Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: At_chr1
Parameters: 2 7 7 80 10 50 1000
Pmatch=0.80,Pindel=0.10
tuple sizes 0,4,5,7
tuple distances 0, 29, 159, 1000
Length: 106989029
ACGTcount: A:0.31, C:0.17, G:0.17, T:0.31
Warning! 3754247 characters in sequence are not A, C, G, or T
File 114 of 322
Found at i:37230626 original size:16 final size:17
Alignment explanation
Indices: 37230595--37230628 Score: 52
Period size: 16 Copynumber: 2.0 Consensus size: 17
37230585 GGGGTTTTCA
37230595 TTCTTTTCTTCTTTTGTT
1 TTCTTTTC-TCTTTTGTT
37230613 TTCTTTTC-CTTTTGTT
1 TTCTTTTCTCTTTTGTT
37230629 CTTTTCGCCT
Statistics
Matches: 16, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
16 8 0.50
18 8 0.50
ACGTcount: A:0.00, C:0.18, G:0.06, T:0.76
Consensus pattern (17 bp):
TTCTTTTCTCTTTTGTT
Found at i:37236556 original size:16 final size:15
Alignment explanation
Indices: 37236532--37236561 Score: 51
Period size: 16 Copynumber: 1.9 Consensus size: 15
37236522 AACTGTTTTA
37236532 TTACAAATTTCACTC
1 TTACAAATTTCACTC
37236547 TTACATAATTTCACT
1 TTACA-AATTTCACT
37236562 TAATCCATTC
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
15 5 0.36
16 9 0.64
ACGTcount: A:0.33, C:0.23, G:0.00, T:0.43
Consensus pattern (15 bp):
TTACAAATTTCACTC
Found at i:37237006 original size:151 final size:150
Alignment explanation
Indices: 37236765--37237053 Score: 416
Period size: 151 Copynumber: 1.9 Consensus size: 150
37236755 GAAGCTATCC
* * * * *
37236765 GGTATGCATATTAGCTTGCACTTAATACTAAACATACGACCAACAATCTGGTACATGTAGTAGCC
1 GGTATGCACAGTAGCCTGCACTTAATACTAAACATACGACCAACAATCTGATACACGTAGTAGCC
*
37236830 TGCACTTAGCACTACAAACGTGACCTAACCATCTGATAAATGTAGTAGCCTGCACTTAGTACTAC
66 TGCACTTAGCACTACAAACGTGACCTAACCATCTGATAAACGTAGTAGCCTGCACTTAGTACTAC
37236895 ACACGTGATTGAAGTTGTCG
131 ACACGTGATTGAAGTTGTCG
* * ** * *
37236915 GGTATGCACAGTAGCCTGCACTTAGTACTACACATGTGACCTAACCATTTGATACACGTAGTAGC
1 GGTATGCACAGTAGCCTGCACTTAATACTAAACATACGACC-AACAATCTGATACACGTAGTAGC
* * * * *
37236980 CTGCACTTAGTACTACACATGTGACCTAACCATTTGATACACGTAGTAGCCTGCACTTAGTACTA
65 CTGCACTTAGCACTACAAACGTGACCTAACCATCTGATAAACGTAGTAGCCTGCACTTAGTACTA
37237045 CACACGTGA
130 CACACGTGA
37237054 CCTAAAACCA
Statistics
Matches: 121, Mismatches: 17, Indels: 1
0.87 0.12 0.01
Matches are distributed among these distances:
150 34 0.28
151 87 0.72
ACGTcount: A:0.31, C:0.24, G:0.18, T:0.27
Consensus pattern (150 bp):
GGTATGCACAGTAGCCTGCACTTAATACTAAACATACGACCAACAATCTGATACACGTAGTAGCC
TGCACTTAGCACTACAAACGTGACCTAACCATCTGATAAACGTAGTAGCCTGCACTTAGTACTAC
ACACGTGATTGAAGTTGTCG
Found at i:37237093 original size:52 final size:50
Alignment explanation
Indices: 37236776--37237104 Score: 296
Period size: 50 Copynumber: 6.5 Consensus size: 50
37236766 GTATGCATAT
* * * ** * * * *
37236776 TAGCTTGCACTTAATACTAAACATACGACC-AACAATCTGGTACATGTAG
1 TAGCCTGCACTTAGTACTACACATGTGACCTAACCATTTGATACACGTAG
* * * * * *
37236825 TAGCCTGCACTTAGCACTACAAACGTGACCTAACCATCTGATAAATGTAG
1 TAGCCTGCACTTAGTACTACACATGTGACCTAACCATTTGATACACGTAG
* * * *
37236875 TAGCCTGCACTTAGTACTACACACGTGA-TTGAA--GTTGTCGGGTATGCAC--AG
1 TAGCCTGCACTTAGTACTACACATGTGACCT-AACCATT-T---G-ATACACGTAG
37236926 TAGCCTGCACTTAGTACTACACATGTGACCTAACCATTTGATACACGTAG
1 TAGCCTGCACTTAGTACTACACATGTGACCTAACCATTTGATACACGTAG
37236976 TAGCCTGCACTTAGTACTACACATGTGACCTAACCATTTGATACACGTAG
1 TAGCCTGCACTTAGTACTACACATGTGACCTAACCATTTGATACACGTAG
* * * *
37237026 TAGCCTGCACTTAGTACTACACACGTGACCTAAAACCATCTT-AAACACATAA
1 TAGCCTGCACTTAGTACTACACATGTGACCT--AACCAT-TTGATACACGTAG
*
37237078 TAGCCTACA-TATAGTACTACACATGTG
1 TAGCCTGCACT-TAGTACTACACATGTG
37237105 TTCTCACAAT
Statistics
Matches: 235, Mismatches: 29, Indels: 29
0.80 0.10 0.10
Matches are distributed among these distances:
48 6 0.03
49 25 0.11
50 126 0.54
51 32 0.14
52 39 0.17
53 7 0.03
ACGTcount: A:0.33, C:0.25, G:0.16, T:0.26
Consensus pattern (50 bp):
TAGCCTGCACTTAGTACTACACATGTGACCTAACCATTTGATACACGTAG
Found at i:37238971 original size:7 final size:7
Alignment explanation
Indices: 37238959--37238988 Score: 51
Period size: 7 Copynumber: 4.3 Consensus size: 7
37238949 ACATTTCTAA
37238959 TCATCCC
1 TCATCCC
37238966 TCATCCC
1 TCATCCC
37238973 TCATCCC
1 TCATCCC
*
37238980 TCATTCC
1 TCATCCC
37238987 TC
1 TC
37238989 GTCATTCATC
Statistics
Matches: 22, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
7 22 1.00
ACGTcount: A:0.13, C:0.53, G:0.00, T:0.33
Consensus pattern (7 bp):
TCATCCC
Found at i:37246714 original size:9 final size:9
Alignment explanation
Indices: 37246700--37246729 Score: 60
Period size: 9 Copynumber: 3.3 Consensus size: 9
37246690 CCTAAATTTC
37246700 CTCCCACTA
1 CTCCCACTA
37246709 CTCCCACTA
1 CTCCCACTA
37246718 CTCCCACTA
1 CTCCCACTA
37246727 CTC
1 CTC
37246730 AACTTCCACA
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
9 21 1.00
ACGTcount: A:0.20, C:0.57, G:0.00, T:0.23
Consensus pattern (9 bp):
CTCCCACTA
Found at i:37254225 original size:34 final size:35
Alignment explanation
Indices: 37254179--37254252 Score: 89
Period size: 34 Copynumber: 2.2 Consensus size: 35
37254169 TCTGGGACTG
* * * * *
37254179 AGCCC-TTAACAATAGTATTATTAGTGTGGGCTTT
1 AGCCCATTAACAATAATAGTATCAGTATGGGCCTT
37254213 AGCCCATT-ACAATAATAGTATCAGTATGGGCCTT
1 AGCCCATTAACAATAATAGTATCAGTATGGGCCTT
37254247 AGCCCA
1 AGCCCA
37254253 ATTCAGTATA
Statistics
Matches: 34, Mismatches: 5, Indels: 2
0.83 0.12 0.05
Matches are distributed among these distances:
34 32 0.94
35 2 0.06
ACGTcount: A:0.30, C:0.20, G:0.19, T:0.31
Consensus pattern (35 bp):
AGCCCATTAACAATAATAGTATCAGTATGGGCCTT
Found at i:37257390 original size:18 final size:18
Alignment explanation
Indices: 37257367--37257420 Score: 90
Period size: 18 Copynumber: 3.0 Consensus size: 18
37257357 GAGTAATCAG
37257367 TACGAATAGGTATGAAAT
1 TACGAATAGGTATGAAAT
37257385 TACGAATAGGTATGAAAT
1 TACGAATAGGTATGAAAT
* *
37257403 TACGAACATGTATGAAAT
1 TACGAATAGGTATGAAAT
37257421 GGGAAGATTT
Statistics
Matches: 34, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
18 34 1.00
ACGTcount: A:0.44, C:0.07, G:0.20, T:0.28
Consensus pattern (18 bp):
TACGAATAGGTATGAAAT
Found at i:37280901 original size:42 final size:42
Alignment explanation
Indices: 37280845--37280963 Score: 134
Period size: 43 Copynumber: 2.8 Consensus size: 42
37280835 TTAGGGTTAC
*
37280845 TGAGATTACATGTAAGACCATATCAAGGATATGGAATCGATA
1 TGAGATTACATGTAAGACCATATCAAGGATATGGAATCAATA
** * * *
37280887 TGAGACTT-TGTGTAAGACCATAGCTAA-GCTATTGGCATCAATA
1 TGAGA-TTACATGTAAGACCATATC-AAGGATA-TGGAATCAATA
*
37280930 TGAGATTACATGTAAGACCATATCTAGGATATGG
1 TGAGATTACATGTAAGACCATATCAAGGATATGG
37280964 CATTGATACG
Statistics
Matches: 61, Mismatches: 11, Indels: 10
0.74 0.13 0.12
Matches are distributed among these distances:
42 27 0.44
43 34 0.56
ACGTcount: A:0.36, C:0.13, G:0.22, T:0.29
Consensus pattern (42 bp):
TGAGATTACATGTAAGACCATATCAAGGATATGGAATCAATA
Found at i:37283324 original size:23 final size:23
Alignment explanation
Indices: 37283277--37283351 Score: 98
Period size: 23 Copynumber: 3.3 Consensus size: 23
37283267 TCATAGTCGA
*
37283277 TAAGCTCCTTTGAGCTG-AACAG
1 TAAGCTCCTATGAGCTGAAACAG
*
37283299 TAAGCTCCAATGAGCTGAAACAG
1 TAAGCTCCTATGAGCTGAAACAG
* * *
37283322 TAAGCTCTTACGAGCTGAATCAG
1 TAAGCTCCTATGAGCTGAAACAG
37283345 TAAGCTC
1 TAAGCTC
37283352 TTACTAACTG
Statistics
Matches: 46, Mismatches: 6, Indels: 1
0.87 0.11 0.02
Matches are distributed among these distances:
22 15 0.33
23 31 0.67
ACGTcount: A:0.32, C:0.23, G:0.21, T:0.24
Consensus pattern (23 bp):
TAAGCTCCTATGAGCTGAAACAG
Found at i:37283352 original size:23 final size:23
Alignment explanation
Indices: 37283288--37283384 Score: 115
Period size: 23 Copynumber: 4.3 Consensus size: 23
37283278 AAGCTCCTTT
** *
37283288 GAGCTGAA-CAGTAAGCTCCAAT
1 GAGCTGAATCAGTAAGCTCTTAC
*
37283310 GAGCTGAAACAGTAAGCTCTTAC
1 GAGCTGAATCAGTAAGCTCTTAC
37283333 GAGCTGAATCAGTAAGCTCTTAC
1 GAGCTGAATCAGTAAGCTCTTAC
* * * *
37283356 TAACTGAATTAGTAAGCTCATAC
1 GAGCTGAATCAGTAAGCTCTTAC
37283379 GAGCTG
1 GAGCTG
37283385 TGGTGAGTCC
Statistics
Matches: 64, Mismatches: 10, Indels: 1
0.85 0.13 0.01
Matches are distributed among these distances:
22 8 0.12
23 56 0.88
ACGTcount: A:0.34, C:0.21, G:0.22, T:0.24
Consensus pattern (23 bp):
GAGCTGAATCAGTAAGCTCTTAC
Found at i:37285614 original size:58 final size:58
Alignment explanation
Indices: 37285524--37285637 Score: 219
Period size: 58 Copynumber: 2.0 Consensus size: 58
37285514 GAGATATTAG
37285524 ACTGTGGTACACCATGTAATCGTACGATTTTAGATACGTACAATTCAGCTAACCTAAT
1 ACTGTGGTACACCATGTAATCGTACGATTTTAGATACGTACAATTCAGCTAACCTAAT
*
37285582 ACTGTGGTACACCATGTAATCGTATGATTTTAGATACGTACAATTCAGCTAACCTA
1 ACTGTGGTACACCATGTAATCGTACGATTTTAGATACGTACAATTCAGCTAACCTA
37285638 TCTAGAGAGT
Statistics
Matches: 55, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
58 55 1.00
ACGTcount: A:0.32, C:0.20, G:0.16, T:0.32
Consensus pattern (58 bp):
ACTGTGGTACACCATGTAATCGTACGATTTTAGATACGTACAATTCAGCTAACCTAAT
Found at i:37288467 original size:47 final size:47
Alignment explanation
Indices: 37288392--37289640 Score: 2266
Period size: 47 Copynumber: 26.5 Consensus size: 47
37288382 TTCGGGACTT
* * * * * *
37288392 ATCACATTTATACACTTTCACATCCATCACGTTGGCCACTCGGCC-C
1 ATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTC
* * *
37288438 TGTCACATATATACACTTTCACATTCATCACATCGGCTATTAGGCCTT
1 -ATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTC
37288486 ATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTC
1 ATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTC
37288533 ATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTC
1 ATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTC
37288580 ATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTC
1 ATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTC
37288627 ATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTC
1 ATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTC
37288674 ATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTC
1 ATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTC
37288721 ATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTC
1 ATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTC
37288768 ATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTC
1 ATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTC
37288815 ATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTC
1 ATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTC
37288862 ATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTC
1 ATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTC
37288909 ATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTC
1 ATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTC
37288956 ATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTC
1 ATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTC
37289003 ATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTC
1 ATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTC
37289050 ATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTC
1 ATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTC
37289097 ATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTC
1 ATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTC
37289144 ATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTC
1 ATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTC
37289191 ATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTC
1 ATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTC
37289238 ATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTC
1 ATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTC
37289285 ATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTC
1 ATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTC
*
37289332 ATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTT
1 ATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTC
* * *
37289379 ATCACATATATATACACTTTCACATTCATCACATTGGCCATTCGGCCTT
1 ATCAC--ATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTC
*
37289428 ATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTT
1 ATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTC
* *
37289475 ATCACATATATACACTTTCACATTCATCACATCGGCTATTAGGCCTT
1 ATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTC
*
37289522 ATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTT
1 ATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTC
*
37289569 ATCACATATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTT
1 ATCAC--ATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTC
* *
37289618 ATCACATATATATACATTCACAT
1 ATCACATATATACACTTTCACAT
37289641 CACAATTATC
Statistics
Matches: 1176, Mismatches: 21, Indels: 10
0.97 0.02 0.01
Matches are distributed among these distances:
47 1084 0.92
49 92 0.08
ACGTcount: A:0.30, C:0.31, G:0.08, T:0.31
Consensus pattern (47 bp):
ATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTC
Found at i:37295965 original size:25 final size:25
Alignment explanation
Indices: 37295937--37295985 Score: 89
Period size: 25 Copynumber: 2.0 Consensus size: 25
37295927 CCCTTATACT
*
37295937 GTGAAAATGACCATTTTACCCCTAG
1 GTGAAAATGACCATTATACCCCTAG
37295962 GTGAAAATGACCATTATACCCCTA
1 GTGAAAATGACCATTATACCCCTA
37295986 AGGTTATGTT
Statistics
Matches: 23, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
25 23 1.00
ACGTcount: A:0.35, C:0.24, G:0.14, T:0.27
Consensus pattern (25 bp):
GTGAAAATGACCATTATACCCCTAG
Found at i:37296189 original size:24 final size:25
Alignment explanation
Indices: 37296113--37296182 Score: 104
Period size: 25 Copynumber: 2.8 Consensus size: 25
37296103 AGGAAGTGCT
* * *
37296113 AAAAGGGTTTTGCCCCAGTTTACCG
1 AAAAGGGCTTTGCCCCAGTTTATCA
37296138 AAAAGGGCTTTGCCCCAGTTTATCA
1 AAAAGGGCTTTGCCCCAGTTTATCA
*
37296163 AAAAGGGCTTTGCCCTAGTT
1 AAAAGGGCTTTGCCCCAGTT
37296183 ATTAAAAGAG
Statistics
Matches: 41, Mismatches: 4, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
25 41 1.00
ACGTcount: A:0.26, C:0.23, G:0.23, T:0.29
Consensus pattern (25 bp):
AAAAGGGCTTTGCCCCAGTTTATCA
Found at i:37296195 original size:24 final size:25
Alignment explanation
Indices: 37296113--37296195 Score: 84
Period size: 25 Copynumber: 3.4 Consensus size: 25
37296103 AGGAAGTGCT
* *
37296113 AAAAG-GGTTTTGCCCCAGTTTACC
1 AAAAGAGGCTTTGCCCCAGTTTATC
37296137 GAAAAG-GGCTTTGCCCCAGTTTATC
1 -AAAAGAGGCTTTGCCCCAGTTTATC
* *
37296162 AAAA-AGGGCTTTGCCCTAG-TTATT
1 AAAAGA-GGCTTTGCCCCAGTTTATC
37296186 AAAAGAGGCT
1 AAAAGAGGCT
37296196 AGGCCTCCAG
Statistics
Matches: 51, Mismatches: 4, Indels: 7
0.82 0.06 0.11
Matches are distributed among these distances:
24 16 0.31
25 35 0.69
ACGTcount: A:0.29, C:0.20, G:0.23, T:0.28
Consensus pattern (25 bp):
AAAAGAGGCTTTGCCCCAGTTTATC
Found at i:37303905 original size:24 final size:25
Alignment explanation
Indices: 37303878--37303924 Score: 78
Period size: 24 Copynumber: 1.9 Consensus size: 25
37303868 TTATACTGTG
*
37303878 AAATGACCATT-TTCCCCTAGGTGA
1 AAATGACCATTATACCCCTAGGTGA
37303902 AAATGACCATTATACCCCTAGGT
1 AAATGACCATTATACCCCTAGGT
37303925 TATGTTATAA
Statistics
Matches: 21, Mismatches: 1, Indels: 1
0.91 0.04 0.04
Matches are distributed among these distances:
24 11 0.52
25 10 0.48
ACGTcount: A:0.32, C:0.26, G:0.15, T:0.28
Consensus pattern (25 bp):
AAATGACCATTATACCCCTAGGTGA
Found at i:37304081 original size:25 final size:25
Alignment explanation
Indices: 37304048--37304117 Score: 122
Period size: 25 Copynumber: 2.8 Consensus size: 25
37304038 AGGAAGTGCT
37304048 AAAAGGGCTTTGCCCTAGTTTACCA
1 AAAAGGGCTTTGCCCTAGTTTACCA
*
37304073 AAAAGGGCTTTGCCCTAGTTTATCA
1 AAAAGGGCTTTGCCCTAGTTTACCA
*
37304098 AAAAGGGCTTTGCCCCAGTT
1 AAAAGGGCTTTGCCCTAGTT
37304118 ATTAAAAGAG
Statistics
Matches: 43, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
25 43 1.00
ACGTcount: A:0.27, C:0.23, G:0.21, T:0.29
Consensus pattern (25 bp):
AAAAGGGCTTTGCCCTAGTTTACCA
Found at i:37306959 original size:14 final size:14
Alignment explanation
Indices: 37306940--37306967 Score: 56
Period size: 14 Copynumber: 2.0 Consensus size: 14
37306930 TATATTAGTA
37306940 TTTTCTATTCTATT
1 TTTTCTATTCTATT
37306954 TTTTCTATTCTATT
1 TTTTCTATTCTATT
37306968 AGTATTAGAG
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 14 1.00
ACGTcount: A:0.14, C:0.14, G:0.00, T:0.71
Consensus pattern (14 bp):
TTTTCTATTCTATT
Found at i:37306975 original size:6 final size:6
Alignment explanation
Indices: 37306964--37307042 Score: 66
Period size: 5 Copynumber: 14.2 Consensus size: 6
37306954 TTTTCTATTC
* *
37306964 TATTAG TATTAGAG TATTAG -ATTAG TATT-C TATT-C TATTAG TATTAG
1 TATTAG TATT--AG TATTAG TATTAG TATTAG TATTAG TATTAG TATTAG
37307011 -ATTAG TATTAG --TTAG -ATTAG -ATTAG TATTAG T
1 TATTAG TATTAG TATTAG TATTAG TATTAG TATTAG T
37307043 TAGTGATCCC
Statistics
Matches: 64, Mismatches: 2, Indels: 14
0.80 0.03 0.17
Matches are distributed among these distances:
4 4 0.06
5 28 0.44
6 26 0.41
8 6 0.09
ACGTcount: A:0.33, C:0.03, G:0.16, T:0.48
Consensus pattern (6 bp):
TATTAG
Found at i:37306990 original size:11 final size:11
Alignment explanation
Indices: 37306965--37307046 Score: 50
Period size: 11 Copynumber: 7.5 Consensus size: 11
37306955 TTTCTATTCT
37306965 ATTAGTATTAG
1 ATTAGTATTAG
37306976 ---AGTATTAG
1 ATTAGTATTAG
**
37306984 ATTAGTATTCT
1 ATTAGTATTAG
*
37306995 ATT-CTATTAG
1 ATTAGTATTAG
37307005 TATTAG-ATTAG
1 -ATTAGTATTAG
37307016 TATTAGTTAGATTAG
1 -ATTAG-T--ATTAG
37307031 ATTAGTATTAG
1 ATTAGTATTAG
37307042 -TTAGT
1 ATTAGT
37307047 GATCCCGGCT
Statistics
Matches: 56, Mismatches: 6, Indels: 19
0.69 0.07 0.23
Matches are distributed among these distances:
8 8 0.14
10 9 0.16
11 28 0.50
13 1 0.02
14 5 0.09
15 5 0.09
ACGTcount: A:0.33, C:0.02, G:0.17, T:0.48
Consensus pattern (11 bp):
ATTAGTATTAG
Found at i:37307031 original size:20 final size:21
Alignment explanation
Indices: 37307001--37307046 Score: 85
Period size: 20 Copynumber: 2.2 Consensus size: 21
37306991 TTCTATTCTA
37307001 TTAGTATTAGATTAGTATTAG
1 TTAGTATTAGATTAGTATTAG
37307022 TTAG-ATTAGATTAGTATTAG
1 TTAGTATTAGATTAGTATTAG
37307042 TTAGT
1 TTAGT
37307047 GATCCCGGCT
Statistics
Matches: 24, Mismatches: 0, Indels: 2
0.92 0.00 0.08
Matches are distributed among these distances:
20 20 0.83
21 4 0.17
ACGTcount: A:0.33, C:0.00, G:0.20, T:0.48
Consensus pattern (21 bp):
TTAGTATTAGATTAGTATTAG
Found at i:37307248 original size:54 final size:54
Alignment explanation
Indices: 37307199--37307355 Score: 219
Period size: 54 Copynumber: 2.9 Consensus size: 54
37307189 ATTACCAAAG
*
37307199 TACCCTCGATTTACAGAATTACTGTTTTACCCTCGATTTACA-AATTTACCGTTT
1 TACCCTCGATTTACAAAATTACTGTTTTACCCTCGATTTACAGAA-TTACCGTTT
* * *
37307253 TACCCTCGATTTACAAAATGA-TCGTTTTACCCTCAATTTACAGAATTATCGTTT
1 TACCCTCGATTTACAAAATTACT-GTTTTACCCTCGATTTACAGAATTACCGTTT
* * *
37307307 TACCCTCGTTTTATAAAATTACTGTTTTACCCTCGATTTATAGAATTAC
1 TACCCTCGATTTACAAAATTACTGTTTTACCCTCGATTTACAGAATTAC
37307356 TGAAATACCC
Statistics
Matches: 90, Mismatches: 10, Indels: 6
0.85 0.09 0.06
Matches are distributed among these distances:
53 1 0.01
54 86 0.96
55 3 0.03
ACGTcount: A:0.28, C:0.22, G:0.09, T:0.41
Consensus pattern (54 bp):
TACCCTCGATTTACAAAATTACTGTTTTACCCTCGATTTACAGAATTACCGTTT
Found at i:37307365 original size:27 final size:27
Alignment explanation
Indices: 37307199--37307357 Score: 198
Period size: 27 Copynumber: 5.9 Consensus size: 27
37307189 ATTACCAAAG
37307199 TACCCTCGATTTACAGAATTACTGTTT
1 TACCCTCGATTTACAGAATTACTGTTT
*
37307226 TACCCTCGATTTACA-AATTTACCGTTT
1 TACCCTCGATTTACAGAA-TTACTGTTT
* *
37307253 TACCCTCGATTTACAAAATGA-TCGTTT
1 TACCCTCGATTTACAGAATTACT-GTTT
*
37307280 TACCCTCAATTTACAGAATTA-TCGTTT
1 TACCCTCGATTTACAGAATTACT-GTTT
* * *
37307307 TACCCTCGTTTTATAAAATTACTGTTT
1 TACCCTCGATTTACAGAATTACTGTTT
*
37307334 TACCCTCGATTTATAGAATTACTG
1 TACCCTCGATTTACAGAATTACTG
37307358 AAATACCCCT
Statistics
Matches: 116, Mismatches: 12, Indels: 8
0.85 0.09 0.06
Matches are distributed among these distances:
26 2 0.02
27 111 0.96
28 3 0.03
ACGTcount: A:0.28, C:0.22, G:0.09, T:0.41
Consensus pattern (27 bp):
TACCCTCGATTTACAGAATTACTGTTT
Found at i:37307788 original size:27 final size:27
Alignment explanation
Indices: 37307347--37307788 Score: 598
Period size: 27 Copynumber: 16.4 Consensus size: 27
37307337 CCTCGATTTA
* *
37307347 TAGAATTACTGAAATACCCCTGTAAGG
1 TAGAATTACCGAAATACCCCTGTAGGG
* *
37307374 TAGAATTATCGAAATATCCCTGTAGGG
1 TAGAATTACCGAAATACCCCTGTAGGG
37307401 TAGAATTACCGAAATACCCCTGTAGGG
1 TAGAATTACCGAAATACCCCTGTAGGG
*
37307428 TAGAATTACCGAAATACCCCTATAGGG
1 TAGAATTACCGAAATACCCCTGTAGGG
* *
37307455 TAAAATTATCGAAATACCCCTGTAGGG
1 TAGAATTACCGAAATACCCCTGTAGGG
*
37307482 TAGAATTACCGAAATACCCTTGTAGGG
1 TAGAATTACCGAAATACCCCTGTAGGG
* *
37307509 TAGAATTACCCAAATACCCCTATAGGG
1 TAGAATTACCGAAATACCCCTGTAGGG
* *
37307536 TAGAATTACTGAAATACCCCTGTAAGG
1 TAGAATTACCGAAATACCCCTGTAGGG
* *
37307563 TAGAATTATCGAAATACTCCTGTAGGG
1 TAGAATTACCGAAATACCCCTGTAGGG
* * *
37307590 TAGAATTATCGAAATACCCCTGCAAGG
1 TAGAATTACCGAAATACCCCTGTAGGG
* *
37307617 TAGAATTACCGAAATACCCTTGTAGAG
1 TAGAATTACCGAAATACCCCTGTAGGG
*
37307644 TAGAATTATCGAAATACCCCTGTAGGG
1 TAGAATTACCGAAATACCCCTGTAGGG
* *
37307671 TAGAATTACCGAAATA-CCTTAATAGGG
1 TAGAATTACCGAAATACCCCT-GTAGGG
* *
37307698 TAGAATTATCGAAATACCCCTATAGGG
1 TAGAATTACCGAAATACCCCTGTAGGG
** *
37307725 TAGAATTACTAAAATACCCCTGTAAGG
1 TAGAATTACCGAAATACCCCTGTAGGG
* *
37307752 TAGAATTACCGAAATACCCTTGTGGGG
1 TAGAATTACCGAAATACCCCTGTAGGG
*
37307779 TAAAATTACC
1 TAGAATTACC
37307789 ATTTTACCCC
Statistics
Matches: 362, Mismatches: 51, Indels: 4
0.87 0.12 0.01
Matches are distributed among these distances:
26 3 0.01
27 356 0.98
28 3 0.01
ACGTcount: A:0.36, C:0.19, G:0.19, T:0.26
Consensus pattern (27 bp):
TAGAATTACCGAAATACCCCTGTAGGG
Found at i:37308253 original size:6 final size:6
Alignment explanation
Indices: 37308244--37308318 Score: 71
Period size: 6 Copynumber: 12.3 Consensus size: 6
37308234 CTGTCACCTA
* * *
37308244 ATTCTG ATTCTG ATTCTA ATTCTG ATTCTG -TCACCTG ATTCTG ATTTTG
1 ATTCTG ATTCTG ATTCTG ATTCTG ATTCTG AT--TCTG ATTCTG ATTCTG
* * *
37308293 ATTCTC ATTTTG ATTCTG GTTCTG AT
1 ATTCTG ATTCTG ATTCTG ATTCTG AT
37308319 AATGTTTCTT
Statistics
Matches: 54, Mismatches: 12, Indels: 6
0.75 0.17 0.08
Matches are distributed among these distances:
5 1 0.02
6 49 0.91
7 3 0.06
8 1 0.02
ACGTcount: A:0.17, C:0.17, G:0.15, T:0.51
Consensus pattern (6 bp):
ATTCTG
Found at i:37308297 original size:31 final size:31
Alignment explanation
Indices: 37308198--37308297 Score: 101
Period size: 31 Copynumber: 3.0 Consensus size: 31
37308188 ATTCTTATTT
* *
37308198 TGATTCTGTTACCTGATACTGATTTTGATTC
1 TGATTCTGTCACCTGATTCTGATTTTGATTC
* * *
37308229 TAATTCTGTCACCTAATTCTGATTCTGATTCTAATTC
1 TGATTCTGTCA-C-----CTGATTCTGATTTTGATTC
37308266 TGATTCTGTCACCTGATTCTGATTTTGATTC
1 TGATTCTGTCACCTGATTCTGATTTTGATTC
37308297 T
1 T
37308298 CATTTTGATT
Statistics
Matches: 55, Mismatches: 8, Indels: 12
0.73 0.11 0.16
Matches are distributed among these distances:
31 27 0.49
32 1 0.02
36 1 0.02
37 26 0.47
ACGTcount: A:0.20, C:0.19, G:0.13, T:0.48
Consensus pattern (31 bp):
TGATTCTGTCACCTGATTCTGATTTTGATTC
Found at i:37308307 original size:37 final size:36
Alignment explanation
Indices: 37308188--37308310 Score: 139
Period size: 37 Copynumber: 3.5 Consensus size: 36
37308178 TTGCATTCAC
* *
37308188 ATTCTTATTTTGATTCTGTTACCTGATACTGATTTTG
1 ATTC-TATTTTGATTCTGTCACCTGATTCTGATTTTG
* *
37308225 ATTCTA-----ATTCTGTCACCTAATTCTGATTCTG
1 ATTCTATTTTGATTCTGTCACCTGATTCTGATTTTG
*
37308256 ATTCTAATTCTGATTCTGTCACCTGATTCTGATTTTG
1 ATTCT-ATTTTGATTCTGTCACCTGATTCTGATTTTG
37308293 ATTCTCATTTTGATTCTG
1 ATTCT-ATTTTGATTCTG
37308311 GTTCTGATAA
Statistics
Matches: 72, Mismatches: 8, Indels: 12
0.78 0.09 0.13
Matches are distributed among these distances:
31 26 0.36
32 1 0.01
36 2 0.03
37 43 0.60
ACGTcount: A:0.20, C:0.18, G:0.12, T:0.50
Consensus pattern (36 bp):
ATTCTATTTTGATTCTGTCACCTGATTCTGATTTTG
Found at i:37309699 original size:30 final size:30
Alignment explanation
Indices: 37309591--37309693 Score: 143
Period size: 30 Copynumber: 3.4 Consensus size: 30
37309581 TGTGCTAGCC
* *
37309591 CGTGTGCCACACACGGCCGTGTAACATGAC
1 CGTGTGTCACACACGGCCGTGTAACATGAT
**
37309621 CGTGTGTCACACACAACCGTGTAACATGAT
1 CGTGTGTCACACACGGCCGTGTAACATGAT
* * *
37309651 TGTGTGTCACACATGGCTGTGTAACATGAT
1 CGTGTGTCACACACGGCCGTGTAACATGAT
37309681 CGTGTGTCACACA
1 CGTGTGTCACACA
37309694 TGGCTGAGAC
Statistics
Matches: 63, Mismatches: 10, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
30 63 1.00
ACGTcount: A:0.25, C:0.26, G:0.24, T:0.24
Consensus pattern (30 bp):
CGTGTGTCACACACGGCCGTGTAACATGAT
Found at i:37310114 original size:32 final size:32
Alignment explanation
Indices: 37310073--37310137 Score: 130
Period size: 32 Copynumber: 2.0 Consensus size: 32
37310063 CTTAAACCAT
37310073 GATACCAAAACATAACTATTATCATCAAACTA
1 GATACCAAAACATAACTATTATCATCAAACTA
37310105 GATACCAAAACATAACTATTATCATCAAACTA
1 GATACCAAAACATAACTATTATCATCAAACTA
37310137 G
1 G
37310138 TCTATACATG
Statistics
Matches: 33, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
32 33 1.00
ACGTcount: A:0.49, C:0.22, G:0.05, T:0.25
Consensus pattern (32 bp):
GATACCAAAACATAACTATTATCATCAAACTA
Found at i:37311788 original size:19 final size:19
Alignment explanation
Indices: 37311764--37311949 Score: 82
Period size: 19 Copynumber: 9.5 Consensus size: 19
37311754 TTAATCCTTC
*
37311764 TATATATATATACATTTTA
1 TATATATATATATATTTTA
* *
37311783 TATATAATTTTAAATATTTTA
1 TATAT-A-TATATATATTTTA
*
37311804 TATATAT-TATTTATTTTTA
1 TATATATATATATA-TTTTA
* **
37311823 TATATATTATTTATACATGTAAA
1 TATATA-TA--TATATAT-TTTA
*
37311846 AATTATTATATATGATATTTT-
1 TA-TA-TATATAT-ATATTTTA
* *
37311867 TATTTATGTA-ATA-TTTA
1 TATATATATATATATTTTA
* *
37311884 TCATGTTATTTATATATTTTA
1 T-AT-ATATATATATATTTTA
37311905 T-TATATATTATATATTTTA
1 TATATATA-TATATATTTTA
37311924 T-TATATATAT-TCATTTTA
1 TATATATATATAT-ATTTTA
37311942 T-TATATAT
1 TATATATAT
37311950 TATCATTTAT
Statistics
Matches: 130, Mismatches: 19, Indels: 37
0.70 0.10 0.20
Matches are distributed among these distances:
16 3 0.02
17 5 0.04
18 26 0.20
19 47 0.36
20 7 0.05
21 21 0.16
22 5 0.04
23 10 0.08
24 4 0.03
25 2 0.02
ACGTcount: A:0.37, C:0.02, G:0.02, T:0.59
Consensus pattern (19 bp):
TATATATATATATATTTTA
Found at i:37311908 original size:12 final size:12
Alignment explanation
Indices: 37311893--37311950 Score: 50
Period size: 12 Copynumber: 4.8 Consensus size: 12
37311883 ATCATGTTAT
37311893 TTATATATTTTA
1 TTATATATTTTA
37311905 TTATATA--TTA
1 TTATATATTTTA
*
37311915 -TATATTTTATTA
1 TTATATATT-TTA
37311927 TATATATTCATTTTA
1 T-TATA-T-ATTTTA
37311942 TTATATATT
1 TTATATATT
37311951 ATCATTTATT
Statistics
Matches: 37, Mismatches: 2, Indels: 14
0.70 0.04 0.26
Matches are distributed among these distances:
9 5 0.14
10 3 0.08
12 13 0.35
13 1 0.03
14 8 0.22
15 5 0.14
16 2 0.05
ACGTcount: A:0.34, C:0.02, G:0.00, T:0.64
Consensus pattern (12 bp):
TTATATATTTTA
Found at i:37311955 original size:18 final size:18
Alignment explanation
Indices: 37311899--37311968 Score: 90
Period size: 18 Copynumber: 3.9 Consensus size: 18
37311889 TTATTTATAT
*
37311899 ATTTTATTATATATTATAT
1 ATTTTATTATATATTAT-C
37311918 ATTTTATTATATA-TATTC
1 ATTTTATTATATATTA-TC
37311936 ATTTTATTATATATTATC
1 ATTTTATTATATATTATC
*
37311954 A-TTTATTATTTATTA
1 ATTTTATTATATATTA
37311969 GTACATATAA
Statistics
Matches: 47, Mismatches: 2, Indels: 6
0.85 0.04 0.11
Matches are distributed among these distances:
17 13 0.28
18 18 0.38
19 16 0.34
ACGTcount: A:0.34, C:0.03, G:0.00, T:0.63
Consensus pattern (18 bp):
ATTTTATTATATATTATC
Found at i:37311959 original size:14 final size:15
Alignment explanation
Indices: 37311903--37311952 Score: 52
Period size: 14 Copynumber: 3.4 Consensus size: 15
37311893 TTATATATTT
37311903 TATTA-TATATTATA
1 TATTATTATATTATA
37311917 TATT-TTAT-TATATA
1 TATTATTATAT-TATA
*
37311931 TATTCATTTTATTATA
1 TATT-ATTATATTATA
37311947 TATTAT
1 TATTAT
37311953 CATTTATTAT
Statistics
Matches: 30, Mismatches: 1, Indels: 9
0.75 0.03 0.22
Matches are distributed among these distances:
13 1 0.03
14 15 0.50
15 2 0.07
16 11 0.37
17 1 0.03
ACGTcount: A:0.36, C:0.02, G:0.00, T:0.62
Consensus pattern (15 bp):
TATTATTATATTATA
Found at i:37312122 original size:20 final size:18
Alignment explanation
Indices: 37312091--37312145 Score: 65
Period size: 19 Copynumber: 2.9 Consensus size: 18
37312081 ATATTATTAT
*
37312091 TTTTATAAATATATTAAG
1 TTTTATATATATATTAAG
* *
37312109 TTATTATATCATATAGTATG
1 TT-TTATAT-ATATATTAAG
37312129 TTTTATATATATATTAA
1 TTTTATATATATATTAA
37312146 TCGTTTCTAA
Statistics
Matches: 30, Mismatches: 5, Indels: 4
0.77 0.13 0.10
Matches are distributed among these distances:
18 9 0.30
19 11 0.37
20 10 0.33
ACGTcount: A:0.40, C:0.02, G:0.05, T:0.53
Consensus pattern (18 bp):
TTTTATATATATATTAAG
Found at i:37317139 original size:69 final size:69
Alignment explanation
Indices: 37317028--37317166 Score: 278
Period size: 69 Copynumber: 2.0 Consensus size: 69
37317018 TAAAAACTAC
37317028 TGGTTTTTAAAAGGTCACGATGACGCGCAAAGTTTCCGCAAGGTAAATGTGTTTCCAAGAAAATA
1 TGGTTTTTAAAAGGTCACGATGACGCGCAAAGTTTCCGCAAGGTAAATGTGTTTCCAAGAAAATA
37317093 AATA
66 AATA
37317097 TGGTTTTTAAAAGGTCACGATGACGCGCAAAGTTTCCGCAAGGTAAATGTGTTTCCAAGAAAATA
1 TGGTTTTTAAAAGGTCACGATGACGCGCAAAGTTTCCGCAAGGTAAATGTGTTTCCAAGAAAATA
37317162 AATA
66 AATA
37317166 T
1 T
37317167 TTTAAGCAGA
Statistics
Matches: 70, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
69 70 1.00
ACGTcount: A:0.36, C:0.14, G:0.22, T:0.28
Consensus pattern (69 bp):
TGGTTTTTAAAAGGTCACGATGACGCGCAAAGTTTCCGCAAGGTAAATGTGTTTCCAAGAAAATA
AATA
Found at i:37321567 original size:60 final size:60
Alignment explanation
Indices: 37321474--37321595 Score: 235
Period size: 60 Copynumber: 2.0 Consensus size: 60
37321464 TATGGAAGTG
37321474 GGAAAGAGAAACAATGGACTTTGTAAGTGGGTTACCTTTGACACCCACCAAGAAAGATTC
1 GGAAAGAGAAACAATGGACTTTGTAAGTGGGTTACCTTTGACACCCACCAAGAAAGATTC
*
37321534 GGAAAGAGTAACAATGGACTTTGTAAGTGGGTTACCTTTGACACCCACCAAGAAAGATTC
1 GGAAAGAGAAACAATGGACTTTGTAAGTGGGTTACCTTTGACACCCACCAAGAAAGATTC
37321594 GG
1 GG
37321596 TGTGGGTGGT
Statistics
Matches: 61, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
60 61 1.00
ACGTcount: A:0.35, C:0.18, G:0.25, T:0.22
Consensus pattern (60 bp):
GGAAAGAGAAACAATGGACTTTGTAAGTGGGTTACCTTTGACACCCACCAAGAAAGATTC
Found at i:37326345 original size:27 final size:26
Alignment explanation
Indices: 37326307--37326420 Score: 104
Period size: 27 Copynumber: 4.3 Consensus size: 26
37326297 AGCATGGCTG
* *
37326307 CCAGAATAGATATTGTGACAGAGTCA
1 CCAGAACAGATATTGTGACAGAGCCA
* *
37326333 CCAGATACAGATATTGTGGCTGAGCCA
1 CCAGA-ACAGATATTGTGACAGAGCCA
* *
37326360 CCAGAACATATAATTGTGGC-GTAGCCA
1 CCAGAACAGAT-ATTGTGACAG-AGCCA
* * *
37326387 CTAGAACAGATATTTGTGGCATAGCCA
1 CCAGAACAGATA-TTGTGACAGAGCCA
37326414 CCAGAAC
1 CCAGAAC
37326421 GCTTCCTCCA
Statistics
Matches: 74, Mismatches: 9, Indels: 9
0.80 0.10 0.10
Matches are distributed among these distances:
26 12 0.16
27 62 0.84
ACGTcount: A:0.34, C:0.21, G:0.23, T:0.22
Consensus pattern (26 bp):
CCAGAACAGATATTGTGACAGAGCCA
Found at i:37333892 original size:27 final size:26
Alignment explanation
Indices: 37333854--37333968 Score: 122
Period size: 27 Copynumber: 4.3 Consensus size: 26
37333844 CAACATGGCT
*
37333854 ACCAGAACAGATATTGTGACAGAGTC
1 ACCAGAACAGATATTGTGACAGAGCC
* *
37333880 ACCAGATACAGATATTGTGGCTGAGCC
1 ACCAGA-ACAGATATTGTGACAGAGCC
* *
37333907 ACCAGAACAGATAATTGTGGCATAGCC
1 ACCAGAACAGAT-ATTGTGACAGAGCC
* * * *
37333934 ACCATAACAAATATTTGTGGCATAGCC
1 ACCAGAACAGATA-TTGTGACAGAGCC
37333961 ACCAGAAC
1 ACCAGAAC
37333969 GCTTCCTCCA
Statistics
Matches: 78, Mismatches: 8, Indels: 5
0.86 0.09 0.05
Matches are distributed among these distances:
26 13 0.17
27 65 0.83
ACGTcount: A:0.37, C:0.23, G:0.21, T:0.20
Consensus pattern (26 bp):
ACCAGAACAGATATTGTGACAGAGCC
Found at i:37333914 original size:53 final size:54
Alignment explanation
Indices: 37333854--37333968 Score: 146
Period size: 54 Copynumber: 2.1 Consensus size: 54
37333844 CAACATGGCT
* *
37333854 ACCAGAACAGAT-ATTGTGACAGAGTCACCAGATACAGATA-TTGTGGC-TGAGCC
1 ACCAGAACAGATAATTGTGACAGAGCCACCAGA-ACAAATATTTGTGGCAT-AGCC
* * *
37333907 ACCAGAACAGATAATTGTGGCATAGCCACCATAACAAATATTTGTGGCATAGCC
1 ACCAGAACAGATAATTGTGACAGAGCCACCAGAACAAATATTTGTGGCATAGCC
37333961 ACCAGAAC
1 ACCAGAAC
37333969 GCTTCCTCCA
Statistics
Matches: 54, Mismatches: 5, Indels: 5
0.84 0.08 0.08
Matches are distributed among these distances:
53 18 0.33
54 35 0.65
55 1 0.02
ACGTcount: A:0.37, C:0.23, G:0.21, T:0.20
Consensus pattern (54 bp):
ACCAGAACAGATAATTGTGACAGAGCCACCAGAACAAATATTTGTGGCATAGCC
Found at i:37336951 original size:28 final size:28
Alignment explanation
Indices: 37336882--37336965 Score: 98
Period size: 28 Copynumber: 3.0 Consensus size: 28
37336872 TTACCCTTTT
* * *
37336882 ATATGGCCCACTAAGCCCAATCACATTT
1 ATATGGCCCATTAGGCCCAATCACATTC
*
37336910 ATGTGGCCCATTAGGCCCAAATCACATTC
1 ATATGGCCCATTAGGCCC-AATCACATTC
*
37336939 ATATGG-CCGTTAGGCCCCAATCACATT
1 ATATGGCCCATTAGG-CCCAATCACATT
37336966 TACAGTCATG
Statistics
Matches: 48, Mismatches: 6, Indels: 4
0.83 0.10 0.07
Matches are distributed among these distances:
28 31 0.65
29 17 0.35
ACGTcount: A:0.29, C:0.31, G:0.15, T:0.25
Consensus pattern (28 bp):
ATATGGCCCATTAGGCCCAATCACATTC
Found at i:37337223 original size:16 final size:16
Alignment explanation
Indices: 37337181--37337223 Score: 59
Period size: 16 Copynumber: 2.7 Consensus size: 16
37337171 GTAGCAAAAC
*
37337181 TTTCTGCTTTTCTGTA
1 TTTCAGCTTTTCTGTA
* *
37337197 TTTCGGGTTTTCTGTA
1 TTTCAGCTTTTCTGTA
37337213 TTTCAGCTTTT
1 TTTCAGCTTTT
37337224 GCCGATCTAC
Statistics
Matches: 23, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
16 23 1.00
ACGTcount: A:0.07, C:0.16, G:0.16, T:0.60
Consensus pattern (16 bp):
TTTCAGCTTTTCTGTA
Found at i:37338462 original size:16 final size:16
Alignment explanation
Indices: 37338438--37338469 Score: 55
Period size: 16 Copynumber: 2.0 Consensus size: 16
37338428 AAAGTTGAGA
*
37338438 TTTCGGGATTTTTGGG
1 TTTCAGGATTTTTGGG
37338454 TTTCAGGATTTTTGGG
1 TTTCAGGATTTTTGGG
37338470 GCGTTACACC
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
16 15 1.00
ACGTcount: A:0.09, C:0.06, G:0.34, T:0.50
Consensus pattern (16 bp):
TTTCAGGATTTTTGGG
Found at i:37345862 original size:40 final size:40
Alignment explanation
Indices: 37345807--37345988 Score: 296
Period size: 40 Copynumber: 4.6 Consensus size: 40
37345797 TATTCGAATG
37345807 ATATCCGGGCTAAGTCCCGAAGGCATTTGTGCTATTGACT
1 ATATCCGGGCTAAGTCCCGAAGGCATTTGTGCTATTGACT
*
37345847 ATATCCGGGCTAAGTCCCGAAGGCATTTGTGCTAGTGACT
1 ATATCCGGGCTAAGTCCCGAAGGCATTTGTGCTATTGACT
*
37345887 ATATCCGGGCTAAGTCCCGAAGGCTTTTGTGCTATTGACT
1 ATATCCGGGCTAAGTCCCGAAGGCATTTGTGCTATTGACT
* *
37345927 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCGAGTTG-CT
1 ATATCCGGGCTAAGTCCCGAAGGCATTTGTGCTA-TTGACT
*
37345967 ATATCC-GGCTAAATCCCGAAGG
1 ATATCCGGGCTAAGTCCCGAAGG
37345989 TACTTGGGTT
Statistics
Matches: 133, Mismatches: 8, Indels: 3
0.92 0.06 0.02
Matches are distributed among these distances:
39 14 0.11
40 116 0.87
41 3 0.02
ACGTcount: A:0.23, C:0.23, G:0.26, T:0.27
Consensus pattern (40 bp):
ATATCCGGGCTAAGTCCCGAAGGCATTTGTGCTATTGACT
Found at i:37347931 original size:47 final size:47
Alignment explanation
Indices: 37347879--37347974 Score: 183
Period size: 47 Copynumber: 2.0 Consensus size: 47
37347869 TATTCGGATA
*
37347879 CTTGATGAACTATCTTGCACACCTGATGAATGCCTTAAGTGTACTAT
1 CTTGATGAACTATCTTGCACACCCGATGAATGCCTTAAGTGTACTAT
37347926 CTTGATGAACTATCTTGCACACCCGATGAATGCCTTAAGTGTACTAT
1 CTTGATGAACTATCTTGCACACCCGATGAATGCCTTAAGTGTACTAT
37347973 CT
1 CT
37347975 CCTTGCTACG
Statistics
Matches: 48, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
47 48 1.00
ACGTcount: A:0.27, C:0.23, G:0.17, T:0.33
Consensus pattern (47 bp):
CTTGATGAACTATCTTGCACACCCGATGAATGCCTTAAGTGTACTAT
Found at i:37356716 original size:55 final size:55
Alignment explanation
Indices: 37356640--37356753 Score: 219
Period size: 55 Copynumber: 2.1 Consensus size: 55
37356630 TCCAAGAATT
37356640 TAACCTTGAGATCCAAAATAGAAAGGGTGTCTGTCGAGGCTGGAAGAAAATGAGG
1 TAACCTTGAGATCCAAAATAGAAAGGGTGTCTGTCGAGGCTGGAAGAAAATGAGG
*
37356695 TAACCTTGAGATCCAAGATAGAAAGGGTGTCTGTCGAGGCTGGAAGAAAATGAGG
1 TAACCTTGAGATCCAAAATAGAAAGGGTGTCTGTCGAGGCTGGAAGAAAATGAGG
37356750 TAAC
1 TAAC
37356754 TTCTTCACTT
Statistics
Matches: 58, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
55 58 1.00
ACGTcount: A:0.36, C:0.13, G:0.31, T:0.20
Consensus pattern (55 bp):
TAACCTTGAGATCCAAAATAGAAAGGGTGTCTGTCGAGGCTGGAAGAAAATGAGG
Found at i:37357344 original size:21 final size:22
Alignment explanation
Indices: 37357299--37357346 Score: 62
Period size: 22 Copynumber: 2.2 Consensus size: 22
37357289 TAGAAATACC
* **
37357299 TTAGAAACAATTAGGGACCAAA
1 TTAGAAACAATTAGGAAAAAAA
37357321 TTAGAAACAATT-GGAAAAAAA
1 TTAGAAACAATTAGGAAAAAAA
37357342 TTAGA
1 TTAGA
37357347 CTGCAAGGGT
Statistics
Matches: 23, Mismatches: 3, Indels: 1
0.85 0.11 0.04
Matches are distributed among these distances:
21 11 0.48
22 12 0.52
ACGTcount: A:0.54, C:0.08, G:0.17, T:0.21
Consensus pattern (22 bp):
TTAGAAACAATTAGGAAAAAAA
Found at i:37358202 original size:6 final size:6
Alignment explanation
Indices: 37358184--37358329 Score: 115
Period size: 6 Copynumber: 23.7 Consensus size: 6
37358174 AAGAAACATT
37358184 ATCAGA A-CTAGA ATCAGA ATCAGA ATCAGA ATCAGA ATCAGA ATCAG-
1 ATCAGA ATC-AGA ATCAGA ATCAGA ATCAGA ATCAGA ATCAGA ATCAGA
* * *
37358231 GTGACAGA ATCAGA ATCA-A TATCAGGTA A-CAGA ATCAAA ATCAGA ATCAGT
1 AT--CAGA ATCAGA ATCAGA -ATCA-G-A ATCAGA ATCAGA ATCAGA ATCAGA
* *
37358282 ATCAGGTA A-CAGA ATCAAA ATCAGA ATCAGT ATCAAGTA A-CAGA ATCA
1 ATCA-G-A ATCAGA ATCAGA ATCAGA ATCAGA ATC-AG-A ATCAGA ATCA
37358330 AAAATCAGCA
Statistics
Matches: 114, Mismatches: 10, Indels: 32
0.73 0.06 0.21
Matches are distributed among these distances:
5 9 0.08
6 88 0.77
7 12 0.11
8 4 0.04
9 1 0.01
ACGTcount: A:0.49, C:0.16, G:0.16, T:0.18
Consensus pattern (6 bp):
ATCAGA
Found at i:37358205 original size:18 final size:18
Alignment explanation
Indices: 37358184--37358329 Score: 115
Period size: 19 Copynumber: 7.9 Consensus size: 18
37358174 AAGAAACATT
37358184 ATCAGAA-CTAGAATCAGA
1 ATCAGAATC-AGAATCAGA
37358202 ATCAGAATCAGAATCAGA
1 ATCAGAATCAGAATCAGA
*
37358220 ATCAGAATCAG-GTGACAGA
1 ATCAGAATCAGAAT--CAGA
37358239 ATCAGAATCA-ATATCAGGTA
1 ATCAGAATCAGA-ATCA-G-A
*
37358259 A-CAGAATCAAAATCAGA
1 ATCAGAATCAGAATCAGA
*
37358276 ATCAGTATCAGGTAA-CAGA
1 ATCAGAATCA-G-AATCAGA
* *
37358295 ATCAAAATCAGAATCAGT
1 ATCAGAATCAGAATCAGA
37358313 ATCAAGTAA-CAGAATCA
1 ATC-AG-AATCAGAATCA
37358330 AAAATCAGCA
Statistics
Matches: 106, Mismatches: 8, Indels: 27
0.75 0.06 0.19
Matches are distributed among these distances:
17 5 0.05
18 44 0.42
19 49 0.46
20 8 0.08
ACGTcount: A:0.49, C:0.16, G:0.16, T:0.18
Consensus pattern (18 bp):
ATCAGAATCAGAATCAGA
Found at i:37358242 original size:31 final size:31
Alignment explanation
Indices: 37358238--37358396 Score: 246
Period size: 31 Copynumber: 5.1 Consensus size: 31
37358228 CAGGTGACAG
*
37358238 AATCAGAATCAATATCAGGTAACAGAATCAA
1 AATCAGAATCAGTATCAGGTAACAGAATCAA
37358269 AATCAGAATCAGTATCAGGTAACAGAATCAA
1 AATCAGAATCAGTATCAGGTAACAGAATCAA
*
37358300 AATCAGAATCAGTATCAAGTAACAGAATCAAA
1 AATCAGAATCAGTATCAGGTAACAGAATC-AA
* *
37358332 AATCAGCATCAATATCAGGTAACAGAATCAAA
1 AATCAGAATCAGTATCAGGTAACAGAATC-AA
* *
37358364 AATCAGCATCAGTATCAGGTAACAGAATAAA
1 AATCAGAATCAGTATCAGGTAACAGAATCAA
37358395 AA
1 AA
37358397 ATTAGAATGT
Statistics
Matches: 120, Mismatches: 7, Indels: 2
0.93 0.05 0.02
Matches are distributed among these distances:
31 62 0.52
32 58 0.48
ACGTcount: A:0.51, C:0.16, G:0.14, T:0.19
Consensus pattern (31 bp):
AATCAGAATCAGTATCAGGTAACAGAATCAA
Found at i:37358244 original size:25 final size:25
Alignment explanation
Indices: 37358193--37358305 Score: 119
Period size: 25 Copynumber: 4.6 Consensus size: 25
37358183 TATCAGAACT
37358193 AGAATCAGAATCA-G-AATCAGAATC
1 AGAATCAGAATCAGGTAA-CAGAATC
*
37358217 AGAATCAGAATCAGGTGACAGAATC
1 AGAATCAGAATCAGGTAACAGAATC
37358242 AGAATCA-ATATCAGGTAACAGAATC
1 AGAATCAGA-ATCAGGTAACAGAATC
* *
37358267 AAAATCAGAATCA-GTATCAGGTAA-C
1 AGAATCAGAATCAGGTAACA-G-AATC
*
37358292 AGAATCAAAATCAG
1 AGAATCAGAATCAG
37358306 AATCAGTATC
Statistics
Matches: 76, Mismatches: 6, Indels: 12
0.81 0.06 0.13
Matches are distributed among these distances:
24 19 0.25
25 53 0.70
26 4 0.05
ACGTcount: A:0.49, C:0.16, G:0.18, T:0.18
Consensus pattern (25 bp):
AGAATCAGAATCAGGTAACAGAATC
Found at i:37358348 original size:32 final size:32
Alignment explanation
Indices: 37358238--37358404 Score: 257
Period size: 32 Copynumber: 5.3 Consensus size: 32
37358228 CAGGTGACAG
*
37358238 AATCAGAATCAATATCAGGTAACAGAATC-AA
1 AATCAGAATCAGTATCAGGTAACAGAATCAAA
37358269 AATCAGAATCAGTATCAGGTAACAGAATC-AA
1 AATCAGAATCAGTATCAGGTAACAGAATCAAA
*
37358300 AATCAGAATCAGTATCAAGTAACAGAATCAAA
1 AATCAGAATCAGTATCAGGTAACAGAATCAAA
* *
37358332 AATCAGCATCAATATCAGGTAACAGAATCAAA
1 AATCAGAATCAGTATCAGGTAACAGAATCAAA
* *
37358364 AATCAGCATCAGTATCAGGTAACAGAATAAAA
1 AATCAGAATCAGTATCAGGTAACAGAATCAAA
*
37358396 AATTAGAAT
1 AATCAGAAT
37358405 GTGAATGCAA
Statistics
Matches: 126, Mismatches: 9, Indels: 1
0.93 0.07 0.01
Matches are distributed among these distances:
31 58 0.46
32 68 0.54
ACGTcount: A:0.51, C:0.16, G:0.14, T:0.20
Consensus pattern (32 bp):
AATCAGAATCAGTATCAGGTAACAGAATCAAA
Found at i:37358584 original size:27 final size:26
Alignment explanation
Indices: 37358541--37358614 Score: 94
Period size: 27 Copynumber: 2.8 Consensus size: 26
37358531 ACTCAGTTAT
* *
37358541 CAGATATTGTGACAGAGTCACCAGATA
1 CAGATATTGTGGCAGAGCCACCAGA-A
*
37358568 CAGATATTGTGGTAGAGCCACCAGAA
1 CAGATATTGTGGCAGAGCCACCAGAA
* *
37358594 CAGATAATGTGGCAAAGCCAC
1 CAGATATTGTGGCAGAGCCAC
37358615 TTAACAGAAT
Statistics
Matches: 41, Mismatches: 6, Indels: 1
0.85 0.12 0.02
Matches are distributed among these distances:
26 19 0.46
27 22 0.54
ACGTcount: A:0.36, C:0.20, G:0.24, T:0.19
Consensus pattern (26 bp):
CAGATATTGTGGCAGAGCCACCAGAA
Found at i:37358769 original size:22 final size:22
Alignment explanation
Indices: 37358741--37358805 Score: 60
Period size: 22 Copynumber: 3.0 Consensus size: 22
37358731 GCAAATACGT
*
37358741 TTGGCACACAGCCATAATCAGG
1 TTGGCACAAAGCCATAATCAGG
* * *
37358763 TTGGCACAGAGCTAT-ATGTAGG
1 TTGGCACAAAGCCATAAT-CAGG
* *
37358785 TTGACACAAAGCCAAAATCAG
1 TTGGCACAAAGCCATAATCAG
37358806 AAGGCTTTAA
Statistics
Matches: 33, Mismatches: 8, Indels: 4
0.73 0.18 0.09
Matches are distributed among these distances:
21 2 0.06
22 29 0.88
23 2 0.06
ACGTcount: A:0.35, C:0.22, G:0.23, T:0.20
Consensus pattern (22 bp):
TTGGCACAAAGCCATAATCAGG
Found at i:37359288 original size:27 final size:27
Alignment explanation
Indices: 37359232--37359831 Score: 810
Period size: 27 Copynumber: 22.3 Consensus size: 27
37359222 GGGGCAAAAT
* * * *
37359232 GGTAATTTTACCCCACA-AGGTATCTC
1 GGTAATTCTACCCTACAGGGGTATTTC
* * *
37359258 GGTAATTCCACCCTATAGGGGTATTTT
1 GGTAATTCTACCCTACAGGGGTATTTC
*
37359285 GGTAATTCTACCCTTCAGGGGTATTTC
1 GGTAATTCTACCCTACAGGGGTATTTC
37359312 GGTAATTCTACCCTACAGGGGTATTTC
1 GGTAATTCTACCCTACAGGGGTATTTC
* *
37359339 GGTAATTCTACCCTACAAGGGTATTTT
1 GGTAATTCTACCCTACAGGGGTATTTC
37359366 GGTAATTCTACCCTACAGGGGTA-TTC
1 GGTAATTCTACCCTACAGGGGTATTTC
*
37359392 TTGTAATTCTACCCTACAGGGGTATTTC
1 -GGTAATTCTACCCTACAGGGGTATTTC
* *
37359420 GGTAATTCTACCCTATAGGGGTATTCC
1 GGTAATTCTACCCTACAGGGGTATTTC
37359447 GGTAATTCTACCC-AGCAGGGGTATTTC
1 GGTAATTCTACCCTA-CAGGGGTATTTC
* *
37359474 GGTAATTCTACCCTATAGGGGTATTCC
1 GGTAATTCTACCCTACAGGGGTATTTC
* * *
37359501 GGTAATTCTACCCTATATGGGTATTCC
1 GGTAATTCTACCCTACAGGGGTATTTC
* * * * *
37359528 GCTAATTCTACCCTATATGGGTCTTCC
1 GGTAATTCTACCCTACAGGGGTATTTC
*
37359555 GGTAATTCTACCCTGCAGGGGTATTTC
1 GGTAATTCTACCCTACAGGGGTATTTC
37359582 GGTAATTCTACCCTACAGGGGTATTTC
1 GGTAATTCTACCCTACAGGGGTATTTC
* *
37359609 GGTAATTCTACCCTATAGGGGTATTCC
1 GGTAATTCTACCCTACAGGGGTATTTC
* *
37359636 GGTAATTCTTCCCTGCAGGGGTATTTC
1 GGTAATTCTACCCTACAGGGGTATTTC
37359663 GGTAATTCTACCCTACAGGGGTATTTC
1 GGTAATTCTACCCTACAGGGGTATTTC
* *
37359690 GGTAATTCTACCCTATAGGGGTATTCC
1 GGTAATTCTACCCTACAGGGGTATTTC
* *
37359717 GGTAATTCTACCTTACAGGGGTATTCC
1 GGTAATTCTACCCTACAGGGGTATTTC
** * * *
37359744 AATAATTCTACCCTATAAGGGTATTTT
1 GGTAATTCTACCCTACAGGGGTATTTC
37359771 GGTAATTCTACCCTACAGGGGTATTTC
1 GGTAATTCTACCCTACAGGGGTATTTC
* *
37359798 GGTATTTCTACCCTACAAGGGTATTTC
1 GGTAATTCTACCCTACAGGGGTATTTC
37359825 GGTAATT
1 GGTAATT
37359832 TTGTAAATCG
Statistics
Matches: 508, Mismatches: 61, Indels: 9
0.88 0.11 0.02
Matches are distributed among these distances:
26 16 0.03
27 488 0.96
28 4 0.01
ACGTcount: A:0.22, C:0.22, G:0.21, T:0.35
Consensus pattern (27 bp):
GGTAATTCTACCCTACAGGGGTATTTC
Found at i:37359845 original size:27 final size:27
Alignment explanation
Indices: 37359813--37360182 Score: 314
Period size: 27 Copynumber: 13.7 Consensus size: 27
37359803 TTCTACCCTA
* **
37359813 CAAGGGTATTTCGGTAATTTTGTAAAT
1 CAAGGGTATTTTGGTAATTTTACAAAT
* **** * **
37359840 CGAGGGTAAAACGGTAATTCTGTAAAT
1 CAAGGGTATTTTGGTAATTTTACAAAT
* *
37359867 CAAGGGTACTTTGGTAATTTTACAAGT
1 CAAGGGTATTTTGGTAATTTTACAAAT
* *** **
37359894 CGAGGGTATTTCAATAATTTTACAGGT
1 CAAGGGTATTTTGGTAATTTTACAAAT
* ** *
37359921 CGAGGGTATTTCAGTAATTTCACAAAT
1 CAAGGGTATTTTGGTAATTTTACAAAT
* *
37359948 TAGGGGTATTTTGGTAATTTTACAAA-
1 CAAGGGTATTTTGGTAATTTTACAAAT
* *
37359974 CTAGGGGTATTTTGGTAATTTTACAAAC
1 C-AAGGGTATTTTGGTAATTTTACAAAT
* *
37360002 CAGGGGTATTTTGGTAATTTTATAAA-
1 CAAGGGTATTTTGGTAATTTTACAAAT
* * *
37360028 CAAATGGTATTTTAGTAATTTTACAAAC
1 C-AAGGGTATTTTGGTAATTTTACAAAT
** *
37360056 CAAGGGTATTTTGGTAATTTTGTAAAC
1 CAAGGGTATTTTGGTAATTTTACAAAT
* *
37360083 CAATGGTATTTTGG-AATTTTACAAAC
1 CAAGGGTATTTTGGTAATTTTACAAAT
* * * *
37360109 CAGGGGTATTTTGGTGATTTTATAAAC
1 CAAGGGTATTTTGGTAATTTTACAAAT
* *
37360136 CAAGGGTATTTTAGTAATTTTACAAAC
1 CAAGGGTATTTTGGTAATTTTACAAAT
37360163 CAAGGGTATTTTGGTAATTT
1 CAAGGGTATTTTGGTAATTT
37360183 GGTAAACTAA
Statistics
Matches: 286, Mismatches: 52, Indels: 10
0.82 0.15 0.03
Matches are distributed among these distances:
26 23 0.08
27 261 0.91
28 2 0.01
ACGTcount: A:0.32, C:0.09, G:0.21, T:0.38
Consensus pattern (27 bp):
CAAGGGTATTTTGGTAATTTTACAAAT
Found at i:37360147 original size:107 final size:108
Alignment explanation
Indices: 37359852--37360189 Score: 403
Period size: 108 Copynumber: 3.1 Consensus size: 108
37359842 AGGGTAAAAC
* * * ** ***
37359852 GGTAATTCTGTAAATCAAGGGTACTTTGGTAATTTTACAAGTC-GAGGGTATTTCAATAATTTTA
1 GGTAATTTTGTAAACCAAGGGTATTTTGGTAATTTTACAAACCAG-GGGTATTTTGGTAATTTTA
* ** * * * ** *
37359916 CAGGTC-GAGGGTATTTCAGTAATTTCACAAATTAGGGGTATTTT
65 TA-AACAAAGGGTATTTTAGTAATTTTACAAACCAAGGGTATTTT
** * *
37359960 GGTAATTTTACAAACTAGGGGTATTTTGGTAATTTTACAAACCAGGGGTATTTTGGTAATTTTAT
1 GGTAATTTTGTAAACCAAGGGTATTTTGGTAATTTTACAAACCAGGGGTATTTTGGTAATTTTAT
*
37360025 AAACAAATGGTATTTTAGTAATTTTACAAACCAAGGGTATTTT
66 AAACAAAGGGTATTTTAGTAATTTTACAAACCAAGGGTATTTT
* *
37360068 GGTAATTTTGTAAACCAATGGTATTTTGG-AATTTTACAAACCAGGGGTATTTTGGTGATTTTAT
1 GGTAATTTTGTAAACCAAGGGTATTTTGGTAATTTTACAAACCAGGGGTATTTTGGTAATTTTAT
*
37360132 AAACCAAGGGTATTTTAGTAATTTTACAAACCAAGGGTATTTT
66 AAACAAAGGGTATTTTAGTAATTTTACAAACCAAGGGTATTTT
*
37360175 GGTAATTTGGTAAAC
1 GGTAATTTTGTAAAC
37360190 TAAAGTATTC
Statistics
Matches: 197, Mismatches: 31, Indels: 5
0.85 0.13 0.02
Matches are distributed among these distances:
107 90 0.46
108 106 0.54
109 1 0.01
ACGTcount: A:0.32, C:0.09, G:0.20, T:0.39
Consensus pattern (108 bp):
GGTAATTTTGTAAACCAAGGGTATTTTGGTAATTTTACAAACCAGGGGTATTTTGGTAATTTTAT
AAACAAAGGGTATTTTAGTAATTTTACAAACCAAGGGTATTTT
Found at i:37360189 original size:27 final size:27
Alignment explanation
Indices: 37359867--37360182 Score: 346
Period size: 27 Copynumber: 11.7 Consensus size: 27
37359857 TTCTGTAAAT
* **
37359867 CAAGGGTACTTTGGTAATTTTACAAGT
1 CAAGGGTATTTTGGTAATTTTACAAAC
* *** ***
37359894 CGAGGGTATTTCAATAATTTTACAGGT
1 CAAGGGTATTTTGGTAATTTTACAAAC
* ** * *
37359921 CGAGGGTATTTCAGTAATTTCACAAAT
1 CAAGGGTATTTTGGTAATTTTACAAAC
* *
37359948 TAGGGGTATTTTGGTAATTTTACAAAC
1 CAAGGGTATTTTGGTAATTTTACAAAC
* *
37359975 TAGGGGTATTTTGGTAATTTTACAAAC
1 CAAGGGTATTTTGGTAATTTTACAAAC
* *
37360002 CAGGGGTATTTTGGTAATTTTATAAAC
1 CAAGGGTATTTTGGTAATTTTACAAAC
* * *
37360029 AAATGGTATTTTAGTAATTTTACAAAC
1 CAAGGGTATTTTGGTAATTTTACAAAC
**
37360056 CAAGGGTATTTTGGTAATTTTGTAAAC
1 CAAGGGTATTTTGGTAATTTTACAAAC
*
37360083 CAATGGTATTTTGG-AATTTTACAAAC
1 CAAGGGTATTTTGGTAATTTTACAAAC
* * *
37360109 CAGGGGTATTTTGGTGATTTTATAAAC
1 CAAGGGTATTTTGGTAATTTTACAAAC
*
37360136 CAAGGGTATTTTAGTAATTTTACAAAC
1 CAAGGGTATTTTGGTAATTTTACAAAC
37360163 CAAGGGTATTTTGGTAATTT
1 CAAGGGTATTTTGGTAATTT
37360183 GGTAAACTAA
Statistics
Matches: 247, Mismatches: 41, Indels: 2
0.85 0.14 0.01
Matches are distributed among these distances:
26 22 0.09
27 225 0.91
ACGTcount: A:0.31, C:0.09, G:0.20, T:0.39
Consensus pattern (27 bp):
CAAGGGTATTTTGGTAATTTTACAAAC
Found at i:37367585 original size:19 final size:19
Alignment explanation
Indices: 37367561--37367599 Score: 78
Period size: 19 Copynumber: 2.1 Consensus size: 19
37367551 TAACGTGACC
37367561 GTATGTCACACATGACTGA
1 GTATGTCACACATGACTGA
37367580 GTATGTCACACATGACTGA
1 GTATGTCACACATGACTGA
37367599 G
1 G
37367600 ACACACGCCC
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
19 20 1.00
ACGTcount: A:0.31, C:0.21, G:0.23, T:0.26
Consensus pattern (19 bp):
GTATGTCACACATGACTGA
Found at i:37371753 original size:24 final size:24
Alignment explanation
Indices: 37371719--37371766 Score: 69
Period size: 24 Copynumber: 2.0 Consensus size: 24
37371709 TAATGACACG
* *
37371719 TCACTACAAATCATAAACTCTTTC
1 TCACTACAAATCACAAAATCTTTC
*
37371743 TCACTATAAATCACAAAATCTTTC
1 TCACTACAAATCACAAAATCTTTC
37371767 CCCGATTCAG
Statistics
Matches: 21, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
24 21 1.00
ACGTcount: A:0.40, C:0.27, G:0.00, T:0.33
Consensus pattern (24 bp):
TCACTACAAATCACAAAATCTTTC
Found at i:37376222 original size:23 final size:23
Alignment explanation
Indices: 37376164--37376257 Score: 93
Period size: 24 Copynumber: 3.9 Consensus size: 23
37376154 GAGCTATGAT
*
37376164 CAGTAAGCTCTTCTTGAGCTGATAGA
1 CAGTAAGCTC-TATTGAGCTGA-A-A
*
37376190 CAGTAAGCTCTATTGAGCTGAAT
1 CAGTAAGCTCTATTGAGCTGAAA
*
37376213 CGGTAAGCTCTGA-TGAGCTGAAAA
1 CAGTAAGCTCT-ATTGAGCTG-AAA
37376237 CAGTAAGCTCT-TATGAGCTGA
1 CAGTAAGCTCTAT-TGAGCTGA
37376258 TATATCCATA
Statistics
Matches: 59, Mismatches: 5, Indels: 11
0.79 0.07 0.15
Matches are distributed among these distances:
23 18 0.31
24 21 0.36
25 10 0.17
26 10 0.17
ACGTcount: A:0.30, C:0.18, G:0.24, T:0.28
Consensus pattern (23 bp):
CAGTAAGCTCTATTGAGCTGAAA
Found at i:37379308 original size:18 final size:18
Alignment explanation
Indices: 37379285--37379329 Score: 72
Period size: 18 Copynumber: 2.5 Consensus size: 18
37379275 ATGTGATTTG
37379285 CCCGTGTGGGCCTACACA
1 CCCGTGTGGGCCTACACA
**
37379303 CCCGTGTGGGCCTACATG
1 CCCGTGTGGGCCTACACA
37379321 CCCGTGTGG
1 CCCGTGTGG
37379330 CCCACTCAGC
Statistics
Matches: 25, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
18 25 1.00
ACGTcount: A:0.11, C:0.36, G:0.33, T:0.20
Consensus pattern (18 bp):
CCCGTGTGGGCCTACACA
Found at i:37383158 original size:14 final size:14
Alignment explanation
Indices: 37383139--37383169 Score: 53
Period size: 14 Copynumber: 2.2 Consensus size: 14
37383129 TCCACATTTC
*
37383139 TATTCATTTCATCA
1 TATTCACTTCATCA
37383153 TATTCACTTCATCA
1 TATTCACTTCATCA
37383167 TAT
1 TAT
37383170 ATAAACATTA
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
14 16 1.00
ACGTcount: A:0.29, C:0.23, G:0.00, T:0.48
Consensus pattern (14 bp):
TATTCACTTCATCA
Found at i:37390501 original size:7 final size:7
Alignment explanation
Indices: 37390488--37390519 Score: 50
Period size: 6 Copynumber: 4.9 Consensus size: 7
37390478 ATTTTTCAAG
37390488 TCATTTT
1 TCATTTT
37390495 T-ATTTT
1 TCATTTT
37390501 TCATTTT
1 TCATTTT
37390508 TCA-TTT
1 TCATTTT
37390514 TCATTT
1 TCATTT
37390520 CCAGTTTAGA
Statistics
Matches: 23, Mismatches: 0, Indels: 4
0.85 0.00 0.15
Matches are distributed among these distances:
6 12 0.52
7 11 0.48
ACGTcount: A:0.16, C:0.12, G:0.00, T:0.72
Consensus pattern (7 bp):
TCATTTT
Found at i:37390577 original size:6 final size:6
Alignment explanation
Indices: 37390554--37390589 Score: 54
Period size: 6 Copynumber: 5.7 Consensus size: 6
37390544 TTTCTAAATG
37390554 TTTTCA TTTCTCCA TTTTCA TTTTCA TTTTCA TTTT
1 TTTTCA TTT-T-CA TTTTCA TTTTCA TTTTCA TTTT
37390590 GGAGAAAACC
Statistics
Matches: 28, Mismatches: 0, Indels: 4
0.88 0.00 0.12
Matches are distributed among these distances:
6 21 0.75
7 2 0.07
8 5 0.18
ACGTcount: A:0.14, C:0.19, G:0.00, T:0.67
Consensus pattern (6 bp):
TTTTCA
Found at i:37390577 original size:63 final size:65
Alignment explanation
Indices: 37390505--37390646 Score: 191
Period size: 63 Copynumber: 2.2 Consensus size: 65
37390495 TATTTTTCAT
*
37390505 TTTTCATTTTCATTTCCAGTTTAGAGAAAAGCATAATAATTTCTAAATG-TTT-TCATTTCTCCA
1 TTTTCATTTTCATTTCCAGTTTAGAGAAAACCATAATAATTTCTAAATGATTTCTCATTTCTCCA
* * * * * *
37390568 TTTTCATTTTCATTTTCATTTTGGAGAAAACCATAATCATTTCTAAATGATTTCTTATTTCTCTA
1 TTTTCATTTTCATTTCCAGTTTAGAGAAAACCATAATAATTTCTAAATGATTTCTCATTTCTCCA
*
37390633 TTTT-TTTTTCATTT
1 TTTTCATTTTCATTT
37390647 ATATTCATTT
Statistics
Matches: 69, Mismatches: 8, Indels: 3
0.86 0.10 0.04
Matches are distributed among these distances:
63 44 0.64
64 12 0.17
65 13 0.19
ACGTcount: A:0.27, C:0.15, G:0.06, T:0.52
Consensus pattern (65 bp):
TTTTCATTTTCATTTCCAGTTTAGAGAAAACCATAATAATTTCTAAATGATTTCTCATTTCTCCA
Found at i:37394349 original size:26 final size:26
Alignment explanation
Indices: 37394311--37394369 Score: 73
Period size: 26 Copynumber: 2.3 Consensus size: 26
37394301 TATGTTAAAC
* *
37394311 AAAATAAAATTTAAATCATTATGATA
1 AAAATATAATTTAAATCACTATGATA
* * *
37394337 AAAATATAGTTTAGATCACTATTATA
1 AAAATATAATTTAAATCACTATGATA
37394363 AAAATAT
1 AAAATAT
37394370 GCAAAATACG
Statistics
Matches: 28, Mismatches: 5, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
26 28 1.00
ACGTcount: A:0.54, C:0.05, G:0.05, T:0.36
Consensus pattern (26 bp):
AAAATATAATTTAAATCACTATGATA
Found at i:37394774 original size:23 final size:21
Alignment explanation
Indices: 37394748--37394811 Score: 67
Period size: 21 Copynumber: 3.0 Consensus size: 21
37394738 AACTATAAAA
*
37394748 AATAAAATATTGCTAAAAATTAT
1 AATAAAATATT--TAAAAATAAT
* *
37394771 AATAAATTATTTGAAAATAAT
1 AATAAAATATTTAAAAATAAT
*
37394792 AAAAAAATA-TTAAAAATAAT
1 AATAAAATATTTAAAAATAAT
37394812 GTCCGTTATG
Statistics
Matches: 35, Mismatches: 6, Indels: 3
0.80 0.14 0.07
Matches are distributed among these distances:
20 10 0.29
21 15 0.43
23 10 0.29
ACGTcount: A:0.62, C:0.02, G:0.03, T:0.33
Consensus pattern (21 bp):
AATAAAATATTTAAAAATAAT
Found at i:37398933 original size:28 final size:28
Alignment explanation
Indices: 37398893--37398962 Score: 88
Period size: 28 Copynumber: 2.5 Consensus size: 28
37398883 GCAATCAAAT
* *
37398893 ATGGTACTCAGTGTACG-GAATATTGAGA
1 ATGGCACTTAGTGTACGAG-ATATTGAGA
*
37398921 ATGGCACTTAGTGTGCGAGATATTGAGA
1 ATGGCACTTAGTGTACGAGATATTGAGA
*
37398949 ATGACACTTAGTGT
1 ATGGCACTTAGTGT
37398963 GCAAAATATC
Statistics
Matches: 37, Mismatches: 4, Indels: 2
0.86 0.09 0.05
Matches are distributed among these distances:
28 36 0.97
29 1 0.03
ACGTcount: A:0.30, C:0.11, G:0.29, T:0.30
Consensus pattern (28 bp):
ATGGCACTTAGTGTACGAGATATTGAGA
Found at i:37398971 original size:28 final size:28
Alignment explanation
Indices: 37398911--37398971 Score: 95
Period size: 28 Copynumber: 2.2 Consensus size: 28
37398901 CAGTGTACGG
* *
37398911 AATATTGAGAATGGCACTTAGTGTGCGA
1 AATATTGAGAATGACACTTAGTGTGCAA
*
37398939 GATATTGAGAATGACACTTAGTGTGCAA
1 AATATTGAGAATGACACTTAGTGTGCAA
37398967 AATAT
1 AATAT
37398972 CGAATGATTC
Statistics
Matches: 29, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
28 29 1.00
ACGTcount: A:0.36, C:0.10, G:0.25, T:0.30
Consensus pattern (28 bp):
AATATTGAGAATGACACTTAGTGTGCAA
Found at i:37405203 original size:28 final size:28
Alignment explanation
Indices: 37405142--37405203 Score: 106
Period size: 28 Copynumber: 2.2 Consensus size: 28
37405132 TCAGTATACG
*
37405142 AAATATTGAGAATGACACTTAGTGTGCG
1 AAATATTGAGAATGACACTTAGTGTGCA
*
37405170 AGATATTGAGAATGACACTTAGTGTGCA
1 AAATATTGAGAATGACACTTAGTGTGCA
37405198 AAATAT
1 AAATAT
37405204 CGAATGATTC
Statistics
Matches: 31, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
28 31 1.00
ACGTcount: A:0.39, C:0.10, G:0.23, T:0.29
Consensus pattern (28 bp):
AAATATTGAGAATGACACTTAGTGTGCA
Found at i:37406335 original size:58 final size:58
Alignment explanation
Indices: 37406265--37406380 Score: 223
Period size: 58 Copynumber: 2.0 Consensus size: 58
37406255 TTTATTTTCA
37406265 TGGAAAATTAACGGAAATTGATTTGGAGTTTTGCATCTCCAGTTATAAATAATTTAGT
1 TGGAAAATTAACGGAAATTGATTTGGAGTTTTGCATCTCCAGTTATAAATAATTTAGT
*
37406323 TGGAAAATTAACGGGAATTGATTTGGAGTTTTGCATCTCCAGTTATAAATAATTTAGT
1 TGGAAAATTAACGGAAATTGATTTGGAGTTTTGCATCTCCAGTTATAAATAATTTAGT
37406381 GACTATTGCT
Statistics
Matches: 57, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
58 57 1.00
ACGTcount: A:0.34, C:0.09, G:0.20, T:0.38
Consensus pattern (58 bp):
TGGAAAATTAACGGAAATTGATTTGGAGTTTTGCATCTCCAGTTATAAATAATTTAGT
Found at i:37407705 original size:50 final size:50
Alignment explanation
Indices: 37407630--37408608 Score: 1428
Period size: 50 Copynumber: 19.5 Consensus size: 50
37407620 GTGATTCACG
37407630 TGTGTAGTACTAAGTGCAGGCTACTACGTATACCAGATTGATAGGTCGCA
1 TGTGTAGTACTAAGTGCAGGCTACTACGTATACCAGATTGATAGGTCGCA
* * * * * * * *
37407680 TGTGTAGTACTAAGTGCAGGCTACTATGCATACCCG-TTAACTTCGATCACG
1 TGTGTAGTACTAAGTGCAGGCTACTACGTATACCAGATTGA--TAGGTCGCA
37407731 TGTGTAGTACTAAGTGCAGGCTACTACGTATACCAGATTGATAGGTCGCA
1 TGTGTAGTACTAAGTGCAGGCTACTACGTATACCAGATTGATAGGTCGCA
* * * * * * * *
37407781 TGTGTAGTACTAAGTGCAGGCTACTATGCATACCCG-TTAACTTCGATCACG
1 TGTGTAGTACTAAGTGCAGGCTACTACGTATACCAGATTGA--TAGGTCGCA
* * * * * * * *
37407832 TGTGTAGTACTAAGTGTAGGCTACTACGTGTATCAGATGGTTAAGTCACG
1 TGTGTAGTACTAAGTGCAGGCTACTACGTATACCAGATTGATAGGTCGCA
* * *
37407882 TGTGTAGTACTAAGTGCGGGCTACTATGTGTACCAGATTGATAGGTCGCA
1 TGTGTAGTACTAAGTGCAGGCTACTACGTATACCAGATTGATAGGTCGCA
*
37407932 TGTGTAGTACTAAGTGCAGGCTACTATGTATACCAGATTGATAGGTCGCA
1 TGTGTAGTACTAAGTGCAGGCTACTACGTATACCAGATTGATAGGTCGCA
37407982 TGTGTAGTACTAAGTGCAGGCTACTACGTATACCAGATTGATAGGTCGCA
1 TGTGTAGTACTAAGTGCAGGCTACTACGTATACCAGATTGATAGGTCGCA
37408032 TGTGTAGTACTAAGTGCAGGCTACTACGTATACCAGATTGATAGGTCGCA
1 TGTGTAGTACTAAGTGCAGGCTACTACGTATACCAGATTGATAGGTCGCA
37408082 TGTGTAGTACTAAGTGCAGGCTACTACGTATACCAGATTGATAGGTCGCA
1 TGTGTAGTACTAAGTGCAGGCTACTACGTATACCAGATTGATAGGTCGCA
37408132 TGTGTAGTACTAAGTGCAGGCTACTACGTATACCAGATTGATAGGTCGCA
1 TGTGTAGTACTAAGTGCAGGCTACTACGTATACCAGATTGATAGGTCGCA
37408182 TGTGTAGTACTAAGTGCAGGCTACTACGTATACCAGATTGATAGGTCGCA
1 TGTGTAGTACTAAGTGCAGGCTACTACGTATACCAGATTGATAGGTCGCA
37408232 TGTGTAGTACTAAGTGCAGGCTACTACGTATACCAGATTGATAGGTCGCA
1 TGTGTAGTACTAAGTGCAGGCTACTACGTATACCAGATTGATAGGTCGCA
37408282 TGTGTAGTACTAAGTGCAGGCTACTACGTATACCAGATTGATAGGTCGCA
1 TGTGTAGTACTAAGTGCAGGCTACTACGTATACCAGATTGATAGGTCGCA
37408332 TGTGTAGTACTAAGTGCAGGCTACTACGTATACCAGATTGATAGGTCGCA
1 TGTGTAGTACTAAGTGCAGGCTACTACGTATACCAGATTGATAGGTCGCA
37408382 TGTGTAGTACTAAGTGCAGGCTACTACGTATACCAGATTGATAGGTCGCA
1 TGTGTAGTACTAAGTGCAGGCTACTACGTATACCAGATTGATAGGTCGCA
* ** * * * * *
37408432 TGTGTAGTACTAAGTGCAGGCTACTATGCGTACCCG-TTAACTTTGATCACA
1 TGTGTAGTACTAAGTGCAGGCTACTACGTATACCAGATTGA--TAGGTCGCA
* * * * * * *
37408483 TGTGTAGTACTAAGTGCAAGG-TACTACATGTATCAGATAGTTAAGTCAG-G
1 TGTGTAGTACTAAGTGC-AGGCTACTACGTATACCAGATTGATAGGTC-GCA
* * * *
37408533 TGTGTAGTACTAAGTGCAGACTACTACATGTACTAGATTGATAGGTCGCA
1 TGTGTAGTACTAAGTGCAGGCTACTACGTATACCAGATTGATAGGTCGCA
37408583 TGTGTAGTACTAAGTGCAGGCTACTA
1 TGTGTAGTACTAAGTGCAGGCTACTA
37408609 TGCGTACCAG
Statistics
Matches: 839, Mismatches: 77, Indels: 26
0.89 0.08 0.03
Matches are distributed among these distances:
49 12 0.01
50 713 0.85
51 106 0.13
52 8 0.01
ACGTcount: A:0.28, C:0.18, G:0.26, T:0.29
Consensus pattern (50 bp):
TGTGTAGTACTAAGTGCAGGCTACTACGTATACCAGATTGATAGGTCGCA
Found at i:37408840 original size:16 final size:16
Alignment explanation
Indices: 37408819--37408850 Score: 55
Period size: 16 Copynumber: 2.0 Consensus size: 16
37408809 AGAATGGAGT
37408819 AAGTGAAATTATGTAA
1 AAGTGAAATTATGTAA
*
37408835 AAGTGAAATTTTGTAA
1 AAGTGAAATTATGTAA
37408851 TAAAACAATT
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
16 15 1.00
ACGTcount: A:0.47, C:0.00, G:0.19, T:0.34
Consensus pattern (16 bp):
AAGTGAAATTATGTAA
Found at i:37410793 original size:117 final size:118
Alignment explanation
Indices: 37410651--37410879 Score: 363
Period size: 117 Copynumber: 1.9 Consensus size: 118
37410641 CTGCATTATG
* * *
37410651 GAGGAAATTTGGAAGCCGTATATATGAAAGATTCTCTAGCCAACAGGTTAGTATTATAAAAACAT
1 GAGGAAATTTGGAAGCCGTATATATGAAAAATACTCTAGCCAACAGGTTAGTATCATAAAAACAT
*
37410716 CTCTACGCA-TTCAAAATGGCTGAAGGTCAGTCCATTAGAACTCATATTAGTGA
66 CTCTACG-AGTTCAAAATGGCTGAAGGTCAATCCATTAGAACTCATATTAGTGA
* * *
37410769 GAGGAAA-TTGGAAGCCTTATATATGAAAAATACTCTAGCCAACAGGTTAGTATCCTAAAAACGT
1 GAGGAAATTTGGAAGCCGTATATATGAAAAATACTCTAGCCAACAGGTTAGTATCATAAAAACAT
*
37410833 CTCTACGAGTTCAGAATGGCTGAAGGTCAATCCATTAGAACTCATAT
66 CTCTACGAGTTCAAAATGGCTGAAGGTCAATCCATTAGAACTCATAT
37410880 GAGTTTGTTA
Statistics
Matches: 102, Mismatches: 8, Indels: 3
0.90 0.07 0.03
Matches are distributed among these distances:
116 1 0.01
117 94 0.92
118 7 0.07
ACGTcount: A:0.37, C:0.17, G:0.19, T:0.27
Consensus pattern (118 bp):
GAGGAAATTTGGAAGCCGTATATATGAAAAATACTCTAGCCAACAGGTTAGTATCATAAAAACAT
CTCTACGAGTTCAAAATGGCTGAAGGTCAATCCATTAGAACTCATATTAGTGA
Found at i:37413097 original size:29 final size:29
Alignment explanation
Indices: 37413042--37413099 Score: 73
Period size: 29 Copynumber: 2.0 Consensus size: 29
37413032 AAAAAATAAA
* *
37413042 AGAATTATGAAAAATTATAAGAAATTATT
1 AGAATTATAAAAAATAATAAGAAATTATT
*
37413071 AGAATTATTAAAAAATAATAA-ATATTATT
1 AGAATTA-TAAAAAATAATAAGAAATTATT
37413100 TAAAACAATG
Statistics
Matches: 25, Mismatches: 3, Indels: 2
0.83 0.10 0.07
Matches are distributed among these distances:
29 14 0.56
30 11 0.44
ACGTcount: A:0.57, C:0.00, G:0.07, T:0.36
Consensus pattern (29 bp):
AGAATTATAAAAAATAATAAGAAATTATT
Found at i:37415784 original size:23 final size:23
Alignment explanation
Indices: 37415758--37415828 Score: 142
Period size: 23 Copynumber: 3.1 Consensus size: 23
37415748 ATAAAGCTTG
37415758 ATAAATTCGTATGAATATGTTAA
1 ATAAATTCGTATGAATATGTTAA
37415781 ATAAATTCGTATGAATATGTTAA
1 ATAAATTCGTATGAATATGTTAA
37415804 ATAAATTCGTATGAATATGTTAA
1 ATAAATTCGTATGAATATGTTAA
37415827 AT
1 AT
37415829 GAGATAGAAT
Statistics
Matches: 48, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
23 48 1.00
ACGTcount: A:0.44, C:0.04, G:0.13, T:0.39
Consensus pattern (23 bp):
ATAAATTCGTATGAATATGTTAA
Found at i:37421476 original size:17 final size:18
Alignment explanation
Indices: 37421442--37421476 Score: 54
Period size: 18 Copynumber: 2.0 Consensus size: 18
37421432 ATTGAGTCTG
*
37421442 AGATTATCGGGCCGTATC
1 AGATTATCGAGCCGTATC
37421460 AGATTATCGAG-CGTATC
1 AGATTATCGAGCCGTATC
37421477 GGGCCAGTTG
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
17 6 0.38
18 10 0.62
ACGTcount: A:0.26, C:0.20, G:0.26, T:0.29
Consensus pattern (18 bp):
AGATTATCGAGCCGTATC
Found at i:37423047 original size:40 final size:40
Alignment explanation
Indices: 37422949--37424011 Score: 1907
Period size: 40 Copynumber: 26.6 Consensus size: 40
37422939 TCCTCGTTCA
* * * * *
37422949 AATGCCTTCGGGACATAGCCCGGTTTTAGTAACTCACAC-
1 AATGCCTTCGGGACTTAACCCGGATTTAATAACTCGCACG
* *
37422988 AATGCCTTCGGGACATAACCCGGATTTAACAACTCGCACG
1 AATGCCTTCGGGACTTAACCCGGATTTAATAACTCGCACG
* *
37423028 AATGCCTTCGGGACTTAACCCGGATTTAACAACCCGCACG
1 AATGCCTTCGGGACTTAACCCGGATTTAATAACTCGCACG
37423068 AATGCCTTCGGGACTTAACCCGGATTTAATAACTCGCACG
1 AATGCCTTCGGGACTTAACCCGGATTTAATAACTCGCACG
37423108 AATGCCTTCGGGACTTAACCCGGATTTAATAACTCGCACG
1 AATGCCTTCGGGACTTAACCCGGATTTAATAACTCGCACG
37423148 AATGCCTTCGGGACTTAACCCGGATTTAATAACTCGCACG
1 AATGCCTTCGGGACTTAACCCGGATTTAATAACTCGCACG
37423188 AATGCCTTCGGGACTTAACCCGGATTTAATAACTCGCACG
1 AATGCCTTCGGGACTTAACCCGGATTTAATAACTCGCACG
37423228 AATGCCTTCGGGACTTAACCCGGATTTAATAACTCGCACG
1 AATGCCTTCGGGACTTAACCCGGATTTAATAACTCGCACG
37423268 AATGCCTTCGGGACTTAACCCGGATTTAATAACTCGCACG
1 AATGCCTTCGGGACTTAACCCGGATTTAATAACTCGCACG
37423308 AATGCCTTCGGGACTTAACCCGGATTTAATAACTCGCACG
1 AATGCCTTCGGGACTTAACCCGGATTTAATAACTCGCACG
37423348 AATGCCTTCGGGACTTAACCCGGATTTAATAACTCGCACG
1 AATGCCTTCGGGACTTAACCCGGATTTAATAACTCGCACG
37423388 AATGCCTTCGGGACTTAACCCGGATTTAATAACTCGCACG
1 AATGCCTTCGGGACTTAACCCGGATTTAATAACTCGCACG
37423428 AATGCCTTCGGGACTTAACCCGGATTTAATAACTCGCACG
1 AATGCCTTCGGGACTTAACCCGGATTTAATAACTCGCACG
37423468 AATGCCTTCGGGACTTAACCCGGATTTAATAACTCGCACG
1 AATGCCTTCGGGACTTAACCCGGATTTAATAACTCGCACG
37423508 AATGCCTTCGGGACTTAACCCGGATTTAATAACTCGCACG
1 AATGCCTTCGGGACTTAACCCGGATTTAATAACTCGCACG
37423548 AATGCCTTCGGGACTTAACCCGGATTTAATAACTCGCACG
1 AATGCCTTCGGGACTTAACCCGGATTTAATAACTCGCACG
37423588 AATGCCTTCGGGACTTAACCCGGATTTAATAACTCGCACG
1 AATGCCTTCGGGACTTAACCCGGATTTAATAACTCGCACG
37423628 AATGCCTTCGGGACTTAACCCGGATTTAATAACTCGCACG
1 AATGCCTTCGGGACTTAACCCGGATTTAATAACTCGCACG
37423668 AATGCCTTCGGGACTTAACCCGGATTTAATAACTCGCACG
1 AATGCCTTCGGGACTTAACCCGGATTTAATAACTCGCACG
37423708 AATGCCTTCGGGACTTAACCCGGATTTAATAACTCGCACG
1 AATGCCTTCGGGACTTAACCCGGATTTAATAACTCGCACG
37423748 AATGCCTTCGGGACTTAACCCGGATTTAATAACTCGCACG
1 AATGCCTTCGGGACTTAACCCGGATTTAATAACTCGCACG
37423788 AATGCCTTCGGGACTTAACCCGGATTTAATAACTCGCACG
1 AATGCCTTCGGGACTTAACCCGGATTTAATAACTCGCACG
37423828 AATGCCTTCGGGACTTAACCCGGATTTAATAACTCGCACG
1 AATGCCTTCGGGACTTAACCCGGATTTAATAACTCGCACG
37423868 AATGCCTTCGGGACTTAACCCGGATTTAATAACTCGCACG
1 AATGCCTTCGGGACTTAACCCGGATTTAATAACTCGCACG
* * *
37423908 AATGCCTTCGGGACTTAACCCGGATTTAGTATCTCGCACA
1 AATGCCTTCGGGACTTAACCCGGATTTAATAACTCGCACG
* * * * * *
37423948 AAGGCCTTC-GGATCTTAATCCGGATATATTCACTTAGCAC-
1 AATGCCTTCGGGA-CTTAACCCGGATTTAATAAC-TCGCACG
* *
37423988 AAAGCCTTCGGGACTTAGCCCGGA
1 AATGCCTTCGGGACTTAACCCGGA
37424012 CAGCATTCAA
Statistics
Matches: 998, Mismatches: 22, Indels: 7
0.97 0.02 0.01
Matches are distributed among these distances:
39 37 0.04
40 953 0.95
41 8 0.01
ACGTcount: A:0.27, C:0.28, G:0.20, T:0.25
Consensus pattern (40 bp):
AATGCCTTCGGGACTTAACCCGGATTTAATAACTCGCACG
Found at i:37427924 original size:43 final size:42
Alignment explanation
Indices: 37427885--37427975 Score: 114
Period size: 42 Copynumber: 2.1 Consensus size: 42
37427875 TTTTACATGT
*
37427885 AATCAAATATAGATGCC-ACTGTCCCAAACAG-GGTCTTACACAA
1 AATCAAATACA-ATGCCAACT-TCCCAAAC-GTGGTCTTACACAA
*
37427928 AATCAAATACAATGCCAACTTCCCAGACGTGGTCTTACACATA
1 AATCAAATACAATGCCAACTTCCCAAACGTGGTCTTACACA-A
37427971 AATCA
1 AATCA
37427976 TAAGTCGATG
Statistics
Matches: 43, Mismatches: 2, Indels: 6
0.84 0.04 0.12
Matches are distributed among these distances:
41 1 0.02
42 23 0.53
43 19 0.44
ACGTcount: A:0.40, C:0.26, G:0.12, T:0.22
Consensus pattern (42 bp):
AATCAAATACAATGCCAACTTCCCAAACGTGGTCTTACACAA
Found at i:37427962 original size:42 final size:42
Alignment explanation
Indices: 37427850--37427975 Score: 121
Period size: 43 Copynumber: 3.0 Consensus size: 42
37427840 AGAAAGCTCG
* * * * ***
37427850 TACAATGCCAACGTCCTAGACATGGTTTTACATGTAATCAAA
1 TACAATGCCAACTTCCCAGACGTGGTCTTACACAAAATCAAA
* *
37427892 TATAGATGCC-ACTGTCCCAAACAG-GGTCTTACACAAAATCAAA
1 TACA-ATGCCAACT-TCCCAGAC-GTGGTCTTACACAAAATCAAA
37427935 TACAATGCCAACTTCCCAGACGTGGTCTTACACATAAATCA
1 TACAATGCCAACTTCCCAGACGTGGTCTTACACA-AAATCA
37427976 TAAGTCGATG
Statistics
Matches: 67, Mismatches: 11, Indels: 11
0.75 0.12 0.12
Matches are distributed among these distances:
41 1 0.01
42 28 0.42
43 38 0.57
ACGTcount: A:0.37, C:0.25, G:0.13, T:0.25
Consensus pattern (42 bp):
TACAATGCCAACTTCCCAGACGTGGTCTTACACAAAATCAAA
Found at i:37427996 original size:44 final size:43
Alignment explanation
Indices: 37427885--37428016 Score: 119
Period size: 44 Copynumber: 3.0 Consensus size: 43
37427875 TTTTACATGT
* *
37427885 AATCAAATATAGATGCCACTGTCCCAAACAG-GGTCTTACACA-A
1 AATCAAATA-CGATGCCAATGTCCCAAAC-GTGGTCTTACACATA
* *
37427928 AATCAAATACAATGCCAACT-TCCCAGACGTGGTCTTACACATA
1 AATCAAATACGATGCCAA-TGTCCCAAACGTGGTCTTACACATA
* * *
37427971 AATCATAAGT-CGATGCCAATGTCCCATATGTGGTTTTACACGATA
1 AATCA-AA-TACGATGCCAATGTCCCAAACGTGGTCTTACAC-ATA
37428016 A
1 A
37428017 CACATATCGG
Statistics
Matches: 74, Mismatches: 8, Indels: 12
0.79 0.09 0.13
Matches are distributed among these distances:
41 1 0.01
42 24 0.32
43 17 0.23
44 27 0.36
45 5 0.07
ACGTcount: A:0.36, C:0.24, G:0.14, T:0.25
Consensus pattern (43 bp):
AATCAAATACGATGCCAATGTCCCAAACGTGGTCTTACACATA
Found at i:37431223 original size:42 final size:41
Alignment explanation
Indices: 37431171--37431325 Score: 150
Period size: 42 Copynumber: 3.7 Consensus size: 41
37431161 CTAAGACTAT
* *
37431171 GTGTAAGACCATATCTGGGATATGGCATCAATATGAGACTTC
1 GTGTAAGACCATATCTGGGATATGGCATCGATGTGAGA-TTC
* * * *
37431213 GTGTGAGACCATAT-TCAGGATATGGAATTGATGTGAGATTTC
1 GTGTAAGACCATATCT-GGGATATGGCATCGATGTGAGA-TTC
* * * * *
37431255 TTGTAAGACCATAGCTGGGCTATTGGCATCGATGCGAGATCCC
1 GTGTAAGACCATATCTGGGATA-TGGCATCGATGTGAGAT-TC
*
37431298 ATGTAAGACCATATCTGGGATATGGCAT
1 GTGTAAGACCATATCTGGGATATGGCAT
37431326 TGGTATGGTA
Statistics
Matches: 90, Mismatches: 19, Indels: 8
0.77 0.16 0.07
Matches are distributed among these distances:
41 1 0.01
42 55 0.61
43 34 0.38
ACGTcount: A:0.28, C:0.16, G:0.26, T:0.29
Consensus pattern (41 bp):
GTGTAAGACCATATCTGGGATATGGCATCGATGTGAGATTC
Found at i:37433884 original size:46 final size:46
Alignment explanation
Indices: 37433831--37434103 Score: 365
Period size: 46 Copynumber: 5.9 Consensus size: 46
37433821 TAGGATGGTT
37433831 GAGCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGC
1 GAGCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGC
37433877 GAGCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGC
1 GAGCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGC
*** * *
37433923 GAATGTCCGAACTCGTTGAGTTGAGTCCGAGTTC-GTGA--GATGTAAC
1 GAGCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATG---C
*
37433969 TAGGCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGAT-C
1 GA-GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGC
*
37434015 TAGGCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGC
1 GA-GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGC
* ** * *
37434062 GAACGCCCGAGCTCGTTGAGTTGAGTCCGAGTTCGCTTATGG
1 GAGCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGG
37434104 GCGGGTTACA
Statistics
Matches: 202, Mismatches: 17, Indels: 16
0.86 0.07 0.07
Matches are distributed among these distances:
43 4 0.02
45 2 0.01
46 160 0.79
47 31 0.15
48 2 0.01
50 3 0.01
ACGTcount: A:0.21, C:0.21, G:0.29, T:0.29
Consensus pattern (46 bp):
GAGCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGC
Found at i:37434005 original size:93 final size:90
Alignment explanation
Indices: 37433835--37434103 Score: 337
Period size: 93 Copynumber: 2.9 Consensus size: 90
37433825 ATGGTTGAGC
*
37433835 ATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAGCATCCGAACTCGTTGAGTTG
1 ATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTGA-GGATGCGAGCATCCGAACTCGTTGAGTTG
*
37433900 AGTCCGAGTTCACTTATGGATGCGAATG
65 AGTCCGAGTTCACTTATGGAT-C-AAGG
* *
37433928 -TCCGAACTCGTTGAGTTGAGTCCGAGTTC-GTGA-GATGTAACTAGGCATCCGAACTCGTTGAG
1 ATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTGAGGATG---CGA-GCATCCGAACTCGTTGAG
*
37433990 TTGAGTCCGAGTTCACTTATGGATCTAGG
62 TTGAGTCCGAGTTCACTTATGGATCAAGG
* * ** *
37434019 CATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAGCTCGTTGAGTT
1 -ATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTGA-GGATGCGAGCATCCGAACTCGTTGAGTT
*
37434084 GAGTCCGAGTTCGCTTATGG
64 GAGTCCGAGTTCACTTATGG
37434104 GCGGGTTACA
Statistics
Matches: 154, Mismatches: 13, Indels: 19
0.83 0.07 0.10
Matches are distributed among these distances:
89 4 0.03
91 4 0.03
92 67 0.44
93 73 0.47
94 2 0.01
96 4 0.03
ACGTcount: A:0.21, C:0.21, G:0.29, T:0.29
Consensus pattern (90 bp):
ATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTGAGGATGCGAGCATCCGAACTCGTTGAGTTGA
GTCCGAGTTCACTTATGGATCAAGG
Found at i:37434083 original size:139 final size:139
Alignment explanation
Indices: 37433833--37434096 Score: 476
Period size: 139 Copynumber: 1.9 Consensus size: 139
37433823 GGATGGTTGA
37433833 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAGCATCCGAACTCGTTGAGT
1 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAGCATCCGAACTCGTTGAGT
* *
37433898 TGAGTCCGAGTTCACTTATGGATGCGAATGTCCGAACTCGTTGAGTTGAGTCCGAGTTCGTGAGA
66 TGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAACTCGTTGAGTTGAGTCCGAGTTCGTGAGA
37433963 TGTAACTAG
131 TGTAACTAG
*
37433972 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGAT-CTAGGCATCCGAACTCGTTGAG
1 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGA-GCATCCGAACTCGTTGAG
*
37434036 TTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAGCTCGTTGAGTTGAGTCCGAGTTCG
65 TTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAACTCGTTGAGTTGAGTCCGAGTTCG
37434097 CTTATGGGCG
Statistics
Matches: 120, Mismatches: 4, Indels: 2
0.95 0.03 0.02
Matches are distributed among these distances:
138 2 0.02
139 118 0.98
ACGTcount: A:0.21, C:0.22, G:0.29, T:0.28
Consensus pattern (139 bp):
GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAGCATCCGAACTCGTTGAGT
TGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAACTCGTTGAGTTGAGTCCGAGTTCGTGAGA
TGTAACTAG
Found at i:37435748 original size:9 final size:9
Alignment explanation
Indices: 37435734--37435770 Score: 74
Period size: 9 Copynumber: 4.1 Consensus size: 9
37435724 CAAATGTACG
37435734 ACCTCCCCC
1 ACCTCCCCC
37435743 ACCTCCCCC
1 ACCTCCCCC
37435752 ACCTCCCCC
1 ACCTCCCCC
37435761 ACCTCCCCC
1 ACCTCCCCC
37435770 A
1 A
37435771 ATTCCTCAAC
Statistics
Matches: 28, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
9 28 1.00
ACGTcount: A:0.14, C:0.76, G:0.00, T:0.11
Consensus pattern (9 bp):
ACCTCCCCC
Found at i:37439753 original size:39 final size:40
Alignment explanation
Indices: 37439652--37439875 Score: 257
Period size: 40 Copynumber: 5.7 Consensus size: 40
37439642 TTGAATGATG
* *
37439652 TCCGGGCTAAGTCCCGAAGGC-TTTGTGCTA-AGTGAC-CAT
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGA-T-ACTAAT
*
37439691 ATCCGGACTAAGAT-CCGAAGGCATTTGTGCGAGATACTAAT
1 -TCCGGGCTAAG-TCCCGAAGGCATTTGTGCGAGATACTAAT
37439732 TCCGGGCTAAG-CCCGAAGGCATTTGTGCGAGATACTAAT
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGATACTAAT
* * *
37439771 TCTGGGCTAAG-CCCGAAGGCATTTGTGCGAGTTACTAAA
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGATACTAAT
*
37439810 TCCGGGTTAAGTCCCGAAGGCATTTGTGCGA-ATTACT-AT
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGA-TACTAAT
* *
37439849 AACCGGGCTATGTCCCGAAGGCATTTG
1 -TCCGGGCTAAGTCCCGAAGGCATTTG
37439876 AACGAGGAGC
Statistics
Matches: 162, Mismatches: 14, Indels: 16
0.84 0.07 0.08
Matches are distributed among these distances:
39 73 0.45
40 76 0.47
41 12 0.07
42 1 0.01
ACGTcount: A:0.25, C:0.22, G:0.27, T:0.25
Consensus pattern (40 bp):
TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGATACTAAT
Found at i:37439800 original size:78 final size:80
Alignment explanation
Indices: 37439652--37439875 Score: 271
Period size: 79 Copynumber: 2.8 Consensus size: 80
37439642 TTGAATGATG
* * * * *
37439652 TCCGGGCTAAGTCCCGAAGGC-TTTGTGCTAAGTGACCATATCCGGACTAAGAT-CCGAAGGCAT
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAA-TTACTATAACCGGGCTAAG-TCCCGAAGGCAT
*
37439715 TTGTGCGAGATACTAAT
64 TTGTGCGAGATACTAAA
* *
37439732 TCCGGGCTAAG-CCCGAAGGCATTTGTGCGAGA-TACTA-ATTCTGGGCTAAG-CCCGAAGGCAT
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGA-ATTACTATA-ACCGGGCTAAGTCCCGAAGGCAT
*
37439793 TTGTGCGAGTTACTAAA
64 TTGTGCGAGATACTAAA
* *
37439810 TCCGGGTTAAGTCCCGAAGGCATTTGTGCGAATTACTATAACCGGGCTATGTCCCGAAGGCATTT
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAATTACTATAACCGGGCTAAGTCCCGAAGGCATTT
37439875 G
66 G
37439876 AACGAGGAGC
Statistics
Matches: 125, Mismatches: 11, Indels: 16
0.82 0.07 0.11
Matches are distributed among these distances:
78 37 0.30
79 53 0.42
80 34 0.27
81 1 0.01
ACGTcount: A:0.25, C:0.22, G:0.27, T:0.25
Consensus pattern (80 bp):
TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAATTACTATAACCGGGCTAAGTCCCGAAGGCATTT
GTGCGAGATACTAAA
Found at i:37439897 original size:79 final size:79
Alignment explanation
Indices: 37439652--37439908 Score: 208
Period size: 79 Copynumber: 3.3 Consensus size: 79
37439642 TTGAATGATG
* * * * *
37439652 TCCGGGCTAAGTCCCGAAGGC-TTTGTGCTA-AGTGAC-CATATCCGGACTAAGATCCGAAGGCA
1 TCCGGGTTAAGTCCCGAAGGCATTTGTGCGAGA-T-ACTAATA-CCGGGCTAAG-CCCGAAGGCA
** *
37439714 TTTGTGCGAGAT-ACTAAT
62 TTTGAACGAG-TGACTAAA
* * *
37439732 TCCGGGCTAAG-CCCGAAGGCATTTGTGCGAGATACTAATTCTGGGCTAAGCCCGAAGGCATTTG
1 TCCGGGTTAAGTCCCGAAGGCATTTGTGCGAGATACTAATACCGGGCTAAGCCCGAAGGCATTTG
** *
37439796 TGCGAGTTACTAAA
66 AACGAGTGACTAAA
*
37439810 TCCGGGTTAAGTCCCGAAGGCATTTGTGCGA-ATTACT-ATAACCGGGCTATGTCCCGAAGGCAT
1 TCCGGGTTAAGTCCCGAAGGCATTTGTGCGAGA-TACTAAT-ACCGGGCTAAG-CCCGAAGGCAT
*
37439873 TTGAACGAG-GAGCTATA
63 TTGAACGAGTGA-CTAAA
* *
37439890 TCC-GGTTAAATTCCGAAGG
1 TCCGGGTTAAGTCCCGAAGG
37439909 TACGTGATTT
Statistics
Matches: 151, Mismatches: 17, Indels: 19
0.81 0.09 0.10
Matches are distributed among these distances:
77 1 0.01
78 37 0.25
79 65 0.43
80 47 0.31
81 1 0.01
ACGTcount: A:0.26, C:0.22, G:0.27, T:0.25
Consensus pattern (79 bp):
TCCGGGTTAAGTCCCGAAGGCATTTGTGCGAGATACTAATACCGGGCTAAGCCCGAAGGCATTTG
AACGAGTGACTAAA
Found at i:37442184 original size:27 final size:27
Alignment explanation
Indices: 37442166--37442234 Score: 111
Period size: 27 Copynumber: 2.6 Consensus size: 27
37442156 GTAGGCTACT
37442166 ATTACTGAAATACCCCTGTAGGATAGA
1 ATTACTGAAATACCCCTGTAGGATAGA
* *
37442193 ATTACTGAAATGCCTCTGTAGGATAGA
1 ATTACTGAAATACCCCTGTAGGATAGA
*
37442220 ATTACAGAAATACCC
1 ATTACTGAAATACCC
37442235 TTAGTTTACA
Statistics
Matches: 37, Mismatches: 5, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
27 37 1.00
ACGTcount: A:0.38, C:0.19, G:0.17, T:0.26
Consensus pattern (27 bp):
ATTACTGAAATACCCCTGTAGGATAGA
Found at i:37442249 original size:27 final size:27
Alignment explanation
Indices: 37442219--37442588 Score: 184
Period size: 27 Copynumber: 13.7 Consensus size: 27
37442209 TGTAGGATAG
**
37442219 AATTA-CAGAAATACCCTTAGTTTACAA
1 AATTACCA-AAATACCCTTAGTTTGTAA
** * * *
37442246 AATTATTAAAATACCC-TCGCTTAGCAA
1 AATTACCAAAATACCCTTAG-TTTGTAA
* *
37442273 AATTACCAAAATACCCCTGGTTTGTAA
1 AATTACCAAAATACCCTTAGTTTGTAA
* *
37442300 AATTACCAAAATAGCCC-TAATTTGTGA
1 AATTACCAAAATA-CCCTTAGTTTGTAA
*** * *
37442327 AATTATTGAAATACCCTT-GTCCTATAA
1 AATTACCAAAATACCCTTAGT-TTGTAA
* * **
37442354 AATTACTAAAATACCCTCAACTTGTAA
1 AATTACCAAAATACCCTTAGTTTGTAA
*
37442381 AATTACCAAAATGCCCTCTA-TTTGTAA
1 AATTACCAAAATACCCT-TAGTTTGTAA
* *
37442408 AATTACCAAAATACCCCT-GATTTGGAA
1 AATTACCAAAATACCCTTAG-TTTGTAA
* * *
37442435 AATTATCGAAATACCCTT-GATTTGGAA
1 AATTACCAAAATACCCTTAG-TTTGTAA
* * **
37442462 AATTA-CAGAAATACCCCTAATTTACAA
1 AATTACCA-AAATACCCTTAGTTTGTAA
* * * ***
37442489 AATTA-CAGAAGTACCATTGACTTCCAAA
1 AATTACCA-AAATACCCTT-AGTTTGTAA
* * * *
37442517 AATTA-TAGAAATGCCATTGGTTTGTAA
1 AATTACCA-AAATACCCTTAGTTTGTAA
*
37442544 AATTACCAAAATACCCTTAGTTTGTAG
1 AATTACCAAAATACCCTTAGTTTGTAA
* *
37442571 ATTTACCAAAACACCCTT
1 AATTACCAAAATACCCTT
37442589 GTAGGGTGAA
Statistics
Matches: 266, Mismatches: 63, Indels: 28
0.75 0.18 0.08
Matches are distributed among these distances:
26 8 0.03
27 230 0.86
28 28 0.11
ACGTcount: A:0.40, C:0.20, G:0.09, T:0.31
Consensus pattern (27 bp):
AATTACCAAAATACCCTTAGTTTGTAA
Found at i:37442312 original size:81 final size:82
Alignment explanation
Indices: 37442219--37442562 Score: 208
Period size: 81 Copynumber: 4.2 Consensus size: 82
37442209 TGTAGGATAG
* *
37442219 AATTA-CAGAAATACCCTTAGTTTACAAAATTATTAAAATACCCTCG-CTTAGCAAAATTACCAA
1 AATTACCA-AAATACCCTTAATTTACAAAATTATCAAAATACCCTCGACTTAGCAAAATTACCAA
*
37442282 AATACCCCTGGTTTGTAA
65 AATACCCCTGATTTGTAA
*** ** * * * * *
37442300 AATTACCAAAATAGCCC-TAATTTGTGAAATTATTGAAATACCCTTGTCCTA-TAAAATTACTAA
1 AATTACCAAAATA-CCCTTAATTTACAAAATTATCAAAATACCCTCGACTTAGCAAAATTACCAA
* *
37442363 AATA-CCCTCAACTTGTAA
65 AATACCCCT-GATTTGTAA
* ** * * * * *
37442381 AATTACCAAAATGCCCTCT-ATTTGTAAAATTACCAAAATACCC-CTGA-TTTGGAAAATTATCG
1 AATTACCAAAATACCCT-TAATTTACAAAATTATCAAAATACCCTC-GACTTAGCAAAATTACCA
* *
37442443 AAATACCCTTGATTTGGAA
64 AAATACCCCTGATTTGTAA
* * * * * *
37442462 AATTA-CAGAAATACCCCTAATTTACAAAATTA-CAGAAGTACCATTGACTT-CCAAAAATTA-T
1 AATTACCA-AAATACCCTTAATTTACAAAATTATCA-AAATACCCTCGACTTAGC-AAAATTACC
* ** *
37442523 AGAAATGCCATTGGTTTGTAA
63 A-AAATACCCCTGATTTGTAA
37442544 AATTACCAAAATACCCTTA
1 AATTACCAAAATACCCTTA
37442563 GTTTGTAGAT
Statistics
Matches: 201, Mismatches: 45, Indels: 33
0.72 0.16 0.12
Matches are distributed among these distances:
80 13 0.06
81 135 0.67
82 51 0.25
83 2 0.01
ACGTcount: A:0.41, C:0.20, G:0.09, T:0.30
Consensus pattern (82 bp):
AATTACCAAAATACCCTTAATTTACAAAATTATCAAAATACCCTCGACTTAGCAAAATTACCAAA
ATACCCCTGATTTGTAA
Found at i:37442464 original size:108 final size:108
Alignment explanation
Indices: 37442226--37442494 Score: 300
Period size: 108 Copynumber: 2.5 Consensus size: 108
37442216 TAGAATTACA
* *
37442226 GAAATACCCTT-AGTTTACAAAATTATTAAAATACCCTCGCTTAGCAAAATTACCAAAATACCCC
1 GAAATACCCTTGA-TTTACAAAATTACTAAAATACCCTCACTTAGCAAAATTACCAAAATACCCC
* * *
37442290 TGGTTTGTAAAATTACCAAAATAGCCCTAATTTGTGAAATTATT
65 TGATTTGTAAAATTACCAAAATACCCCTAATTTGTGAAATTATC
* * * *
37442334 GAAATACCCTTG-TCCTATAAAATTACTAAAATACCCTCAACTT-GTAAAATTACCAAAATGCCC
1 GAAATACCCTTGAT-TTACAAAATTACTAAAATACCCTC-ACTTAGCAAAATTACCAAAATACCC
*
37442397 TCT-ATTTGTAAAATTACCAAAATACCCCTGATTTG-GAAAATTATC
64 -CTGATTTGTAAAATTACCAAAATACCCCTAATTTGTG-AAATTATC
** * *
37442442 GAAATACCCTTGATTTGGAAAATTAC-AGAAATACCCCTAATTTA-CAAAATTAC
1 GAAATACCCTTGATTTACAAAATTACTA-AAATA-CCCTCACTTAGCAAAATTAC
37442495 AGAAGTACCA
Statistics
Matches: 136, Mismatches: 16, Indels: 18
0.80 0.09 0.11
Matches are distributed among these distances:
107 3 0.02
108 123 0.90
109 10 0.07
ACGTcount: A:0.41, C:0.20, G:0.09, T:0.30
Consensus pattern (108 bp):
GAAATACCCTTGATTTACAAAATTACTAAAATACCCTCACTTAGCAAAATTACCAAAATACCCCT
GATTTGTAAAATTACCAAAATACCCCTAATTTGTGAAATTATC
Found at i:37442848 original size:41 final size:41
Alignment explanation
Indices: 37442803--37442880 Score: 138
Period size: 41 Copynumber: 1.9 Consensus size: 41
37442793 AGGAAGAAAA
37442803 TGAGGATCGCATGGTTGCTTGACGACCGTGGATCCACCGAT
1 TGAGGATCGCATGGTTGCTTGACGACCGTGGATCCACCGAT
* *
37442844 TGAGGATCGCATGGTTGCTTGATGACTGTGGATCCAC
1 TGAGGATCGCATGGTTGCTTGACGACCGTGGATCCAC
37442881 TGGTGGCTTT
Statistics
Matches: 35, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
41 35 1.00
ACGTcount: A:0.19, C:0.22, G:0.32, T:0.27
Consensus pattern (41 bp):
TGAGGATCGCATGGTTGCTTGACGACCGTGGATCCACCGAT
Found at i:37443074 original size:22 final size:23
Alignment explanation
Indices: 37443025--37443086 Score: 76
Period size: 22 Copynumber: 2.8 Consensus size: 23
37443015 AATTATTCTG
**
37443025 ATTATGGCTTTACGCCAACCTAC
1 ATTATGGCTTTGTGCCAACCTAC
37443048 A-TATGGCTTTGTGCCAACCTA-
1 ATTATGGCTTTGTGCCAACCTAC
37443069 ATTAT-GCTTGTGTGCCAA
1 ATTATGGCTT-TGTGCCAA
37443087 ACGTATTTGC
Statistics
Matches: 35, Mismatches: 2, Indels: 5
0.83 0.05 0.12
Matches are distributed among these distances:
21 5 0.14
22 29 0.83
23 1 0.03
ACGTcount: A:0.24, C:0.24, G:0.18, T:0.34
Consensus pattern (23 bp):
ATTATGGCTTTGTGCCAACCTAC
Found at i:37447626 original size:47 final size:44
Alignment explanation
Indices: 37447553--37447677 Score: 146
Period size: 47 Copynumber: 2.7 Consensus size: 44
37447543 GTCTCGAGGC
*
37447553 CGATGCATGTCCCAGACATGTTTTACACTAGCACTCATCTCAATGT-
1 CGATGCATGTCCCAGACATGTCTTACACTAGCACTCAT-T--ATGTG
*
37447599 CGATGCCATGTCCCAGA-ATGGTCTTACACTAGCTCTCATTATGTGG
1 CGATG-CATGTCCCAGACAT-GTCTTACACTAGCACTCATTATGT-G
*
37447645 CTGATGCATGTCCCAGACATGTCTGACACTAGC
1 C-GATGCATGTCCCAGACATGTCTTACACTAGC
37447678 TCACAATAAC
Statistics
Matches: 70, Mismatches: 3, Indels: 12
0.82 0.04 0.14
Matches are distributed among these distances:
44 4 0.06
46 32 0.46
47 34 0.49
ACGTcount: A:0.24, C:0.28, G:0.19, T:0.29
Consensus pattern (44 bp):
CGATGCATGTCCCAGACATGTCTTACACTAGCACTCATTATGTG
Found at i:37447678 original size:46 final size:45
Alignment explanation
Indices: 37447553--37447679 Score: 152
Period size: 46 Copynumber: 2.8 Consensus size: 45
37447543 GTCTCGAGGC
* *
37447553 CGATGCATGTCCCAGACATGTTTTACACTAGCACTCATCTCAATGT
1 CGATGCATGTCCCAGACATGTCTTACACTAGCTCTCATCT-AATGT
37447599 CGATGCCATGTCCCAGA-ATGGTCTTACACTAGCTCTCAT-T-ATGT
1 CGATG-CATGTCCCAGACAT-GTCTTACACTAGCTCTCATCTAATGT
*
37447643 GGCTGATGCATGTCCCAGACATGTCTGACACTAGCTC
1 --C-GATGCATGTCCCAGACATGTCTTACACTAGCTC
37447680 ACAATAACCC
Statistics
Matches: 72, Mismatches: 3, Indels: 12
0.83 0.03 0.14
Matches are distributed among these distances:
44 4 0.06
46 34 0.47
47 34 0.47
ACGTcount: A:0.24, C:0.28, G:0.19, T:0.29
Consensus pattern (45 bp):
CGATGCATGTCCCAGACATGTCTTACACTAGCTCTCATCTAATGT
Found at i:37451387 original size:20 final size:20
Alignment explanation
Indices: 37451362--37451408 Score: 60
Period size: 20 Copynumber: 2.4 Consensus size: 20
37451352 TTAGGGACAA
*
37451362 ATGAAAAGTT-GAAAATTTTT
1 ATGAAAAATTCGAAAA-TTTT
*
37451382 ATGAAAAATTCTAAAATTTT
1 ATGAAAAATTCGAAAATTTT
37451402 ATGAAAA
1 ATGAAAA
37451409 CATGTGCTGG
Statistics
Matches: 24, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
20 20 0.83
21 4 0.17
ACGTcount: A:0.51, C:0.02, G:0.11, T:0.36
Consensus pattern (20 bp):
ATGAAAAATTCGAAAATTTT
Found at i:37456838 original size:43 final size:43
Alignment explanation
Indices: 37456713--37456851 Score: 140
Period size: 42 Copynumber: 3.2 Consensus size: 43
37456703 TGTGTTATCA
** *
37456713 TGTAAGACCACATCTGGGAC-GTTGGCATCGAT-TTGTGATTTACG
1 TGTAAGACCATGTCTAGGACAG-TGGCATCGATATT-TGATTT-CG
* * * *
37456757 TGTAAAACCATGTCTGGGACATTGGCATCG-TATATGATTTCG
1 TGTAAGACCATGTCTAGGACAGTGGCATCGATATTTGATTTCG
* * *
37456799 TGTAAGACCCTGTCTAGGACAGTGGCATCGATATTTGATTACA
1 TGTAAGACCATGTCTAGGACAGTGGCATCGATATTTGATTTCG
37456842 TGTAAGACCA
1 TGTAAGACCA
37456852 CATCTGGGAC
Statistics
Matches: 79, Mismatches: 13, Indels: 7
0.80 0.13 0.07
Matches are distributed among these distances:
42 28 0.35
43 25 0.32
44 26 0.33
ACGTcount: A:0.27, C:0.18, G:0.24, T:0.31
Consensus pattern (43 bp):
TGTAAGACCATGTCTAGGACAGTGGCATCGATATTTGATTTCG
Found at i:37456868 original size:43 final size:43
Alignment explanation
Indices: 37456698--37456869 Score: 165
Period size: 43 Copynumber: 4.0 Consensus size: 43
37456688 CATAGGATTC
*
37456698 CGATATGTG-TTATCATGTAAGACCACATCTGGGACGTTGGCAT
1 CGATATTTGATTA-CATGTAAGACCACATCTGGGACGTTGGCAT
* * ** *
37456741 CGAT-TTGTGATTTACGTGTAAAACCATGTCTGGGACATTGGCAT
1 CGATATT-TGA-TTACATGTAAGACCACATCTGGGACGTTGGCAT
* * * * *
37456785 CG-TATATGATTTCGTGTAAGACC-CTGTCTAGGACAG-TGGCAT
1 CGATATTTGATTACATGTAAGACCAC-ATCTGGGAC-GTTGGCAT
37456827 CGATATTTGATTACATGTAAGACCACATCTGGGACGTTGGCAT
1 CGATATTTGATTACATGTAAGACCACATCTGGGACGTTGGCAT
37456870 TGTACAAGCT
Statistics
Matches: 103, Mismatches: 17, Indels: 18
0.75 0.12 0.13
Matches are distributed among these distances:
42 30 0.29
43 41 0.40
44 29 0.28
45 3 0.03
ACGTcount: A:0.26, C:0.18, G:0.25, T:0.31
Consensus pattern (43 bp):
CGATATTTGATTACATGTAAGACCACATCTGGGACGTTGGCAT
Found at i:37462270 original size:56 final size:56
Alignment explanation
Indices: 37462184--37462415 Score: 428
Period size: 56 Copynumber: 4.1 Consensus size: 56
37462174 ACAAGGGATG
* *
37462184 ATGGGAAAAACATGTCATGAAACATGTTGTGTTAATGGAAAAATAAAATAAGAAAC
1 ATGGGCAAAACATGTCATGAAACATGTTGTGTTAATGGAAAAATAAAATAAGAAGC
37462240 ATGGGCAAAACATGTCATGAAACATGTTGTGTTAATGGAAAAATAAAATAAGAAGC
1 ATGGGCAAAACATGTCATGAAACATGTTGTGTTAATGGAAAAATAAAATAAGAAGC
37462296 ATGGGCAAAACATGTCATGAAACATGTTGTGTTAATGGAAAAATAAAATAAGAAGC
1 ATGGGCAAAACATGTCATGAAACATGTTGTGTTAATGGAAAAATAAAATAAGAAGC
* *
37462352 ATGGGCAAAACATGTCATCAAACATGTTGTGTTAATGGAAGAATAAAATAAGAAGC
1 ATGGGCAAAACATGTCATGAAACATGTTGTGTTAATGGAAAAATAAAATAAGAAGC
37462408 ATGGGCAA
1 ATGGGCAA
37462416 TAAACTAATA
Statistics
Matches: 172, Mismatches: 4, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
56 172 1.00
ACGTcount: A:0.47, C:0.09, G:0.22, T:0.23
Consensus pattern (56 bp):
ATGGGCAAAACATGTCATGAAACATGTTGTGTTAATGGAAAAATAAAATAAGAAGC
Found at i:37469666 original size:53 final size:53
Alignment explanation
Indices: 37469568--37469670 Score: 134
Period size: 53 Copynumber: 1.9 Consensus size: 53
37469558 GGGGGAGAGT
* *
37469568 TGTGACAGCCCTAAAGTGACCCTAGTCGGAAAGCGGTCTCGGGACCGCTAGAC
1 TGTGACACCCCTAAAGTGACCCTAGTCGGAAAGCGGTCTCAGGACCGCTAGAC
** * * * *
37469621 TGTGACACCCCTAATTTGACCCTAGTTGGGAAGTGGTTTCAGGACCGCTA
1 TGTGACACCCCTAAAGTGACCCTAGTCGGAAAGCGGTCTCAGGACCGCTA
37469671 AACCGAGTTG
Statistics
Matches: 42, Mismatches: 8, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
53 42 1.00
ACGTcount: A:0.23, C:0.26, G:0.28, T:0.22
Consensus pattern (53 bp):
TGTGACACCCCTAAAGTGACCCTAGTCGGAAAGCGGTCTCAGGACCGCTAGAC
Found at i:37472137 original size:79 final size:78
Alignment explanation
Indices: 37472035--37472257 Score: 265
Period size: 79 Copynumber: 2.8 Consensus size: 78
37472025 GCTCCTCGTT
* *
37472035 CAAATGCCTTCGGGACATAGCCCGGTTATAGTAATTCGCACAAATGCCTTCGGGACTTAACCCGG
1 CAAATGCCTTCGGG-CTTAGCCCGG-TATAGTAATTCGCACAAATGCCTTCGGGACTTAGCCCGG
*
37472100 ATTTAGTAACTCGCA
64 AATTAGTAACTCGCA
*
37472115 CAAATGCCTTCGGGCTTAGCCCGGAATTAGT-ATCTCGCACAAATGCCTTCGGG-CTTAGCCCGG
1 CAAATGCCTTCGGGCTTAGCCCGGTA-TAGTAAT-TCGCACAAATGCCTTCGGGACTTAGCCCGG
*
37472178 AATTAGTATCTCGCA
64 AATTAGTAACTCGCA
* * * * *
37472193 CAAATGCCTTCGGATCTTAGTCCGGATATTGTCACTTAGCAC-AA-GCCTTCGGGACTTAGCCCG
1 CAAATGCCTTCGG-GCTTAGCCCGG-TATAGT-AATTCGCACAAATGCCTTCGGGACTTAGCCCG
37472256 GA
63 GA
37472258 CATCATTCAA
Statistics
Matches: 125, Mismatches: 11, Indels: 15
0.83 0.07 0.10
Matches are distributed among these distances:
78 47 0.38
79 57 0.46
80 20 0.16
81 1 0.01
ACGTcount: A:0.25, C:0.27, G:0.22, T:0.26
Consensus pattern (78 bp):
CAAATGCCTTCGGGCTTAGCCCGGTATAGTAATTCGCACAAATGCCTTCGGGACTTAGCCCGGAA
TTAGTAACTCGCA
Found at i:37472152 original size:39 final size:40
Alignment explanation
Indices: 37472035--37472257 Score: 266
Period size: 39 Copynumber: 5.7 Consensus size: 40
37472025 GCTCCTCGTT
* *
37472035 CAAATGCCTTCGGGACATAGCCCGG-TTATAGTAAT-TCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGAAT-TAGT-ATCTCGCA
* * *
37472075 CAAATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGAATTAGTATCTCGCA
37472115 CAAATGCCTTCGGG-CTTAGCCCGGAATTAGTATCTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGAATTAGTATCTCGCA
37472154 CAAATGCCTTCGGG-CTTAGCCCGGAATTAGTATCTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGAATTAGTATCTCGCA
* *
37472193 CAAATGCCTTC-GGATCTTAGTCCGGATATT-GTCA-CTTAGCA
1 CAAATGCCTTCGGGA-CTTAGCCCGGA-ATTAGT-ATC-TCGCA
37472234 C-AA-GCCTTCGGGACTTAGCCCGGA
1 CAAATGCCTTCGGGACTTAGCCCGGA
37472258 CATCATTCAA
Statistics
Matches: 166, Mismatches: 9, Indels: 17
0.86 0.05 0.09
Matches are distributed among these distances:
38 2 0.01
39 89 0.54
40 64 0.39
41 11 0.07
ACGTcount: A:0.25, C:0.27, G:0.22, T:0.26
Consensus pattern (40 bp):
CAAATGCCTTCGGGACTTAGCCCGGAATTAGTATCTCGCA
Found at i:37480149 original size:39 final size:41
Alignment explanation
Indices: 37480028--37480211 Score: 190
Period size: 40 Copynumber: 4.6 Consensus size: 41
37480018 GCTCCTCGTT
* *
37480028 CAAATGCCTTCGGGACATAGCCCGG-TTATAGTAAT-TCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGAAT-TAGTAATCTCGCA
* * *
37480068 CAAATGCCTTCGGGACTTAACCTGGATTTAGTAA-CTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGAATTAGTAATCTCGCA
37480108 CAAATGCCTTCGGG-CTTAGCCCGGAATTAGT-ATCTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGAATTAGTAATCTCGCA
* * *
37480147 CAAATGCCTTC-GGATCTTAGTCCGGATATT-GTCA-CTTAGCA
1 CAAATGCCTTCGGGA-CTTAGCCCGGA-ATTAGTAATC-TCGCA
37480188 C-AA-GCCTTCGGGACTTAGCCCGGA
1 CAAATGCCTTCGGGACTTAGCCCGGA
37480212 CATCATTCAA
Statistics
Matches: 126, Mismatches: 9, Indels: 19
0.82 0.06 0.12
Matches are distributed among these distances:
38 3 0.02
39 47 0.37
40 65 0.52
41 11 0.09
ACGTcount: A:0.25, C:0.27, G:0.22, T:0.26
Consensus pattern (41 bp):
CAAATGCCTTCGGGACTTAGCCCGGAATTAGTAATCTCGCA
Found at i:37480205 original size:79 final size:81
Alignment explanation
Indices: 37480028--37480211 Score: 215
Period size: 79 Copynumber: 2.3 Consensus size: 81
37480018 GCTCCTCGTT
* *
37480028 CAAATGCCTTCGGGACATAGCCCGG-TTATAGTAATTCGCACAAATGCCTTCGGGACTTAACCTG
1 CAAATGCCTTCGGGACTTAGCCCGGAATATAGTAATTCGCACAAATGCCTTCGGGACTTAACCTG
*
37480092 GATTTAGTAACTCGCA
66 GATTTAGTAACTAGCA
*
37480108 CAAATGCCTTCGGG-CTTAGCCCGGAAT-TAGT-ATCTCGCACAAATGCCTTC-GGATCTTAGTC
1 CAAATGCCTTCGGGACTTAGCCCGGAATATAGTAAT-TCGCACAAATGCCTTCGGGA-CTTA-AC
*
37480169 C-GGATATT-GTCACTTAGCA
63 CTGGAT-TTAGTAAC-TAGCA
37480188 C-AA-GCCTTCGGGACTTAGCCCGGA
1 CAAATGCCTTCGGGACTTAGCCCGGA
37480212 CATCATTCAA
Statistics
Matches: 92, Mismatches: 5, Indels: 15
0.82 0.04 0.13
Matches are distributed among these distances:
78 14 0.15
79 54 0.59
80 24 0.26
ACGTcount: A:0.25, C:0.27, G:0.22, T:0.26
Consensus pattern (81 bp):
CAAATGCCTTCGGGACTTAGCCCGGAATATAGTAATTCGCACAAATGCCTTCGGGACTTAACCTG
GATTTAGTAACTAGCA
Found at i:37483398 original size:47 final size:47
Alignment explanation
Indices: 37483335--37483573 Score: 352
Period size: 47 Copynumber: 5.1 Consensus size: 47
37483325 GAAATGATAG
* *
37483335 TAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATGTGTGA
1 TAAGGCCTAATAGCCGATGTGATGAATGTGAAAGTGTATATATGTGA
* *
37483382 TAAGGCCTAATAGCCGATGTGATGAGTGTGAAAGTGTATATGTGTGA
1 TAAGGCCTAATAGCCGATGTGATGAATGTGAAAGTGTATATATGTGA
*
37483429 TAAGGCCTAATAGCTGATGTGATGAATGTGAAAGTGTATATATGTGA
1 TAAGGCCTAATAGCCGATGTGATGAATGTGAAAGTGTATATATGTGA
37483476 TAAGGCCTAATAGCCGATGTGATGAATGTGAAAGTGTATATATGTGA
1 TAAGGCCTAATAGCCGATGTGATGAATGTGAAAGTGTATATATGTGA
* * * * * * * * *
37483523 TAGGGCCGAGTGGCCAACGTGATGGATGTGAAAGTGCATAAATGTGA
1 TAAGGCCTAATAGCCGATGTGATGAATGTGAAAGTGTATATATGTGA
37483570 TAAG
1 TAAG
37483574 TCCGGAAGGG
Statistics
Matches: 176, Mismatches: 16, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
47 176 1.00
ACGTcount: A:0.32, C:0.09, G:0.31, T:0.28
Consensus pattern (47 bp):
TAAGGCCTAATAGCCGATGTGATGAATGTGAAAGTGTATATATGTGA
Found at i:37483748 original size:37 final size:37
Alignment explanation
Indices: 37483692--37483770 Score: 115
Period size: 37 Copynumber: 2.1 Consensus size: 37
37483682 CCGAGCTCTA
* *
37483692 AAGACCCGATGACTACGTGTGG-GAATTTTGTCCGGGT
1 AAGACCCGATAACTACGTGTGGAG-ATTATGTCCGGGT
*
37483729 AAGACCCGATAACTTCGTGTGGAGATTATGTCCGGGT
1 AAGACCCGATAACTACGTGTGGAGATTATGTCCGGGT
37483766 AAGAC
1 AAGAC
37483771 TTCGTAATAA
Statistics
Matches: 38, Mismatches: 3, Indels: 2
0.88 0.07 0.05
Matches are distributed among these distances:
37 37 0.97
38 1 0.03
ACGTcount: A:0.25, C:0.19, G:0.30, T:0.25
Consensus pattern (37 bp):
AAGACCCGATAACTACGTGTGGAGATTATGTCCGGGT
Found at i:37487017 original size:40 final size:40
Alignment explanation
Indices: 37486867--37487018 Score: 209
Period size: 40 Copynumber: 3.8 Consensus size: 40
37486857 CATTTGAATG
* * *
37486867 ATATCCGGGCTAAGTCCCGAAGGCATTTATGCTAG-TGATT
1 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCGAGTTGA-T
*
37486907 TTATCCGGGCTAAGACCCGAAGGCATTTGTGCGAGTTGAT
1 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCGAGTTGAT
*
37486947 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCGAGTTGCT
1 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCGAGTTGAT
* *
37486987 ATA-CCTGGGTTAAGACCCGAAGGCAATTGTGC
1 ATATCC-GGGCTAAGACCCGAAGGCATTTGTGC
37487019 TTGTGGTTAT
Statistics
Matches: 102, Mismatches: 8, Indels: 4
0.89 0.07 0.04
Matches are distributed among these distances:
39 2 0.02
40 97 0.95
41 3 0.03
ACGTcount: A:0.24, C:0.21, G:0.28, T:0.26
Consensus pattern (40 bp):
ATATCCGGGCTAAGACCCGAAGGCATTTGTGCGAGTTGAT
Found at i:37487030 original size:80 final size:80
Alignment explanation
Indices: 37486867--37487038 Score: 206
Period size: 80 Copynumber: 2.2 Consensus size: 80
37486857 CATTTGAATG
* * * *
37486867 ATATCCGGGCTAAGTCCCGAAGGCATTTATGCTAGTGATTTTATCCGGGCTAAGACCCGAAGGCA
1 ATATCCGGGCTAAGACCCGAAGGCATTTATGCGAGTGACTATATCCGGGCTAAGACCCGAAGGCA
* *
37486932 TTTGTGCGAGTTGAT
66 ATTGTGCGAGTGGAT
* *
37486947 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCGAGTTG-CTATA-CCTGGGTTAAGACCCGAAGG
1 ATATCCGGGCTAAGACCCGAAGGCATTTATGCGAG-TGACTATATCC-GGGCTAAGACCCGAAGG
** *
37487010 CAATTGTGCTTGTGGTT
64 CAATTGTGCGAGTGGAT
37487027 ATATCC-GGCTAA
1 ATATCCGGGCTAA
37487039 ATTCCGAAGA
Statistics
Matches: 79, Mismatches: 11, Indels: 5
0.83 0.12 0.05
Matches are distributed among these distances:
79 8 0.10
80 69 0.87
81 2 0.03
ACGTcount: A:0.24, C:0.20, G:0.28, T:0.28
Consensus pattern (80 bp):
ATATCCGGGCTAAGACCCGAAGGCATTTATGCGAGTGACTATATCCGGGCTAAGACCCGAAGGCA
ATTGTGCGAGTGGAT
Found at i:37489748 original size:14 final size:14
Alignment explanation
Indices: 37489731--37489757 Score: 54
Period size: 14 Copynumber: 1.9 Consensus size: 14
37489721 AAATCACAAA
37489731 AAATTCACACATAC
1 AAATTCACACATAC
37489745 AAATTCACACATA
1 AAATTCACACATA
37489758 ATAAACATAG
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 13 1.00
ACGTcount: A:0.52, C:0.26, G:0.00, T:0.22
Consensus pattern (14 bp):
AAATTCACACATAC
Found at i:37496040 original size:37 final size:37
Alignment explanation
Indices: 37495982--37496121 Score: 235
Period size: 37 Copynumber: 3.8 Consensus size: 37
37495972 CAAATAGTCC
* * * *
37495982 CCACACGTAGTTATCGTGTCTTACCCAGACAAAATCT
1 CCACACGTAGTCATCGGGTCTTACCCGGACATAATCT
*
37496019 CCACACGTAGTCTTCGGGTCTTACCCGGACATAATCT
1 CCACACGTAGTCATCGGGTCTTACCCGGACATAATCT
37496056 CCACACGTAGTCATCGGGTCTTACCCGGACATAATCT
1 CCACACGTAGTCATCGGGTCTTACCCGGACATAATCT
37496093 CCACACGTAGTCATCGGGTCTTACCCGGA
1 CCACACGTAGTCATCGGGTCTTACCCGGA
37496122 ATATATTTCC
Statistics
Matches: 97, Mismatches: 6, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
37 97 1.00
ACGTcount: A:0.24, C:0.32, G:0.19, T:0.25
Consensus pattern (37 bp):
CCACACGTAGTCATCGGGTCTTACCCGGACATAATCT
Found at i:37496320 original size:48 final size:48
Alignment explanation
Indices: 37496262--37496501 Score: 376
Period size: 48 Copynumber: 5.0 Consensus size: 48
37496252 ATATACACAC
*
37496262 ATCTCCTACATATTTCACACTAGCCATTCGGCTTTACCACATATACAT
1 ATCTCATACATATTTCACACTAGCCATTCGGCTTTACCACATATACAT
* *
37496310 ATCTCATACATATTTCACACTAGCCATTCAGCTTTGCCACATATACAT
1 ATCTCATACATATTTCACACTAGCCATTCGGCTTTACCACATATACAT
* * *
37496358 ATCTCAT--ATATTTCACATTAGCCATTTGGCTTTACCTCATATACAT
1 ATCTCATACATATTTCACACTAGCCATTCGGCTTTACCACATATACAT
* *
37496404 ATCTCATACATATTTCCCAGTAGCCATTCGGCTTTACCACATATACAT
1 ATCTCATACATATTTCACACTAGCCATTCGGCTTTACCACATATACAT
* *
37496452 ATCTCATACATATTTCACACTAGCCATTCGGCTTTACCACACATATAT
1 ATCTCATACATATTTCACACTAGCCATTCGGCTTTACCACATATACAT
37496500 AT
1 AT
37496502 ATTTATCTTG
Statistics
Matches: 174, Mismatches: 16, Indels: 4
0.90 0.08 0.02
Matches are distributed among these distances:
46 41 0.24
48 133 0.76
ACGTcount: A:0.30, C:0.28, G:0.07, T:0.35
Consensus pattern (48 bp):
ATCTCATACATATTTCACACTAGCCATTCGGCTTTACCACATATACAT
Found at i:37496401 original size:94 final size:95
Alignment explanation
Indices: 37496262--37496501 Score: 365
Period size: 94 Copynumber: 2.5 Consensus size: 95
37496252 ATATACACAC
*
37496262 ATCTCCTACATATTTCACACTAGCCATTCGGCTTTACCACATATACATATCTCATACATATTTCA
1 ATCTCATA-ATATTTCACACTAGCCATTCGGCTTTACCACATATACATATCTCATACATATTTCA
*
37496327 CACTAGCCATTCAGCTTTGCCACATATACAT
65 CACTAGCCATTCAGCTTTACCACATATACAT
* * * *
37496358 ATCTCAT-ATATTTCACATTAGCCATTTGGCTTTACCTCATATACATATCTCATACATATTTCCC
1 ATCTCATAATATTTCACACTAGCCATTCGGCTTTACCACATATACATATCTCATACATATTTCAC
* *
37496422 AGTAGCCATTCGGCTTTACCACATATACAT
66 ACTAGCCATTCAGCTTTACCACATATACAT
* *
37496452 ATCTCATACATATTTCACACTAGCCATTCGGCTTTACCACACATATATAT
1 ATCTCATA-ATATTTCACACTAGCCATTCGGCTTTACCACATATACATAT
37496502 ATTTATCTTG
Statistics
Matches: 129, Mismatches: 13, Indels: 4
0.88 0.09 0.03
Matches are distributed among these distances:
94 87 0.67
96 42 0.33
ACGTcount: A:0.30, C:0.28, G:0.07, T:0.35
Consensus pattern (95 bp):
ATCTCATAATATTTCACACTAGCCATTCGGCTTTACCACATATACATATCTCATACATATTTCAC
ACTAGCCATTCAGCTTTACCACATATACAT
Found at i:37498710 original size:25 final size:26
Alignment explanation
Indices: 37498654--37498716 Score: 112
Period size: 26 Copynumber: 2.5 Consensus size: 26
37498644 ATTGCCGAAA
37498654 TCCTCAAAGCATTTTTCTCCATTCTT
1 TCCTCAAAGCATTTTTCTCCATTCTT
37498680 TCCTCAAAGCATTTTTCTCCATTCTT
1 TCCTCAAAGCATTTTTCTCCATTCTT
37498706 T-CTCAAA-CATT
1 TCCTCAAAGCATT
37498717 CACATGAACA
Statistics
Matches: 37, Mismatches: 0, Indels: 2
0.95 0.00 0.05
Matches are distributed among these distances:
24 4 0.11
25 6 0.16
26 27 0.73
ACGTcount: A:0.22, C:0.30, G:0.03, T:0.44
Consensus pattern (26 bp):
TCCTCAAAGCATTTTTCTCCATTCTT
Found at i:37502041 original size:27 final size:26
Alignment explanation
Indices: 37502001--37502193 Score: 181
Period size: 27 Copynumber: 7.2 Consensus size: 26
37501991 TTCGGTTATT
*
37502001 AATACCTCGATTTGTAAAATTACCGA
1 AATACCTCGATTTGTAAAATTACCAA
* *
37502027 AATACTCTCGGTTTGTAAAATTATCAA
1 AATAC-CTCGATTTGTAAAATTACCAA
* * *
37502054 ATTACCCCTGATTTGTAAAATTACCGA
1 AATACCTC-GATTTGTAAAATTACCAA
*
37502081 AATACCCTCGATTTGTAAAATTACTAA
1 AATA-CCTCGATTTGTAAAATTACCAA
*
37502108 AATACC-CTAGTTTGTAAAATTACCAA
1 AATACCTCGA-TTTGTAAAATTACCAA
* * *
37502134 AATACCCCTAATTTTTAAAATTACCAA
1 AATACCTC-GATTTGTAAAATTACCAA
* * * **
37502161 AATACCCCTATAGTGTAAAATTACTGA
1 AATACCTCGAT-TTGTAAAATTACCAA
37502188 AATACC
1 AATACC
37502194 ACTGTAGTTT
Statistics
Matches: 139, Mismatches: 21, Indels: 13
0.80 0.12 0.08
Matches are distributed among these distances:
25 2 0.01
26 32 0.23
27 101 0.73
28 4 0.03
ACGTcount: A:0.40, C:0.20, G:0.08, T:0.32
Consensus pattern (26 bp):
AATACCTCGATTTGTAAAATTACCAA
Found at i:37502096 original size:54 final size:52
Alignment explanation
Indices: 37502001--37502193 Score: 219
Period size: 54 Copynumber: 3.6 Consensus size: 52
37501991 TTCGGTTATT
* * * *
37502001 AATACCTCGATTTGTAAAATTACCGAAATACTCTCGGTTTGTAAAATTATCAA
1 AATACCCCTATTTGTAAAATTACCGAAATACCCTCGATTTGTAAAATTA-CAA
*
37502054 ATTACCCCTGATTTGTAAAATTACCGAAATACCCTCGATTTGTAAAATTACTAA
1 AATACCCCT-ATTTGTAAAATTACCGAAATACCCTCGATTTGTAAAATTAC-AA
* * *
37502108 AATA-CCCTAGTTTGTAAAATTACCAAAATACCC-CTAATTTTTAAAATTACCAA
1 AATACCCCTA-TTTGTAAAATTACCGAAATACCCTC-GATTTGTAAAATTA-CAA
* *
37502161 AATACCCCTATAGTGTAAAATTACTGAAATACC
1 AATACCCCTAT-TTGTAAAATTACCGAAATACC
37502194 ACTGTAGTTT
Statistics
Matches: 121, Mismatches: 12, Indels: 13
0.83 0.08 0.09
Matches are distributed among these distances:
52 2 0.02
53 52 0.43
54 67 0.55
ACGTcount: A:0.40, C:0.20, G:0.08, T:0.32
Consensus pattern (52 bp):
AATACCCCTATTTGTAAAATTACCGAAATACCCTCGATTTGTAAAATTACAA
Found at i:37502141 original size:80 final size:81
Alignment explanation
Indices: 37502001--37502193 Score: 257
Period size: 80 Copynumber: 2.4 Consensus size: 81
37501991 TTCGGTTATT
* * * * * *
37502001 AATA-CCTCGATTTGTAAAATTACCGAAATACTCTCGGTTTGTAAAATTATCAAATTACCCCTGA
1 AATACCCTCGATTTGTAAAATTACTGAAATACCCTCAGTTTGTAAAATTACCAAAATACCCCTAA
*
37502065 TTTGTAAAATTACCGA
66 TTTGTAAAATTACCAA
*
37502081 AATACCCTCGATTTGTAAAATTACTAAAATACCCT-AGTTTGTAAAATTACCAAAATACCCCTAA
1 AATACCCTCGATTTGTAAAATTACTGAAATACCCTCAGTTTGTAAAATTACCAAAATACCCCTAA
*
37502145 TTTTTAAAATTACCAA
66 TTTGTAAAATTACCAA
* *
37502161 AATACCC-CTATAGTGTAAAATTACTGAAATACC
1 AATACCCTCGAT-TTGTAAAATTACTGAAATACC
37502194 ACTGTAGTTT
Statistics
Matches: 99, Mismatches: 12, Indels: 4
0.86 0.10 0.03
Matches are distributed among these distances:
79 3 0.03
80 69 0.70
81 27 0.27
ACGTcount: A:0.40, C:0.20, G:0.08, T:0.32
Consensus pattern (81 bp):
AATACCCTCGATTTGTAAAATTACTGAAATACCCTCAGTTTGTAAAATTACCAAAATACCCCTAA
TTTGTAAAATTACCAA
Found at i:37502190 original size:107 final size:107
Alignment explanation
Indices: 37502011--37502218 Score: 253
Period size: 107 Copynumber: 1.9 Consensus size: 107
37502001 AATACCTCGA
* * ** * * *
37502011 TTTGTAAAATTACCGAAATACTCTCGGTTTGTAAAATTATCAAATTACCCCTGATTTGTAAAATT
1 TTTGTAAAATTACCAAAATACCCTCAATTTGTAAAATTACCAAAATACCCCTGATGTGTAAAATT
*
37502076 ACCGAAATACC-CTCG-ATTTGTAAAATTACTAAAATACCCTAG
66 ACCGAAATACCACT-GTAGTT-TAAAATTACTAAAATACCCTAG
*
37502118 TTTGTAAAATTACCAAAATACCC-CTAATTTTTAAAATTACCAAAATACCCCT-ATAGTGTAAAA
1 TTTGTAAAATTACCAAAATACCCTC-AATTTGTAAAATTACCAAAATACCCCTGAT-GTGTAAAA
* *
37502181 TTACTGAAATACCACTGTAGTTTAAAATTACTGAAATA
64 TTACCGAAATACCACTGTAGTTTAAAATTACTAAAATA
37502219 TCCTTATAGT
Statistics
Matches: 86, Mismatches: 11, Indels: 8
0.82 0.10 0.08
Matches are distributed among these distances:
106 3 0.03
107 78 0.91
108 5 0.06
ACGTcount: A:0.40, C:0.18, G:0.09, T:0.33
Consensus pattern (107 bp):
TTTGTAAAATTACCAAAATACCCTCAATTTGTAAAATTACCAAAATACCCCTGATGTGTAAAATT
ACCGAAATACCACTGTAGTTTAAAATTACTAAAATACCCTAG
Done.