78414190 original size:20 final size:20
Alignment explanation
Indices: 78414165--78414205 Score: 82
Period size: 20 Copynumber: 2.0 Consensus size: 20
78414155 GTTTATATGA
78414165 TAGCTTTATTTGTATATGGC
1 TAGCTTTATTTGTATATGGC
78414185 TAGCTTTATTTGTATATGGC
1 TAGCTTTATTTGTATATGGC
78414205 T
1 T
78414206 TACTAAGCTT
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
20 21 1.00
ACGTcount: A:0.20, C:0.10, G:0.20, T:0.51
Consensus pattern (20 bp):
TAGCTTTATTTGTATATGGC
Found at i:78426494 original size:43 final size:43
Alignment explanation
Indices: 78426447--78426569 Score: 147
Period size: 43 Copynumber: 2.9 Consensus size: 43
78426437 ATCGAGATGT
* * *
78426447 GATTACATGTAAGACTATGTCTAGGACATTAGCATTGTATTGA
1 GATTACGTGTAAGACCATGTCTAGGACATTAGCATCGTATTGA
* * *
78426490 GATTACGTGTAAGACCATGTCTGGGACATTAGCATCGTGTTGT
1 GATTACGTGTAAGACCATGTCTAGGACATTAGCATCGTATTGA
* * * * *
78426533 GATTTCGTGTAAGACCCTATCTAGGACAGTGGCATCG
1 GATTACGTGTAAGACCATGTCTAGGACATTAGCATCG
78426570 ATATGTATTT
Statistics
Matches: 68, Mismatches: 12, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
43 68 1.00
ACGTcount: A:0.27, C:0.16, G:0.25, T:0.32
Consensus pattern (43 bp):
GATTACGTGTAAGACCATGTCTAGGACATTAGCATCGTATTGA
Found at i:78433300 original size:17 final size:17
Alignment explanation
Indices: 78433278--78433310 Score: 57
Period size: 17 Copynumber: 1.9 Consensus size: 17
78433268 TTTTTATCAT
*
78433278 TTATCATTTATCGGGCA
1 TTATCATTGATCGGGCA
78433295 TTATCATTGATCGGGC
1 TTATCATTGATCGGGC
78433311 TTTGTCAAAT
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
17 15 1.00
ACGTcount: A:0.21, C:0.18, G:0.21, T:0.39
Consensus pattern (17 bp):
TTATCATTGATCGGGCA
Found at i:78437301 original size:40 final size:40
Alignment explanation
Indices: 78437234--78437385 Score: 180
Period size: 40 Copynumber: 3.8 Consensus size: 40
78437224 GAACTAATAT
** * *
78437234 CCGAAGGCATTCGTGCGAGTTGCTATATCCGGGCTATGAC
1 CCGAAGGCATTTATGCGAGTCGCTATATCCGGGCTAAGAC
* * *
78437274 CCAAAGGCATTTATGCTAG-CGATTATATCCGGGCTAAGAC
1 CCGAAGGCATTTATGCGAGTCG-CTATATCCGGGCTAAGAC
* *
78437314 CCGAAGGCATTTGTGCGAGTTGCTATATCCGGGCTAAGAC
1 CCGAAGGCATTTATGCGAGTCGCTATATCCGGGCTAAGAC
* * *
78437354 CCGAAGGCATTTGTGCGAGTTGTTATATCCGG
1 CCGAAGGCATTTATGCGAGTCGCTATATCCGG
78437386 TTAAATCTCG
Statistics
Matches: 97, Mismatches: 13, Indels: 4
0.85 0.11 0.04
Matches are distributed among these distances:
39 1 0.01
40 95 0.98
41 1 0.01
ACGTcount: A:0.23, C:0.22, G:0.28, T:0.26
Consensus pattern (40 bp):
CCGAAGGCATTTATGCGAGTCGCTATATCCGGGCTAAGAC
Found at i:78437380 original size:80 final size:80
Alignment explanation
Indices: 78437234--78437385 Score: 234
Period size: 80 Copynumber: 1.9 Consensus size: 80
78437224 GAACTAATAT
* *
78437234 CCGAAGGCATTCGTGCGAGTTGCTATATCCGGGCTATGACCCAAAGGCATTTATGCTAGCGATTA
1 CCGAAGGCATTCGTGCGAGTTGCTATATCCGGGCTAAGACCCAAAGGCATTTATGCGAGCGATTA
78437299 TATCCGGGCTAAGAC
66 TATCCGGGCTAAGAC
* * * *
78437314 CCGAAGGCATTTGTGCGAGTTGCTATATCCGGGCTAAGACCCGAAGGCATTTGTGCGAGTTG-TT
1 CCGAAGGCATTCGTGCGAGTTGCTATATCCGGGCTAAGACCCAAAGGCATTTATGCGAG-CGATT
78437378 ATATCCGG
65 ATATCCGG
78437386 TTAAATCTCG
Statistics
Matches: 65, Mismatches: 6, Indels: 2
0.89 0.08 0.03
Matches are distributed among these distances:
80 64 0.98
81 1 0.02
ACGTcount: A:0.23, C:0.22, G:0.28, T:0.26
Consensus pattern (80 bp):
CCGAAGGCATTCGTGCGAGTTGCTATATCCGGGCTAAGACCCAAAGGCATTTATGCGAGCGATTA
TATCCGGGCTAAGAC
Found at i:78439677 original size:14 final size:14
Alignment explanation
Indices: 78439655--78439689 Score: 61
Period size: 14 Copynumber: 2.5 Consensus size: 14
78439645 ATGACATCTC
*
78439655 AGAGAAAGTCCATA
1 AGAGTAAGTCCATA
78439669 AGAGTAAGTCCATA
1 AGAGTAAGTCCATA
78439683 AGAGTAA
1 AGAGTAA
78439690 TATTGCACAT
Statistics
Matches: 20, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
14 20 1.00
ACGTcount: A:0.49, C:0.11, G:0.23, T:0.17
Consensus pattern (14 bp):
AGAGTAAGTCCATA
Found at i:78448312 original size:12 final size:11
Alignment explanation
Indices: 78448284--78448316 Score: 50
Period size: 10 Copynumber: 3.0 Consensus size: 11
78448274 GGGACCTAAT
78448284 TGTAAAATGT-
1 TGTAAAATGTG
78448294 TGTAAAATGTG
1 TGTAAAATGTG
78448305 TGGTAAAATGTG
1 T-GTAAAATGTG
78448317 AATAATGGAA
Statistics
Matches: 21, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
10 10 0.48
11 1 0.05
12 10 0.48
ACGTcount: A:0.36, C:0.00, G:0.27, T:0.36
Consensus pattern (11 bp):
TGTAAAATGTG
Found at i:78458562 original size:27 final size:27
Alignment explanation
Indices: 78458518--78458577 Score: 93
Period size: 27 Copynumber: 2.2 Consensus size: 27
78458508 ATACATCTCA
78458518 TAGGGGCATAACAATCATTTTATAAAC
1 TAGGGGCATAACAATCATTTTATAAAC
* * *
78458545 TAGGGGCATAATAGTCATTTTATCAAC
1 TAGGGGCATAACAATCATTTTATAAAC
78458572 TAGGGG
1 TAGGGG
78458578 GTCTAGGTAC
Statistics
Matches: 30, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
27 30 1.00
ACGTcount: A:0.35, C:0.13, G:0.22, T:0.30
Consensus pattern (27 bp):
TAGGGGCATAACAATCATTTTATAAAC
Found at i:78467297 original size:27 final size:27
Alignment explanation
Indices: 78467267--78467444 Score: 115
Period size: 27 Copynumber: 6.6 Consensus size: 27
78467257 ATATTGAGCC
* * *
78467267 CGCACACTCAGTGCTATACAATCAACT
1 CGCACACTTAGTGCTACACAATCAAAT
* **
78467294 CGCACACTTAGTGCCACGTAATCAAAT
1 CGCACACTTAGTGCTACACAATCAAAT
* * * *
78467321 CGCACACTTAGTGCTACATAGTTAGACT
1 CGCACACTTAGTGCTACACAATCA-AAT
** *** *
78467349 CGCACACTTAGTGCCGCATGGTCAATT
1 CGCACACTTAGTGCTACACAATCAAAT
* * **
78467376 CGCACACTTAGTGC-ATCATATTCATTT
1 CGCACACTTAGTGCTA-CACAATCAAAT
* * * *
78467403 CGCACACTTAGTGCAACATAGTCGAAT
1 CGCACACTTAGTGCTACACAATCAAAT
78467430 CGCACACTTAGTGCT
1 CGCACACTTAGTGCT
78467445 GTACAATTTA
Statistics
Matches: 123, Mismatches: 25, Indels: 6
0.80 0.16 0.04
Matches are distributed among these distances:
27 100 0.81
28 23 0.19
ACGTcount: A:0.29, C:0.29, G:0.16, T:0.26
Consensus pattern (27 bp):
CGCACACTTAGTGCTACACAATCAAAT
Found at i:78467360 original size:55 final size:55
Alignment explanation
Indices: 78467267--78467444 Score: 204
Period size: 54 Copynumber: 3.3 Consensus size: 55
78467257 ATATTGAGCC
* * *
78467267 CGCACACTCAGTGCTATACA-A-TCAACTCGCACACTTAGTGCCACGTAATCAAAT
1 CGCACACTTAGTGCTAT-CATATTCAACTCGCACACTTAGTGCCACATAGTCAAAT
* * *
78467321 CGCACACTTAGTGCTA-CATAGTT-AGACTCGCACACTTAGTGCCGCATGGTCAATT
1 CGCACACTTAGTGCTATCATA-TTCA-ACTCGCACACTTAGTGCCACATAGTCAAAT
** * *
78467376 CGCACACTTAGTGC-ATCATATTCATTTCGCACACTTAGTGCAACATAGTCGAAT
1 CGCACACTTAGTGCTATCATATTCAACTCGCACACTTAGTGCCACATAGTCAAAT
78467430 CGCACACTTAGTGCT
1 CGCACACTTAGTGCT
78467445 GTACAATTTA
Statistics
Matches: 104, Mismatches: 13, Indels: 13
0.80 0.10 0.10
Matches are distributed among these distances:
52 2 0.02
53 1 0.01
54 56 0.54
55 45 0.43
ACGTcount: A:0.29, C:0.29, G:0.16, T:0.26
Consensus pattern (55 bp):
CGCACACTTAGTGCTATCATATTCAACTCGCACACTTAGTGCCACATAGTCAAAT
Found at i:78467406 original size:82 final size:81
Alignment explanation
Indices: 78467288--78467443 Score: 215
Period size: 82 Copynumber: 1.9 Consensus size: 81
78467278 TGCTATACAA
* * *
78467288 TCAACTCGCACACTTAGTGCCACGTAATCAAATCGCACACTTAGTGCTACATAGTTAGACTCGCA
1 TCAACTCGCACACTTAGTGCCACATAATCAAATCGCACACTTAGTGCAACATAG-TAGAATCGCA
78467353 CACTTAGTGCCGCATGG
65 CACTTAGTGCCGCATGG
* * ** *
78467370 TCAATTCGCACACTTAGTG-CATCATATTCATTTCGCACACTTAGTGCAACATAGTCGAATCGCA
1 TCAACTCGCACACTTAGTGCCA-CATAATCAAATCGCACACTTAGTGCAACATAGTAGAATCGCA
78467434 CACTTAGTGC
65 CACTTAGTGC
78467444 TGTACAATTT
Statistics
Matches: 65, Mismatches: 8, Indels: 3
0.86 0.11 0.04
Matches are distributed among these distances:
81 20 0.31
82 45 0.69
ACGTcount: A:0.28, C:0.28, G:0.17, T:0.27
Consensus pattern (81 bp):
TCAACTCGCACACTTAGTGCCACATAATCAAATCGCACACTTAGTGCAACATAGTAGAATCGCAC
ACTTAGTGCCGCATGG
Found at i:78475367 original size:27 final size:27
Alignment explanation
Indices: 78475337--78475514 Score: 115
Period size: 27 Copynumber: 6.6 Consensus size: 27
78475327 ATATTGAGCC
* * *
78475337 CGCACACTCAGTGCTATACAATCAACT
1 CGCACACTTAGTGCTACACAATCAAAT
* **
78475364 CGCACACTTAGTGCCACGTAATCAAAT
1 CGCACACTTAGTGCTACACAATCAAAT
* * * *
78475391 CGCACACTTAGTGCTACATAGTTAGACT
1 CGCACACTTAGTGCTACACAATCA-AAT
** *** *
78475419 CGCACACTTAGTGCCGCATGGTCAATT
1 CGCACACTTAGTGCTACACAATCAAAT
* * **
78475446 CGCACACTTAGTGC-ATCATATTCATTT
1 CGCACACTTAGTGCTA-CACAATCAAAT
* * * *
78475473 CGCACACTTAGTGCAACATAGTCGAAT
1 CGCACACTTAGTGCTACACAATCAAAT
78475500 CGCACACTTAGTGCT
1 CGCACACTTAGTGCT
78475515 GTACAATTTA
Statistics
Matches: 123, Mismatches: 25, Indels: 6
0.80 0.16 0.04
Matches are distributed among these distances:
27 100 0.81
28 23 0.19
ACGTcount: A:0.29, C:0.29, G:0.16, T:0.26
Consensus pattern (27 bp):
CGCACACTTAGTGCTACACAATCAAAT
Found at i:78475430 original size:55 final size:55
Alignment explanation
Indices: 78475337--78475514 Score: 204
Period size: 54 Copynumber: 3.3 Consensus size: 55
78475327 ATATTGAGCC
* * *
78475337 CGCACACTCAGTGCTATACA-A-TCAACTCGCACACTTAGTGCCACGTAATCAAAT
1 CGCACACTTAGTGCTAT-CATATTCAACTCGCACACTTAGTGCCACATAGTCAAAT
* * *
78475391 CGCACACTTAGTGCTA-CATAGTT-AGACTCGCACACTTAGTGCCGCATGGTCAATT
1 CGCACACTTAGTGCTATCATA-TTCA-ACTCGCACACTTAGTGCCACATAGTCAAAT
** * *
78475446 CGCACACTTAGTGC-ATCATATTCATTTCGCACACTTAGTGCAACATAGTCGAAT
1 CGCACACTTAGTGCTATCATATTCAACTCGCACACTTAGTGCCACATAGTCAAAT
78475500 CGCACACTTAGTGCT
1 CGCACACTTAGTGCT
78475515 GTACAATTTA
Statistics
Matches: 104, Mismatches: 13, Indels: 13
0.80 0.10 0.10
Matches are distributed among these distances:
52 2 0.02
53 1 0.01
54 56 0.54
55 45 0.43
ACGTcount: A:0.29, C:0.29, G:0.16, T:0.26
Consensus pattern (55 bp):
CGCACACTTAGTGCTATCATATTCAACTCGCACACTTAGTGCCACATAGTCAAAT
Found at i:78475476 original size:82 final size:81
Alignment explanation
Indices: 78475358--78475513 Score: 215
Period size: 82 Copynumber: 1.9 Consensus size: 81
78475348 TGCTATACAA
* * *
78475358 TCAACTCGCACACTTAGTGCCACGTAATCAAATCGCACACTTAGTGCTACATAGTTAGACTCGCA
1 TCAACTCGCACACTTAGTGCCACATAATCAAATCGCACACTTAGTGCAACATAG-TAGAATCGCA
78475423 CACTTAGTGCCGCATGG
65 CACTTAGTGCCGCATGG
* * ** *
78475440 TCAATTCGCACACTTAGTG-CATCATATTCATTTCGCACACTTAGTGCAACATAGTCGAATCGCA
1 TCAACTCGCACACTTAGTGCCA-CATAATCAAATCGCACACTTAGTGCAACATAGTAGAATCGCA
78475504 CACTTAGTGC
65 CACTTAGTGC
78475514 TGTACAATTT
Statistics
Matches: 65, Mismatches: 8, Indels: 3
0.86 0.11 0.04
Matches are distributed among these distances:
81 20 0.31
82 45 0.69
ACGTcount: A:0.28, C:0.28, G:0.17, T:0.27
Consensus pattern (81 bp):
TCAACTCGCACACTTAGTGCCACATAATCAAATCGCACACTTAGTGCAACATAGTAGAATCGCAC
ACTTAGTGCCGCATGG
Found at i:78484628 original size:21 final size:20
Alignment explanation
Indices: 78484604--78484642 Score: 60
Period size: 21 Copynumber: 1.9 Consensus size: 20
78484594 AAACTTGTCT
78484604 ATCTATCAACAAACATTCATA
1 ATCTATCAACAAAC-TTCATA
*
78484625 ATCTATCAAGAAACTTCA
1 ATCTATCAACAAACTTCA
78484643 AAATACACAT
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
20 4 0.24
21 13 0.76
ACGTcount: A:0.46, C:0.23, G:0.03, T:0.28
Consensus pattern (20 bp):
ATCTATCAACAAACTTCATA
Found at i:78487593 original size:19 final size:18
Alignment explanation
Indices: 78487554--78487595 Score: 57
Period size: 19 Copynumber: 2.3 Consensus size: 18
78487544 TCTATTTCCA
* *
78487554 AAATAAATATTATTGATT
1 AAATTAATATTATTAATT
78487572 AAATTAATATTAATTAATT
1 AAATTAATATT-ATTAATT
78487591 AAATT
1 AAATT
78487596 TCTAATTAAA
Statistics
Matches: 21, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
18 10 0.48
19 11 0.52
ACGTcount: A:0.52, C:0.00, G:0.02, T:0.45
Consensus pattern (18 bp):
AAATTAATATTATTAATT
Found at i:78487603 original size:16 final size:16
Alignment explanation
Indices: 78487569--78487612 Score: 54
Period size: 16 Copynumber: 2.8 Consensus size: 16
78487559 AATATTATTG
* *
78487569 ATTAAATTAATAT-TA
1 ATTAAATAAATTTCTA
*
78487584 ATTAATTAAATTTCTA
1 ATTAAATAAATTTCTA
78487600 ATTAAATAAATTT
1 ATTAAATAAATTT
78487613 TTTCAACCCA
Statistics
Matches: 24, Mismatches: 4, Indels: 1
0.83 0.14 0.03
Matches are distributed among these distances:
15 10 0.42
16 14 0.58
ACGTcount: A:0.50, C:0.02, G:0.00, T:0.48
Consensus pattern (16 bp):
ATTAAATAAATTTCTA
Found at i:78489107 original size:14 final size:15
Alignment explanation
Indices: 78489081--78489109 Score: 51
Period size: 14 Copynumber: 2.0 Consensus size: 15
78489071 TGGATATATT
78489081 AAGAAATTAGTATAA
1 AAGAAATTAGTATAA
78489096 AAGAAA-TAGTATAA
1 AAGAAATTAGTATAA
78489110 TGGAATGAAT
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
14 8 0.57
15 6 0.43
ACGTcount: A:0.62, C:0.00, G:0.14, T:0.24
Consensus pattern (15 bp):
AAGAAATTAGTATAA
Found at i:78490698 original size:42 final size:42
Alignment explanation
Indices: 78490651--78490734 Score: 159
Period size: 42 Copynumber: 2.0 Consensus size: 42
78490641 TGTAGCCTTC
78490651 AGTAAGATGAAACTAAAAAGGCAGAACACGATACATGAATGT
1 AGTAAGATGAAACTAAAAAGGCAGAACACGATACATGAATGT
*
78490693 AGTAAGATGAAACTAGAAAGGCAGAACACGATACATGAATGT
1 AGTAAGATGAAACTAAAAAGGCAGAACACGATACATGAATGT
78490735 GAGATAGACC
Statistics
Matches: 41, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
42 41 1.00
ACGTcount: A:0.49, C:0.12, G:0.23, T:0.17
Consensus pattern (42 bp):
AGTAAGATGAAACTAAAAAGGCAGAACACGATACATGAATGT
Found at i:78506055 original size:15 final size:15
Alignment explanation
Indices: 78506035--78506069 Score: 70
Period size: 15 Copynumber: 2.3 Consensus size: 15
78506025 TATATTATAA
78506035 TGTAATTTTATCTAC
1 TGTAATTTTATCTAC
78506050 TGTAATTTTATCTAC
1 TGTAATTTTATCTAC
78506065 TGTAA
1 TGTAA
78506070 CATTTTTTTA
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 20 1.00
ACGTcount: A:0.29, C:0.11, G:0.09, T:0.51
Consensus pattern (15 bp):
TGTAATTTTATCTAC
Found at i:78508195 original size:10 final size:10
Alignment explanation
Indices: 78508180--78508209 Score: 60
Period size: 10 Copynumber: 3.0 Consensus size: 10
78508170 TCTCAAATTT
78508180 ATTATTTTAA
1 ATTATTTTAA
78508190 ATTATTTTAA
1 ATTATTTTAA
78508200 ATTATTTTAA
1 ATTATTTTAA
78508210 CTTTTTATAT
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
10 20 1.00
ACGTcount: A:0.40, C:0.00, G:0.00, T:0.60
Consensus pattern (10 bp):
ATTATTTTAA
Found at i:78508565 original size:18 final size:17
Alignment explanation
Indices: 78508529--78508573 Score: 54
Period size: 17 Copynumber: 2.5 Consensus size: 17
78508519 TTGAGTAAGA
* *
78508529 GAGAAAAAAAAGGAAAG
1 GAGAAAAGAAAGCAAAG
78508546 GAGAAAAGAAAGTCAAAG
1 GAGAAAAGAAAG-CAAAG
78508564 GAGGAAAAGA
1 GA-GAAAAGA
78508574 GTGGGTATAA
Statistics
Matches: 24, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
17 11 0.46
18 6 0.25
19 7 0.29
ACGTcount: A:0.64, C:0.02, G:0.31, T:0.02
Consensus pattern (17 bp):
GAGAAAAGAAAGCAAAG
Found at i:78514035 original size:44 final size:45
Alignment explanation
Indices: 78513967--78514058 Score: 159
Period size: 44 Copynumber: 2.1 Consensus size: 45
78513957 ATCCAATTAC
*
78513967 ATGTATCGCATCCATTATGAACTCGGACCAATTCAACGAGATCAG
1 ATGTATCGCATCCATAATGAACTCGGACCAATTCAACGAGATCAG
*
78514012 ATGT-TCGCATCCATAATGAACTCGGACCAATTCAACGAGCTCAG
1 ATGTATCGCATCCATAATGAACTCGGACCAATTCAACGAGATCAG
78514056 ATG
1 ATG
78514059 CCTCATATAT
Statistics
Matches: 45, Mismatches: 2, Indels: 1
0.94 0.04 0.02
Matches are distributed among these distances:
44 41 0.91
45 4 0.09
ACGTcount: A:0.33, C:0.25, G:0.18, T:0.24
Consensus pattern (45 bp):
ATGTATCGCATCCATAATGAACTCGGACCAATTCAACGAGATCAG
Found at i:78514818 original size:20 final size:18
Alignment explanation
Indices: 78514781--78514831 Score: 59
Period size: 20 Copynumber: 2.7 Consensus size: 18
78514771 CTATAGCAAC
78514781 TCACAATTT-CAATTATT
1 TCACAATTTACAATTATT
78514798 TCACACATTTACAACTTATT
1 TCACA-ATTTACAA-TTATT
*
78514818 TTACAACTTTACAA
1 TCACAA-TTTACAA
78514832 AATAGCCCTT
Statistics
Matches: 29, Mismatches: 1, Indels: 5
0.83 0.03 0.14
Matches are distributed among these distances:
17 5 0.17
18 4 0.14
19 4 0.14
20 16 0.55
ACGTcount: A:0.37, C:0.22, G:0.00, T:0.41
Consensus pattern (18 bp):
TCACAATTTACAATTATT
Found at i:78540310 original size:20 final size:20
Alignment explanation
Indices: 78540273--78540310 Score: 58
Period size: 20 Copynumber: 1.9 Consensus size: 20
78540263 TATTAATAGA
* *
78540273 TATTTATTATTTATAAAAGG
1 TATTTATTAATTAAAAAAGG
78540293 TATTTATTAATTAAAAAA
1 TATTTATTAATTAAAAAA
78540311 TTATATTATA
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
20 16 1.00
ACGTcount: A:0.47, C:0.00, G:0.05, T:0.47
Consensus pattern (20 bp):
TATTTATTAATTAAAAAAGG
Found at i:78540966 original size:37 final size:37
Alignment explanation
Indices: 78540903--78540974 Score: 85
Period size: 37 Copynumber: 1.9 Consensus size: 37
78540893 ATTATTATGG
*
78540903 TATTGAATTGAATAAAAATTTATGAATTATT-AGTGAT
1 TATTGAATTGAATAAAAATATATGAA-TATTGAGTGAT
* *
78540940 TATTGATATTGAAT-AGAATATGTGAATATTGAGTG
1 TATTGA-ATTGAATAAAAATATATGAATATTGAGTG
78540975 GAAAATTGAA
Statistics
Matches: 30, Mismatches: 3, Indels: 4
0.81 0.08 0.11
Matches are distributed among these distances:
36 4 0.13
37 19 0.63
38 7 0.23
ACGTcount: A:0.40, C:0.00, G:0.18, T:0.42
Consensus pattern (37 bp):
TATTGAATTGAATAAAAATATATGAATATTGAGTGAT
Found at i:78541493 original size:18 final size:18
Alignment explanation
Indices: 78541472--78541506 Score: 52
Period size: 18 Copynumber: 1.9 Consensus size: 18
78541462 CTGAATAATT
*
78541472 GACTGTTACAGAATAAAC
1 GACTGATACAGAATAAAC
*
78541490 GACTGATACTGAATAAA
1 GACTGATACAGAATAAA
78541507 TGAATATTAT
Statistics
Matches: 15, Mismatches: 2, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
18 15 1.00
ACGTcount: A:0.46, C:0.14, G:0.17, T:0.23
Consensus pattern (18 bp):
GACTGATACAGAATAAAC
Found at i:78546413 original size:20 final size:20
Alignment explanation
Indices: 78546376--78546413 Score: 58
Period size: 20 Copynumber: 1.9 Consensus size: 20
78546366 TATTAATAGA
* *
78546376 TATTTATTATTTATAAAAGG
1 TATTTATTAATTAAAAAAGG
78546396 TATTTATTAATTAAAAAA
1 TATTTATTAATTAAAAAA
78546414 TTATATTATA
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
20 16 1.00
ACGTcount: A:0.47, C:0.00, G:0.05, T:0.47
Consensus pattern (20 bp):
TATTTATTAATTAAAAAAGG
Found at i:78546807 original size:19 final size:19
Alignment explanation
Indices: 78546776--78546816 Score: 66
Period size: 19 Copynumber: 2.2 Consensus size: 19
78546766 AAAAGCAGGG
78546776 AAAGAAAGAAAGAAAGGAGA
1 AAAGAAAGAAAGAAAGGA-A
78546796 AAAGAAAG-AAGAAAGGAA
1 AAAGAAAGAAAGAAAGGAA
78546814 AAA
1 AAA
78546817 TTGAAGGGTT
Statistics
Matches: 21, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
18 4 0.19
19 9 0.43
20 8 0.38
ACGTcount: A:0.73, C:0.00, G:0.27, T:0.00
Consensus pattern (19 bp):
AAAGAAAGAAAGAAAGGAA
Found at i:78547582 original size:18 final size:18
Alignment explanation
Indices: 78547561--78547601 Score: 55
Period size: 18 Copynumber: 2.3 Consensus size: 18
78547551 CAACTACCGA
78547561 TACTGAATAAATGAATAT
1 TACTGAATAAATGAATAT
* * *
78547579 TACTGATTAACTGATTAT
1 TACTGAATAAATGAATAT
78547597 TACTG
1 TACTG
78547602 TTGACTGACT
Statistics
Matches: 20, Mismatches: 3, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
18 20 1.00
ACGTcount: A:0.39, C:0.10, G:0.12, T:0.39
Consensus pattern (18 bp):
TACTGAATAAATGAATAT
Found at i:78551676 original size:46 final size:47
Alignment explanation
Indices: 78551481--78551689 Score: 173
Period size: 46 Copynumber: 4.5 Consensus size: 47
78551471 TGTGTGAGCT
* ** * *
78551481 AGTGTAAGACATGTCTGGGACATGCATCGGCCACA-TTATGAGAGCC
1 AGTGTAAGACATGTCTGGGACATGCATCGGCTACAGAGATGATAGAC
** *
78551527 AGTGTAAGACCATGTCTGCGG-CATGGCATCGGC-ATTGAGATGA-AGGC
1 AGTGTAAGA-CATGTCTG-GGACAT-GCATCGGCTACAGAGATGATAGAC
* *
78551574 TAGTGTAAGACATGTCTGGCACATGCATCGGCCT-C-GAGACG-TAAGAC
1 -AGTGTAAGACATGTCTGGGACATGCATCGG-CTACAGAGATGAT-AGAC
* *
78551621 AGTATAAGACATGTCTGGGACATGCATCGGCTA-AGAGATGATAGTC
1 AGTGTAAGACATGTCTGGGACATGCATCGGCTACAGAGATGATAGAC
* *
78551667 AGTGCAAGACCATGTTTGGGACA
1 AGTGTAAGA-CATGTCTGGGACA
78551690 AGGCATTGAC
Statistics
Matches: 133, Mismatches: 16, Indels: 27
0.76 0.09 0.15
Matches are distributed among these distances:
45 2 0.02
46 65 0.49
47 43 0.32
48 23 0.17
ACGTcount: A:0.29, C:0.20, G:0.30, T:0.22
Consensus pattern (47 bp):
AGTGTAAGACATGTCTGGGACATGCATCGGCTACAGAGATGATAGAC
Found at i:78551738 original size:140 final size:141
Alignment explanation
Indices: 78551485--78551744 Score: 334
Period size: 140 Copynumber: 1.9 Consensus size: 141
78551475 TGAGCTAGTG
** *
78551485 TAAGACATGTCTGGGACATGCATCGGCCACATTATGAGAGCCAGTGTAAGACCATGTCTGCGGCA
1 TAAGACATGTCTGGGACATGCATCGGCCACAAGATGAGAGCCAGTGCAAGACCATGTCTGCGGCA
* *
78551550 TGGCATCGGCATTGAGATGAAGGCTAGTGTAAGACATGTCTGGCACAT-GCATCGGCCTCGAGAC
66 AGGCATCGACATTGAGATGAAGGCTAGTGTAAGACATGTCTGGCACATGGCATCGGCCTCGAGAC
78551614 GTAAGACAGTA
131 GTAAGACAGTA
* * * *
78551625 TAAGACATGTCTGGGACATGCATCGGCTA-AGAGATGATAGTCAGTGCAAGACCATGTTTG-GGA
1 TAAGACATGTCTGGGACATGCATCGGCCACA-AGATGAGAGCCAGTGCAAGACCATGTCTGCGG-
* *
78551688 CAAGGCATTGAC-TTGAGCTATG-A-GCTAGTGTAAGACCATGTCTGGGACATGGCATCG
64 CAAGGCATCGACATTGAG--ATGAAGGCTAGTGTAAGA-CATGTCTGGCACATGGCATCG
78551745 ACACTTAACC
Statistics
Matches: 103, Mismatches: 11, Indels: 11
0.82 0.09 0.09
Matches are distributed among these distances:
139 20 0.19
140 74 0.72
141 9 0.09
ACGTcount: A:0.28, C:0.20, G:0.30, T:0.23
Consensus pattern (141 bp):
TAAGACATGTCTGGGACATGCATCGGCCACAAGATGAGAGCCAGTGCAAGACCATGTCTGCGGCA
AGGCATCGACATTGAGATGAAGGCTAGTGTAAGACATGTCTGGCACATGGCATCGGCCTCGAGAC
GTAAGACAGTA
Found at i:78555155 original size:9 final size:9
Alignment explanation
Indices: 78555141--78555169 Score: 58
Period size: 9 Copynumber: 3.2 Consensus size: 9
78555131 TGGCTCTAAT
78555141 AGAGTTGAA
1 AGAGTTGAA
78555150 AGAGTTGAA
1 AGAGTTGAA
78555159 AGAGTTGAA
1 AGAGTTGAA
78555168 AG
1 AG
78555170 CATAGTTGCA
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
9 20 1.00
ACGTcount: A:0.45, C:0.00, G:0.34, T:0.21
Consensus pattern (9 bp):
AGAGTTGAA
Found at i:78559246 original size:46 final size:47
Alignment explanation
Indices: 78559051--78559259 Score: 173
Period size: 46 Copynumber: 4.5 Consensus size: 47
78559041 TGTGTGAGCT
* ** * *
78559051 AGTGTAAGACATGTCTGGGACATGCATCGGCCACA-TTATGAGAGCC
1 AGTGTAAGACATGTCTGGGACATGCATCGGCTACAGAGATGATAGAC
** *
78559097 AGTGTAAGACCATGTCTGCGG-CATGGCATCGG-TATTGAGATGA-AGGC
1 AGTGTAAGA-CATGTCTG-GGACAT-GCATCGGCTACAGAGATGATAGAC
* *
78559144 TAGTGTAAGACATGTCTGGCACATGCATCGGCCT-C-GAGACG-TAAGAC
1 -AGTGTAAGACATGTCTGGGACATGCATCGG-CTACAGAGATGAT-AGAC
* *
78559191 AGTATAAGACATGTCTGGGACATGCATCGGCTA-AGAGATGATAGTC
1 AGTGTAAGACATGTCTGGGACATGCATCGGCTACAGAGATGATAGAC
* *
78559237 AGTGCAAGACCATGTTTGGGACA
1 AGTGTAAGA-CATGTCTGGGACA
78559260 AGGCATTGAC
Statistics
Matches: 132, Mismatches: 17, Indels: 27
0.75 0.10 0.15
Matches are distributed among these distances:
45 2 0.02
46 65 0.49
47 42 0.32
48 23 0.17
ACGTcount: A:0.29, C:0.19, G:0.30, T:0.22
Consensus pattern (47 bp):
AGTGTAAGACATGTCTGGGACATGCATCGGCTACAGAGATGATAGAC
Found at i:78559308 original size:140 final size:141
Alignment explanation
Indices: 78559055--78559314 Score: 327
Period size: 140 Copynumber: 1.9 Consensus size: 141
78559045 TGAGCTAGTG
** *
78559055 TAAGACATGTCTGGGACATGCATCGGCCACATTATGAGAGCCAGTGTAAGACCATGTCTGCGGCA
1 TAAGACATGTCTGGGACATGCATCGGCCACAAGATGAGAGCCAGTGCAAGACCATGTCTGCGGCA
*
78559120 TGGCATCGGTATTGAGATGAAGGCTAGTGTAAGACATGTCTGGCACAT-GCATCGGCCTCGAGAC
66 AGGCATCGGTATTGAGATGAAGGCTAGTGTAAGACATGTCTGGCACATGGCATCGGCCTCGAGAC
78559184 GTAAGACAGTA
131 GTAAGACAGTA
* * * *
78559195 TAAGACATGTCTGGGACATGCATCGGCTA-AGAGATGATAGTCAGTGCAAGACCATGTTTG-GGA
1 TAAGACATGTCTGGGACATGCATCGGCCACA-AGATGAGAGCCAGTGCAAGACCATGTCTGCGG-
* *
78559258 CAAGGCAT-TG-ACTTGAGCTATG-A-GCTAGTGTAAGACCATGTCTGGGACATGGCATCG
64 CAAGGCATCGGTA-TTGAG--ATGAAGGCTAGTGTAAGA-CATGTCTGGCACATGGCATCG
78559315 ACACTTAACC
Statistics
Matches: 103, Mismatches: 10, Indels: 13
0.82 0.08 0.10
Matches are distributed among these distances:
138 1 0.01
139 21 0.20
140 72 0.70
141 9 0.09
ACGTcount: A:0.28, C:0.19, G:0.30, T:0.23
Consensus pattern (141 bp):
TAAGACATGTCTGGGACATGCATCGGCCACAAGATGAGAGCCAGTGCAAGACCATGTCTGCGGCA
AGGCATCGGTATTGAGATGAAGGCTAGTGTAAGACATGTCTGGCACATGGCATCGGCCTCGAGAC
GTAAGACAGTA
Found at i:78563921 original size:17 final size:18
Alignment explanation
Indices: 78563899--78563933 Score: 54
Period size: 18 Copynumber: 2.0 Consensus size: 18
78563889 TATGCCTCTA
78563899 AGAATAA-CAGAACATAT
1 AGAATAACCAGAACATAT
*
78563916 AGAATAACCAGAAGATAT
1 AGAATAACCAGAACATAT
78563934 TGTTGTAATA
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
17 7 0.44
18 9 0.56
ACGTcount: A:0.57, C:0.11, G:0.14, T:0.17
Consensus pattern (18 bp):
AGAATAACCAGAACATAT
Found at i:78571135 original size:27 final size:27
Alignment explanation
Indices: 78571103--78571154 Score: 95
Period size: 27 Copynumber: 1.9 Consensus size: 27
78571093 CCGCTAAATC
*
78571103 GGGGAATCAGCACTTAGCAACCCCTCG
1 GGGGAATCAGCACATAGCAACCCCTCG
78571130 GGGGAATCAGCACATAGCAACCCCT
1 GGGGAATCAGCACATAGCAACCCCT
78571155 TTCACATTTC
Statistics
Matches: 24, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
27 24 1.00
ACGTcount: A:0.29, C:0.33, G:0.25, T:0.13
Consensus pattern (27 bp):
GGGGAATCAGCACATAGCAACCCCTCG
Found at i:78571339 original size:26 final size:26
Alignment explanation
Indices: 78571309--78571359 Score: 93
Period size: 26 Copynumber: 2.0 Consensus size: 26
78571299 ACCAATGAAC
*
78571309 CGGGGAATCAGCACTTAGCAACCCCT
1 CGGGGAATCAGCACATAGCAACCCCT
78571335 CGGGGAATCAGCACATAGCAACCCC
1 CGGGGAATCAGCACATAGCAACCCC
78571360 CTTTTCACAT
Statistics
Matches: 24, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
26 24 1.00
ACGTcount: A:0.29, C:0.35, G:0.24, T:0.12
Consensus pattern (26 bp):
CGGGGAATCAGCACATAGCAACCCCT
Found at i:78571340 original size:104 final size:105
Alignment explanation
Indices: 78571069--78571438 Score: 615
Period size: 104 Copynumber: 3.6 Consensus size: 105
78571059 TAACCGTTAT
* * ** *
78571069 TGGTGGATCTCGCACTTAGCACCACCGCTAAATCGGGGAATCAGCACTTAGCAACCCCTCGGGGG
1 TGGTGGATCACGCACATAGCACCACCAATGAATCGGGGAATCAGCACTTAGCAACCCCTCGGGGG
78571134 AATCAGCACATAGCAA-CCCC-TTTCACATTTCAAAGATA
66 AATCAGCACATAGCAACCCCCTTTTCACATTTCAAAGATA
*
78571172 TGGTGGAT-ATCGCACTTAGCACCACCAATGAA-CGGGGAATCAGCACTTAGCAACCCCTCGGGG
1 TGGTGGATCA-CGCACATAGCACCACCAATGAATCGGGGAATCAGCACTTAGCAACCCCTCGGGG
78571235 GAATCAGCACATAGCAACCCCCTTTTCACATTTCAAAGATA
65 GAATCAGCACATAGCAACCCCCTTTTCACATTTCAAAGATA
*
78571276 TGGTGGATCACGCACATAGCACCACCAATGAACCGGGGAATCAGCACTTAGCAACCCCTC-GGGG
1 TGGTGGATCACGCACATAGCACCACCAATGAATCGGGGAATCAGCACTTAGCAACCCCTCGGGGG
78571340 AATCAGCACATAGCAACCCCCTTTTCACATTTCAAAGATA
66 AATCAGCACATAGCAACCCCCTTTTCACATTTCAAAGATA
**
78571380 TGGTGGATCACGCACATAGCACCACCAATGAATCGGGGAATCAGCACACAGCAACCCCT
1 TGGTGGATCACGCACATAGCACCACCAATGAATCGGGGAATCAGCACTTAGCAACCCCT
78571439 TTATATACAA
Statistics
Matches: 254, Mismatches: 8, Indels: 9
0.94 0.03 0.03
Matches are distributed among these distances:
102 48 0.19
103 31 0.12
104 147 0.58
105 28 0.11
ACGTcount: A:0.31, C:0.30, G:0.20, T:0.19
Consensus pattern (105 bp):
TGGTGGATCACGCACATAGCACCACCAATGAATCGGGGAATCAGCACTTAGCAACCCCTCGGGGG
AATCAGCACATAGCAACCCCCTTTTCACATTTCAAAGATA
Found at i:78578454 original size:26 final size:26
Alignment explanation
Indices: 78578424--78578474 Score: 93
Period size: 26 Copynumber: 2.0 Consensus size: 26
78578414 ACCAATGAAC
*
78578424 CGGGGAATCAGCACTTAGCAACCCCT
1 CGGGGAATCAGCACATAGCAACCCCT
78578450 CGGGGAATCAGCACATAGCAACCCC
1 CGGGGAATCAGCACATAGCAACCCC
78578475 CTTTCACATT
Statistics
Matches: 24, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
26 24 1.00
ACGTcount: A:0.29, C:0.35, G:0.24, T:0.12
Consensus pattern (26 bp):
CGGGGAATCAGCACATAGCAACCCCT
Found at i:78578481 original size:102 final size:104
Alignment explanation
Indices: 78578187--78578550 Score: 609
Period size: 102 Copynumber: 3.6 Consensus size: 104
78578177 TAACCGTTAT
* *
78578187 TGGTGGATCTCGCACTTAGCACCACCACTGAATCGGGGAATCAGCACTTAGCAACCCCTCGGGGG
1 TGGTGGATATCGCACTTAGCACCACCAATGAATCGGGGAATCAGCACTTAGCAACCCCTCGGGGG
78578252 AATCAGCACATAGCAACCCCCTTT--CATTTCAAAGATA
66 AATCAGCACATAGCAACCCCCTTTCACATTTCAAAGATA
78578289 TGGTGGATATCGCACTTAGCACCACCAATGAA-CGGGGAATCAGCACTTAGCAACCCCTCGGGGG
1 TGGTGGATATCGCACTTAGCACCACCAATGAATCGGGGAATCAGCACTTAGCAACCCCTCGGGGG
78578353 AATCAGCACATAGCAACCCCCTTTCACATTTCAAAGATA
66 AATCAGCACATAGCAACCCCCTTTCACATTTCAAAGATA
*
78578392 TGGTGGATATCGCAC-TAGCACCACCAATGAACCGGGGAATCAGCACTTAGCAACCCCTC-GGGG
1 TGGTGGATATCGCACTTAGCACCACCAATGAATCGGGGAATCAGCACTTAGCAACCCCTCGGGGG
78578455 AATCAGCACATAGCAACCCCCTTTCACATTTCAAAGATA
66 AATCAGCACATAGCAACCCCCTTTCACATTTCAAAGATA
* **
78578494 TGGTGGATCA-CGCACATAGCACCACC-AT-AATCGGGGAATCAGCACACAGCAACCCCT
1 TGGTGGAT-ATCGCACTTAGCACCACCAATGAATCGGGGAATCAGCACTTAGCAACCCCT
78578551 TTATATACAA
Statistics
Matches: 252, Mismatches: 5, Indels: 11
0.94 0.02 0.04
Matches are distributed among these distances:
101 82 0.33
102 104 0.41
103 66 0.26
ACGTcount: A:0.30, C:0.30, G:0.20, T:0.19
Consensus pattern (104 bp):
TGGTGGATATCGCACTTAGCACCACCAATGAATCGGGGAATCAGCACTTAGCAACCCCTCGGGGG
AATCAGCACATAGCAACCCCCTTTCACATTTCAAAGATA
Found at i:78579999 original size:19 final size:17
Alignment explanation
Indices: 78579965--78580016 Score: 68
Period size: 17 Copynumber: 2.9 Consensus size: 17
78579955 TTTTTATCAT
78579965 TTATCATTTATCAGGCA
1 TTATCATTTATCAGGCA
78579982 TTATCATTTATTTCAGGCA
1 TTATCATTTA--TCAGGCA
* *
78580001 TTTTCACTTATCAGGC
1 TTATCATTTATCAGGC
78580017 TTTGTCAGAT
Statistics
Matches: 31, Mismatches: 2, Indels: 4
0.84 0.05 0.11
Matches are distributed among these distances:
17 16 0.52
19 15 0.48
ACGTcount: A:0.25, C:0.19, G:0.12, T:0.44
Consensus pattern (17 bp):
TTATCATTTATCAGGCA
Found at i:78584988 original size:23 final size:23
Alignment explanation
Indices: 78584961--78585008 Score: 96
Period size: 23 Copynumber: 2.1 Consensus size: 23
78584951 TAAAAGGACT
78584961 ATATTGCATGAGTTGTAAAATAG
1 ATATTGCATGAGTTGTAAAATAG
78584984 ATATTGCATGAGTTGTAAAATAG
1 ATATTGCATGAGTTGTAAAATAG
78585007 AT
1 AT
78585009 GTTAAGTATG
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
23 25 1.00
ACGTcount: A:0.40, C:0.04, G:0.21, T:0.35
Consensus pattern (23 bp):
ATATTGCATGAGTTGTAAAATAG
Found at i:78585384 original size:46 final size:47
Alignment explanation
Indices: 78585326--78585497 Score: 144
Period size: 46 Copynumber: 3.7 Consensus size: 47
78585316 GGGCTATTGT
*
78585326 GAGCTAGTGTAAGACATGTCTGGGATATGCATTGGCCACATT-G-TGA
1 GAGCTAGTGTAAGACATGTCTGGGACATGCATTGGCC-CATTAGATGA
* * * *
78585372 GAGCCAGTGTAAGATCATGTCAGGGACATGGCATCGG--TATTGAGATGA
1 GAGCTAGTGTAAGA-CATGTCTGGGACAT-GCATTGGCCCATT-AGATGA
* * *
78585420 GTGCTAGTGTAAGACATGTCTGGGACATGCATTGG-CC-TCGAGACGTA
1 GAGCTAGTGTAAGACATGTCTGGGACATGCATTGGCCCAT-TAGATG-A
*
78585467 -AG-TCAGTGTAAGACATGTCTAGGACATGCAT
1 GAGCT-AGTGTAAGACATGTCTGGGACATGCAT
78585498 CGGCTACAAG
Statistics
Matches: 103, Mismatches: 14, Indels: 18
0.76 0.10 0.13
Matches are distributed among these distances:
45 4 0.04
46 51 0.50
47 27 0.26
48 21 0.20
ACGTcount: A:0.27, C:0.16, G:0.31, T:0.26
Consensus pattern (47 bp):
GAGCTAGTGTAAGACATGTCTGGGACATGCATTGGCCCATTAGATGA
Found at i:78586292 original size:29 final size:29
Alignment explanation
Indices: 78586259--78586316 Score: 107
Period size: 29 Copynumber: 2.0 Consensus size: 29
78586249 TTTTTGAGCT
78586259 TCAAAATTTTAGCAACTCTAAACCTTTGC
1 TCAAAATTTTAGCAACTCTAAACCTTTGC
*
78586288 TCAAAATTTTAGCAACTCTAAGCCTTTGC
1 TCAAAATTTTAGCAACTCTAAACCTTTGC
78586317 AAGTAAGTGA
Statistics
Matches: 28, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
29 28 1.00
ACGTcount: A:0.33, C:0.24, G:0.09, T:0.34
Consensus pattern (29 bp):
TCAAAATTTTAGCAACTCTAAACCTTTGC
Found at i:78591154 original size:45 final size:45
Alignment explanation
Indices: 78591090--78591192 Score: 188
Period size: 45 Copynumber: 2.2 Consensus size: 45
78591080 ATGTTTCAAT
78591090 GTAAATTTGATATATTTACTATGATTGCCGAGGTGTTGAAAGTAA
1 GTAAATTTGATATATTTACTATGATTGCCGAGGTGTTGAAAGTAA
78591135 GTAAATTTGATATATTTACTATGATTGCCGAGGTGTTGAAAGTAA
1 GTAAATTTGATATATTTACTATGATTGCCGAGGTGTTGAAAGTAA
78591180 GTATAATTATGAT
1 GTA-AATT-TGAT
78591193 GATTTAAATG
Statistics
Matches: 56, Mismatches: 0, Indels: 2
0.97 0.00 0.03
Matches are distributed among these distances:
45 48 0.86
46 4 0.07
47 4 0.07
ACGTcount: A:0.34, C:0.06, G:0.21, T:0.39
Consensus pattern (45 bp):
GTAAATTTGATATATTTACTATGATTGCCGAGGTGTTGAAAGTAA
Found at i:78591530 original size:68 final size:66
Alignment explanation
Indices: 78591457--78591604 Score: 165
Period size: 67 Copynumber: 2.2 Consensus size: 66
78591447 CATCATGTGT
* * * * *
78591457 ACAAGAGAGCTACGAGACATTATGATGTAGCTAGGTTGCATGGGTGATACTA-TG-TGTACACCA
1 ACAAGAGAGCTACG-G-CA-TAT-ATGTAGCTAGGTCGCATGCGTGATACCAGTGAAGGACACCA
78591520 TGTAG
62 TGTAG
* * *
78591525 ACAAGAGAGCTACGGGATATATGTAGCTAGGTCGCATGCGTGGTTCCAGGTGAAGGACACCATGT
1 ACAAGAGAGCTACGGCATATATGTAGCTAGGTCGCATGCGTGATACCA-GTGAAGGACACCATGT
78591590 AG
65 AG
78591592 ACAAGAGAGCTAC
1 ACAAGAGAGCTAC
78591605 AAGATAAATT
Statistics
Matches: 69, Mismatches: 8, Indels: 7
0.82 0.10 0.08
Matches are distributed among these distances:
64 23 0.33
65 3 0.04
66 3 0.04
67 26 0.38
68 14 0.20
ACGTcount: A:0.31, C:0.17, G:0.30, T:0.22
Consensus pattern (66 bp):
ACAAGAGAGCTACGGCATATATGTAGCTAGGTCGCATGCGTGATACCAGTGAAGGACACCATGTA
G
Found at i:78593251 original size:50 final size:49
Alignment explanation
Indices: 78593139--78593357 Score: 209
Period size: 50 Copynumber: 4.5 Consensus size: 49
78593129 GGGTGTTACA
* * * * * *
78593139 GTAAGACTATGTCTGGGACATGGCATCAG-CTTG-ATAT--GTGTCAGT
1 GTAAGACCATGTCTAGGACATGGCATCGGCCTTGAAGATGAGAGCCAGT
*
78593184 GTAAGACCATGTCTGGGACATGGCATCGGCAC-TGACAGATGAGAGCCAGT
1 GTAAGACCATGTCTAGGACATGGCATCGGC-CTTGA-AGATGAGAGCCAGT
* * * *
78593234 GTAAGACCATGTTTGGGACATGGCATCGGCCTTGATATATGAGAGTCAGT
1 GTAAGACCATGTCTAGGACATGGCATCGGCCTTGA-AGATGAGAGCCAGT
* * * *
78593284 GTAAGACCATGTCTAGGATATGGCATCGACCTTGATG-TGTGAGCCAGT
1 GTAAGACCATGTCTAGGACATGGCATCGGCCTTGAAGATGAGAGCCAGT
*
78593332 GTAAAACCATGT-TCAGGACATGGCAT
1 GTAAGACCATGTCT-AGGACATGGCAT
78593358 TGGAATCTTA
Statistics
Matches: 147, Mismatches: 19, Indels: 13
0.82 0.11 0.07
Matches are distributed among these distances:
45 27 0.18
46 2 0.01
47 2 0.01
48 34 0.23
49 1 0.01
50 81 0.55
ACGTcount: A:0.27, C:0.18, G:0.29, T:0.26
Consensus pattern (49 bp):
GTAAGACCATGTCTAGGACATGGCATCGGCCTTGAAGATGAGAGCCAGT
Found at i:78593307 original size:100 final size:93
Alignment explanation
Indices: 78593139--78593357 Score: 251
Period size: 98 Copynumber: 2.3 Consensus size: 93
78593129 GGGTGTTACA
* * * *
78593139 GTAAGACTATGTCTGGGACATGGCATCAGCTTGATATGTGTCAGTGTAAGACCATGTCTGGGACA
1 GTAAGACCATGTTTGGGACATGGCATCAGCTTGATATGAGTCAGTGTAAGACCATGTCTAGGACA
*
78593204 TGGCATCGGCAC-TGACAGATGAGAGCCAGT
66 TGGCATCGAC-CTTGA-AG-TGAGAGCCAGT
*
78593234 GTAAGACCATGTTTGGGACATGGCATCGGCCTTGATATATGAGAGTCAGTGTAAGACCATGTCTA
1 GTAAGACCATGTTTGGGACATGGCATCAG-CTTG--ATAT--GAGTCAGTGTAAGACCATGTCTA
* * *
78593299 GGATATGGCATCGACCTTGATGTGTGAGCCAGT
61 GGACATGGCATCGACCTTGAAGTGAGAGCCAGT
* **
78593332 GTAAAACCATGTTCAGGACATGGCAT
1 GTAAGACCATGTTTGGGACATGGCAT
78593358 TGGAATCTTA
Statistics
Matches: 106, Mismatches: 12, Indels: 9
0.83 0.09 0.07
Matches are distributed among these distances:
95 26 0.25
96 4 0.04
98 37 0.35
99 2 0.02
100 37 0.35
ACGTcount: A:0.27, C:0.18, G:0.29, T:0.26
Consensus pattern (93 bp):
GTAAGACCATGTTTGGGACATGGCATCAGCTTGATATGAGTCAGTGTAAGACCATGTCTAGGACA
TGGCATCGACCTTGAAGTGAGAGCCAGT
Found at i:78593351 original size:98 final size:100
Alignment explanation
Indices: 78593178--78593357 Score: 258
Period size: 100 Copynumber: 1.8 Consensus size: 100
78593168 CTTGATATGT
* * *
78593178 GTCAGTGTAAGACCATGTCTGGGACATGGCATCGGCACTGACAGATGAGAGCCAGTGTAAGACCA
1 GTCAGTGTAAGACCATGTCTAGGACATGGCATCGACACTGACAGATGAGAGCCAGTGTAAAACCA
**
78593243 TGTTTGGGACATGGCATCGGCCTTGATATATGAGA
66 TGTTCAGGACATGGCATCGGCCTTGATATATGAGA
* * *
78593278 GTCAGTGTAAGACCATGTCTAGGATATGGCATCGAC-CTTGA-TG-TGTGAGCCAGTGTAAAACC
1 GTCAGTGTAAGACCATGTCTAGGACATGGCATCGACAC-TGACAGATGAGAGCCAGTGTAAAACC
78593340 ATGTTCAGGACATGGCAT
65 ATGTTCAGGACATGGCAT
78593358 TGGAATCTTA
Statistics
Matches: 71, Mismatches: 8, Indels: 4
0.86 0.10 0.05
Matches are distributed among these distances:
98 33 0.46
99 2 0.03
100 36 0.51
ACGTcount: A:0.27, C:0.19, G:0.29, T:0.24
Consensus pattern (100 bp):
GTCAGTGTAAGACCATGTCTAGGACATGGCATCGACACTGACAGATGAGAGCCAGTGTAAAACCA
TGTTCAGGACATGGCATCGGCCTTGATATATGAGA
Found at i:78597066 original size:22 final size:21
Alignment explanation
Indices: 78597025--78597067 Score: 52
Period size: 22 Copynumber: 2.0 Consensus size: 21
78597015 TAGGTTTAAG
*
78597025 TTTAGTTTTCTCTAGGTTTTT
1 TTTAGTTTTCTCTAGATTTTT
78597046 TTTAGTTTTTCTCT-GTATTTTT
1 TTTAG-TTTTCTCTAG-ATTTTT
78597068 CTAGGGTTTT
Statistics
Matches: 19, Mismatches: 1, Indels: 3
0.83 0.04 0.13
Matches are distributed among these distances:
21 6 0.32
22 13 0.68
ACGTcount: A:0.09, C:0.09, G:0.12, T:0.70
Consensus pattern (21 bp):
TTTAGTTTTCTCTAGATTTTT
Found at i:78599991 original size:54 final size:54
Alignment explanation
Indices: 78599908--78600039 Score: 171
Period size: 54 Copynumber: 2.4 Consensus size: 54
78599898 TTTCCTTCAT
* *
78599908 ATTATGCCACAAAGG-TTGTCCATTTAAGAATC-ACCACAGAGGTTTTTCTTTCCC
1 ATTATGCCACAAAGGCAT-TCCATTCAAGAA-CAACCACAGAGGTTTTTCTTTCCC
* * *
78599962 ATTACT-CCACAAAGGCATTTCATTCAAGAACAACCATATAGGTTTTTCTTTCCC
1 ATTA-TGCCACAAAGGCATTCCATTCAAGAACAACCACAGAGGTTTTTCTTTCCC
78600016 ATTATGCCACAAAGGCATTCCATT
1 ATTATGCCACAAAGGCATTCCATT
78600040 TTTCGACATG
Statistics
Matches: 68, Mismatches: 6, Indels: 8
0.83 0.07 0.10
Matches are distributed among these distances:
53 2 0.03
54 64 0.94
55 2 0.03
ACGTcount: A:0.30, C:0.25, G:0.12, T:0.33
Consensus pattern (54 bp):
ATTATGCCACAAAGGCATTCCATTCAAGAACAACCACAGAGGTTTTTCTTTCCC
Found at i:78601460 original size:41 final size:41
Alignment explanation
Indices: 78601403--78601485 Score: 166
Period size: 41 Copynumber: 2.0 Consensus size: 41
78601393 CAAGGAATTC
78601403 TTATATTTAGTCAGCTTCCAATACTATACACATTCAAAACT
1 TTATATTTAGTCAGCTTCCAATACTATACACATTCAAAACT
78601444 TTATATTTAGTCAGCTTCCAATACTATACACATTCAAAACT
1 TTATATTTAGTCAGCTTCCAATACTATACACATTCAAAACT
78601485 T
1 T
78601486 ACTCACATGC
Statistics
Matches: 42, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
41 42 1.00
ACGTcount: A:0.36, C:0.22, G:0.05, T:0.37
Consensus pattern (41 bp):
TTATATTTAGTCAGCTTCCAATACTATACACATTCAAAACT
Found at i:78602258 original size:55 final size:55
Alignment explanation
Indices: 78602189--78602297 Score: 148
Period size: 55 Copynumber: 2.0 Consensus size: 55
78602179 TTAGAAGTAC
* **
78602189 GACAGTCGATTTAAACATATAATTAAT-CGATTCAAAAGAAACAGTATTCCAACAT
1 GACAATCGATTTAAACATATAAAAAATACG-TTCAAAAGAAACAGTATTCCAACAT
* **
78602244 GACAATCGATTTAAACATATAAAAAATATGTTCAAAAGAAGTAGTATTCCAACA
1 GACAATCGATTTAAACATATAAAAAATACGTTCAAAAGAAACAGTATTCCAACA
78602298 ATTAAGATGA
Statistics
Matches: 47, Mismatches: 6, Indels: 2
0.85 0.11 0.04
Matches are distributed among these distances:
55 46 0.98
56 1 0.02
ACGTcount: A:0.48, C:0.15, G:0.11, T:0.27
Consensus pattern (55 bp):
GACAATCGATTTAAACATATAAAAAATACGTTCAAAAGAAACAGTATTCCAACAT
Found at i:78602858 original size:22 final size:21
Alignment explanation
Indices: 78602814--78602883 Score: 63
Period size: 22 Copynumber: 3.2 Consensus size: 21
78602804 CTTTTTATAT
**
78602814 ATATTATTATATTACTTATAAA
1 ATATTATTATATTAAATA-AAA
78602836 ATATTATTACTATTAAATAAAA
1 ATATTATTA-TATTAAATAAAA
78602858 ATTAATTTATTAT-TT-AATAAAA
1 A-T-A-TTATTATATTAAATAAAA
78602880 ATAT
1 ATAT
78602884 CATTCAAAAG
Statistics
Matches: 42, Mismatches: 2, Indels: 11
0.76 0.04 0.20
Matches are distributed among these distances:
19 1 0.02
20 1 0.02
21 1 0.02
22 21 0.50
23 10 0.24
24 2 0.05
25 6 0.14
ACGTcount: A:0.50, C:0.03, G:0.00, T:0.47
Consensus pattern (21 bp):
ATATTATTATATTAAATAAAA
Found at i:78617809 original size:110 final size:109
Alignment explanation
Indices: 78617671--78617869 Score: 285
Period size: 110 Copynumber: 1.8 Consensus size: 109
78617661 TGTGGTTTTG
* * *
78617671 AAAGGTAATTTTTTTAAGTATTATTTATTTGTTTAGGATTTTG-GTTTACTTATTATTTATTTGA
1 AAAGGTAATTTTTTTAAGTATTAGTTATTTGTTTAGGATTTTGTG-TTACTTACTATTTATTTAA
78617735 TTTTGTGATTTTAGAAAGG-GAGGAGGCAACAATAAATTTTAATTT
65 TTTTGTGATTTT-GAAAGGAGAGGAGGCAACAATAAATTTTAATTT
* * * *
78617780 AAAGGTAATTTTTTGTAATTGTTAGTTATTTGTTTAGGGTTTTGTGTTACTTACTATTTGTTTAA
1 AAAGGTAATTTTTT-TAAGTATTAGTTATTTGTTTAGGATTTTGTGTTACTTACTATTTATTTAA
*
78617845 TTTTGTGATTTTGGAAGGAGAGGAG
65 TTTTGTGATTTTGAAAGGAGAGGAG
78617870 AGTAATTTTT
Statistics
Matches: 79, Mismatches: 8, Indels: 5
0.86 0.09 0.05
Matches are distributed among these distances:
109 19 0.24
110 59 0.75
111 1 0.01
ACGTcount: A:0.27, C:0.03, G:0.21, T:0.50
Consensus pattern (109 bp):
AAAGGTAATTTTTTTAAGTATTAGTTATTTGTTTAGGATTTTGTGTTACTTACTATTTATTTAAT
TTTGTGATTTTGAAAGGAGAGGAGGCAACAATAAATTTTAATTT
Found at i:78623502 original size:49 final size:47
Alignment explanation
Indices: 78623384--78623607 Score: 176
Period size: 47 Copynumber: 4.7 Consensus size: 47
78623374 AGGGTATAAT
* * *
78623384 GCCGATGCCATATCCCAAACATGGTCTTACACTGGCTCATCCATCAA
1 GCCGATGCCATGTCCCAAACATGGTCTTACACTGACTCATCAATCAA
* *
78623431 GTCGATGCCATGTCCCAGACATGGTCTTACACTGACT-ATCGAAAT-AGA
1 GCCGATGCCATGTCCCAAACATGGTCTTACACTGACTCATC--AATCA-A
* **
78623479 GCCCGATGCCATGTCCCAAACATGGTCTTACACTAGCTCTCA-CATATCTGT
1 G-CCGATGCCATGTCCCAAACATGGTCTTACACT-G-ACTCATCA-ATC-AA
* * * * *
78623530 GCCAATGCCATGTCCCAGACATGGTCTTAGACTAACACATC--TCGTAA
1 GCCGATGCCATGTCCCAAACATGGTCTTACACTGACTCATCAATC--AA
*
78623577 -TCGATG-CATGTCCCAAACAT-GTCTTACACTG
1 GCCGATGCCATGTCCCAAACATGGTCTTACACTG
78623608 GCATACAAAT
Statistics
Matches: 142, Mismatches: 23, Indels: 27
0.74 0.12 0.14
Matches are distributed among these distances:
44 9 0.06
45 13 0.09
46 9 0.06
47 35 0.25
48 7 0.05
49 32 0.23
50 32 0.23
51 4 0.03
52 1 0.01
ACGTcount: A:0.27, C:0.30, G:0.17, T:0.25
Consensus pattern (47 bp):
GCCGATGCCATGTCCCAAACATGGTCTTACACTGACTCATCAATCAA
Found at i:78623552 original size:50 final size:50
Alignment explanation
Indices: 78623435--78623563 Score: 149
Period size: 49 Copynumber: 2.6 Consensus size: 50
78623425 CATCAAGTCG
*
78623435 ATGCCATGTCCCAGACATGGTCTTACACT-GACTATCGAAATAGAGCCCG
1 ATGCCATGTCCCAGACATGGTCTTACACTAGACTATCGAAATAGAGCCCA
* * * *
78623484 ATGCCATGTCCCAAACATGGTCTTACACTAG-CTCTC-ACATATCTGTG-CCA
1 ATGCCATGTCCCAGACATGGTCTTACACTAGACTATCGA-A-AT-AGAGCCCA
*
78623534 ATGCCATGTCCCAGACATGGTCTTAGACTA
1 ATGCCATGTCCCAGACATGGTCTTACACTA
78623564 ACACATCTCG
Statistics
Matches: 69, Mismatches: 7, Indels: 7
0.83 0.08 0.08
Matches are distributed among these distances:
48 1 0.01
49 33 0.48
50 33 0.48
51 2 0.03
ACGTcount: A:0.27, C:0.29, G:0.18, T:0.26
Consensus pattern (50 bp):
ATGCCATGTCCCAGACATGGTCTTACACTAGACTATCGAAATAGAGCCCA
Found at i:78633359 original size:27 final size:27
Alignment explanation
Indices: 78633318--78633387 Score: 95
Period size: 27 Copynumber: 2.6 Consensus size: 27
78633308 CATTCGAGTA
* *
78633318 ATGAGACTGGGAGGTATATATGCCTAG
1 ATGAGACCGAGAGGTATATATGCCTAG
*
78633345 ATGAGACCGATAGGTATATATGCCTAG
1 ATGAGACCGAGAGGTATATATGCCTAG
* *
78633372 GTGAGACTGAGAGGTA
1 ATGAGACCGAGAGGTA
78633388 ACCTTAGGTG
Statistics
Matches: 37, Mismatches: 6, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
27 37 1.00
ACGTcount: A:0.31, C:0.11, G:0.33, T:0.24
Consensus pattern (27 bp):
ATGAGACCGAGAGGTATATATGCCTAG
Found at i:78633428 original size:43 final size:43
Alignment explanation
Indices: 78633368--78633471 Score: 147
Period size: 43 Copynumber: 2.4 Consensus size: 43
78633358 GTATATATGC
78633368 CTAGG-TGAGACTGAGAGGTAACCTTAGGTGATATCTTTCAGT
1 CTAGGATGAGACTGAGAGGTAACCTTAGGTGATATCTTTCAGT
* * *
78633410 CTAGGATGAGACTGAGAGGTAATCTTAGGTGGTATCTTTTAGT
1 CTAGGATGAGACTGAGAGGTAACCTTAGGTGATATCTTTCAGT
* * *
78633453 CTAGAATAAGACCGAGAGG
1 CTAGGATGAGACTGAGAGG
78633472 AGATTCTTAA
Statistics
Matches: 55, Mismatches: 6, Indels: 1
0.89 0.10 0.02
Matches are distributed among these distances:
42 5 0.09
43 50 0.91
ACGTcount: A:0.29, C:0.12, G:0.30, T:0.29
Consensus pattern (43 bp):
CTAGGATGAGACTGAGAGGTAACCTTAGGTGATATCTTTCAGT
Found at i:78633997 original size:16 final size:16
Alignment explanation
Indices: 78633976--78634006 Score: 62
Period size: 16 Copynumber: 1.9 Consensus size: 16
78633966 ATTAAAAGGT
78633976 TAATTTGGAAATTAGG
1 TAATTTGGAAATTAGG
78633992 TAATTTGGAAATTAG
1 TAATTTGGAAATTAG
78634007 AAAACGAAAT
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 15 1.00
ACGTcount: A:0.39, C:0.00, G:0.23, T:0.39
Consensus pattern (16 bp):
TAATTTGGAAATTAGG
Found at i:78638724 original size:43 final size:43
Alignment explanation
Indices: 78638638--78638725 Score: 149
Period size: 43 Copynumber: 2.0 Consensus size: 43
78638628 TTTATCATAT
**
78638638 ATTCACCAATCAACCACATATCACATCATCAAGGCGTTAACAC
1 ATTCACCAATCAACCACATATCACATCATCAAGGCACTAACAC
*
78638681 ATTCACCAATCAACCACATATCACATCATCAAGGCACTGACAC
1 ATTCACCAATCAACCACATATCACATCATCAAGGCACTAACAC
78638724 AT
1 AT
78638726 GCATGCATGG
Statistics
Matches: 42, Mismatches: 3, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
43 42 1.00
ACGTcount: A:0.40, C:0.33, G:0.07, T:0.20
Consensus pattern (43 bp):
ATTCACCAATCAACCACATATCACATCATCAAGGCACTAACAC
Found at i:78645914 original size:37 final size:37
Alignment explanation
Indices: 78645851--78645996 Score: 186
Period size: 37 Copynumber: 3.9 Consensus size: 37
78645841 AGCTCAGATG
* *
78645851 AAATCTCCACACGA-AGTTATCTGGTCTTACCCGGACA
1 AAATCTCCACAC-ATAGTCATCGGGTCTTACCCGGACA
78645888 AAATCTCCACACATAGTCATCGGGTCTTACCCGGACA
1 AAATCTCCACACATAGTCATCGGGTCTTACCCGGACA
* * ** *
78645925 TAATCTCCACACGTACCCATCGAGTCTTACCCGGACA
1 AAATCTCCACACATAGTCATCGGGTCTTACCCGGACA
* * *
78645962 TAATCTCCACACGTAATCATCGGGTCTTACCCGGA
1 AAATCTCCACACATAGTCATCGGGTCTTACCCGGA
78645997 ATATATTTCC
Statistics
Matches: 98, Mismatches: 10, Indels: 2
0.89 0.09 0.02
Matches are distributed among these distances:
36 1 0.01
37 97 0.99
ACGTcount: A:0.28, C:0.33, G:0.16, T:0.23
Consensus pattern (37 bp):
AAATCTCCACACATAGTCATCGGGTCTTACCCGGACA
Found at i:78646197 original size:48 final size:48
Alignment explanation
Indices: 78646138--78646378 Score: 392
Period size: 48 Copynumber: 5.0 Consensus size: 48
78646128 TATACACACG
* * * *
78646138 TCTCCTACATATTTCACACTAGCCCTTCGGCTTTACCACATATACGTA
1 TCTCATACATATTTCACATTAGCCATTCGGCTTTACCACATATACATA
*
78646186 TCTCATACATATTTCACACTAGCCATTCGGCTTTACCACATATACATA
1 TCTCATACATATTTCACATTAGCCATTCGGCTTTACCACATATACATA
* *
78646234 TCTCATATATATTTCACATTAGCCATTCGGCTTTATCACATATACATA
1 TCTCATACATATTTCACATTAGCCATTCGGCTTTACCACATATACATA
*
78646282 TCTCATACATATTTCACATTAGCCATTCGGCTTTACCACATATACCTA
1 TCTCATACATATTTCACATTAGCCATTCGGCTTTACCACATATACATA
* *
78646330 TCTCATACATATTTCACATTAGCCATTCAGTTTTACCACATATACATA
1 TCTCATACATATTTCACATTAGCCATTCGGCTTTACCACATATACATA
78646378 T
1 T
78646379 ATTTATCTTG
Statistics
Matches: 181, Mismatches: 12, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
48 181 1.00
ACGTcount: A:0.30, C:0.28, G:0.06, T:0.36
Consensus pattern (48 bp):
TCTCATACATATTTCACATTAGCCATTCGGCTTTACCACATATACATA
Found at i:78651774 original size:95 final size:95
Alignment explanation
Indices: 78651594--78651776 Score: 269
Period size: 95 Copynumber: 1.9 Consensus size: 95
78651584 TAGTTTTAAG
* * **
78651594 CCAAGTGAGAAAATAGTTATATATTTTATAATTTAATCAATATGTGAAATTGATAAATGTTGATG
1 CCAAGTGAGAAAATAGTTATATATTTTATAACTTAATCAACATGCCAAATTGATAAATGTTGATG
*
78651659 AAAGATATTTATAATATTAATGATTATAAA
66 AAAGATACTTATAATATTAATGATTATAAA
*
78651689 CCAAGTGAGAAAATAGTTATATATTTTATAACTTAATTAACATGCCAAATTGATAAATGTTGAT-
1 CCAAGTGAGAAAATAGTTATATATTTTATAACTTAATCAACATGCCAAATTGATAAATGTTGATG
* * *
78651753 AGAGAATACTTGTAATCTTAATGA
66 AAAG-ATACTTATAATATTAATGA
78651777 ATGGCTGAGA
Statistics
Matches: 78, Mismatches: 9, Indels: 2
0.88 0.10 0.02
Matches are distributed among these distances:
94 3 0.04
95 75 0.96
ACGTcount: A:0.44, C:0.06, G:0.13, T:0.37
Consensus pattern (95 bp):
CCAAGTGAGAAAATAGTTATATATTTTATAACTTAATCAACATGCCAAATTGATAAATGTTGATG
AAAGATACTTATAATATTAATGATTATAAA
Found at i:78652227 original size:21 final size:22
Alignment explanation
Indices: 78652202--78652244 Score: 54
Period size: 21 Copynumber: 2.0 Consensus size: 22
78652192 TTTGATGGAA
78652202 AATGTAATA-AGTAATT-AGAAT
1 AATGTAATATA-TAATTGAGAAT
*
78652223 AATGTGATATATAATTGAGAAT
1 AATGTAATATATAATTGAGAAT
78652245 TTAAATTTAA
Statistics
Matches: 19, Mismatches: 1, Indels: 3
0.83 0.04 0.13
Matches are distributed among these distances:
21 13 0.68
22 6 0.32
ACGTcount: A:0.49, C:0.00, G:0.16, T:0.35
Consensus pattern (22 bp):
AATGTAATATATAATTGAGAAT
Done.