Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: At_chr10
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: 95480121
ACGTcount: A:0.32, C:0.17, G:0.17, T:0.31
Warning! 2980117 characters in sequence are not A, C, G, or T
File 113 of 284
Found at i:37182796 original size:5 final size:5
Alignment explanation
Indices: 37182786--37182842 Score: 55
Period size: 5 Copynumber: 11.0 Consensus size: 5
37182776 CTCTTGCCGC
*
37182786 TCTTT TCTTT T-TATT TCATTT TCTTT T-TCT TCTTT TGCTTTT TCTTT
1 TCTTT TCTTT TCT-TT TC-TTT TCTTT TCTTT TCTTT T-C-TTT TCTTT
37182833 TCTTT TCTTT
1 TCTTT TCTTT
37182843 GTTTTCTCTT
Statistics
Matches: 44, Mismatches: 2, Indels: 12
0.76 0.03 0.21
Matches are distributed among these distances:
4 4 0.09
5 29 0.66
6 6 0.14
7 5 0.11
ACGTcount: A:0.04, C:0.18, G:0.02, T:0.77
Consensus pattern (5 bp):
TCTTT
Found at i:37182826 original size:15 final size:14
Alignment explanation
Indices: 37182786--37182842 Score: 60
Period size: 16 Copynumber: 3.7 Consensus size: 14
37182776 CTCTTGCCGC
*
37182786 TCTTTTCTTTTTATT
1 TCTTTTCTTTTT-CT
37182801 TCATTTTCTTTTTCT
1 TC-TTTTCTTTTTCT
37182816 TCTTTTGCTTTTTCTTT
1 TCTTTT-CTTTTTC--T
37182833 TCTTTTCTTT
1 TCTTTTCTTT
37182843 GTTTTCTCTT
Statistics
Matches: 37, Mismatches: 1, Indels: 7
0.82 0.02 0.16
Matches are distributed among these distances:
14 4 0.11
15 12 0.32
16 14 0.38
17 7 0.19
ACGTcount: A:0.04, C:0.18, G:0.02, T:0.77
Consensus pattern (14 bp):
TCTTTTCTTTTTCT
Found at i:37182843 original size:21 final size:21
Alignment explanation
Indices: 37182786--37182853 Score: 61
Period size: 21 Copynumber: 3.2 Consensus size: 21
37182776 CTCTTGCCGC
* *
37182786 TCTTTTCTTTT-TATTTCATTT
1 TCTTTTCTTTTCT-TTGCTTTT
*
37182807 TCTTTT-TCTTCTTTTGCTTTT
1 TCTTTTCTTTTC-TTTGCTTTT
37182828 TCTTTTCTTTTCTTTG-TTTT
1 TCTTTTCTTTTCTTTGCTTTT
37182848 CTCTTT
1 -TCTTT
37182854 ACAAGAATGT
Statistics
Matches: 39, Mismatches: 4, Indels: 8
0.76 0.08 0.16
Matches are distributed among these distances:
20 7 0.18
21 27 0.69
22 5 0.13
ACGTcount: A:0.03, C:0.18, G:0.03, T:0.76
Consensus pattern (21 bp):
TCTTTTCTTTTCTTTGCTTTT
Found at i:37184792 original size:13 final size:13
Alignment explanation
Indices: 37184774--37184798 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
37184764 TGGTCATCAT
37184774 GGTGTGAACACAA
1 GGTGTGAACACAA
37184787 GGTGTGAACACA
1 GGTGTGAACACA
37184799 TGATCAATAC
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.36, C:0.16, G:0.32, T:0.16
Consensus pattern (13 bp):
GGTGTGAACACAA
Found at i:37185300 original size:30 final size:30
Alignment explanation
Indices: 37185202--37185302 Score: 87
Period size: 30 Copynumber: 3.4 Consensus size: 30
37185192 AGTTTAAACT
*
37185202 AAAATGAGCTAAGCTTTAGCTCGTGAGCT-
1 AAAATGAGCTAAGGTTTAGCTCGTGAGCTG
* * * * * * *
37185231 AAAGTTGAGCTGAGGCTAAACTCCTAAGCTG
1 AAA-ATGAGCTAAGGTTTAGCTCGTGAGCTG
** *
37185262 AAGTTGAGCTAAGGTTTAGCTCGTGAGTTG
1 AAAATGAGCTAAGGTTTAGCTCGTGAGCTG
37185292 AAAATGAGCTA
1 AAAATGAGCTA
37185303 GGAGTGAGCT
Statistics
Matches: 52, Mismatches: 18, Indels: 3
0.71 0.25 0.04
Matches are distributed among these distances:
29 3 0.06
30 47 0.90
31 2 0.04
ACGTcount: A:0.32, C:0.15, G:0.27, T:0.27
Consensus pattern (30 bp):
AAAATGAGCTAAGGTTTAGCTCGTGAGCTG
Found at i:37186192 original size:30 final size:30
Alignment explanation
Indices: 37186156--37186216 Score: 77
Period size: 30 Copynumber: 2.0 Consensus size: 30
37186146 TCCTTAACTC
37186156 AAACTTTGGCACAATTACAATTTTGCCCCT
1 AAACTTTGGCACAATTACAATTTTGCCCCT
* * * * *
37186186 AAACTTTTGCATATTTACACTTTTGCTCCT
1 AAACTTTGGCACAATTACAATTTTGCCCCT
37186216 A
1 A
37186217 GGCTCAAGAA
Statistics
Matches: 26, Mismatches: 5, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
30 26 1.00
ACGTcount: A:0.28, C:0.25, G:0.08, T:0.39
Consensus pattern (30 bp):
AAACTTTGGCACAATTACAATTTTGCCCCT
Found at i:37189897 original size:28 final size:28
Alignment explanation
Indices: 37189865--37189922 Score: 116
Period size: 28 Copynumber: 2.1 Consensus size: 28
37189855 ACACGTATAT
37189865 ACTTACACTTATCATCACAAAGTCTTAC
1 ACTTACACTTATCATCACAAAGTCTTAC
37189893 ACTTACACTTATCATCACAAAGTCTTAC
1 ACTTACACTTATCATCACAAAGTCTTAC
37189921 AC
1 AC
37189923 AATTTCATTT
Statistics
Matches: 30, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
28 30 1.00
ACGTcount: A:0.36, C:0.29, G:0.03, T:0.31
Consensus pattern (28 bp):
ACTTACACTTATCATCACAAAGTCTTAC
Found at i:37190839 original size:30 final size:30
Alignment explanation
Indices: 37190803--37190863 Score: 77
Period size: 30 Copynumber: 2.0 Consensus size: 30
37190793 TCCTTAACTC
37190803 AAACTTTGGCACAATTACAATTTTGCCCCT
1 AAACTTTGGCACAATTACAATTTTGCCCCT
* * * * *
37190833 AAACTTTTGTATATTTACACTTTTGCCCCT
1 AAACTTTGGCACAATTACAATTTTGCCCCT
37190863 A
1 A
37190864 GGCTCGAGAA
Statistics
Matches: 26, Mismatches: 5, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
30 26 1.00
ACGTcount: A:0.28, C:0.25, G:0.08, T:0.39
Consensus pattern (30 bp):
AAACTTTGGCACAATTACAATTTTGCCCCT
Found at i:37193134 original size:8 final size:8
Alignment explanation
Indices: 37193121--37193147 Score: 54
Period size: 8 Copynumber: 3.4 Consensus size: 8
37193111 CTTTTTTGAA
37193121 TGAAATAG
1 TGAAATAG
37193129 TGAAATAG
1 TGAAATAG
37193137 TGAAATAG
1 TGAAATAG
37193145 TGA
1 TGA
37193148 GTGAAAAATC
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
8 19 1.00
ACGTcount: A:0.48, C:0.00, G:0.26, T:0.26
Consensus pattern (8 bp):
TGAAATAG
Found at i:37194948 original size:30 final size:30
Alignment explanation
Indices: 37194914--37195010 Score: 97
Period size: 30 Copynumber: 3.2 Consensus size: 30
37194904 AGCTCACTCC
37194914 TAGCTCATA-TTCAGCTCACGAGCTAAACCT
1 TAGCTCA-ACTTCAGCTCACGAGCTAAACCT
* * * * *
37194944 TAGCTCAACTTCAGCTTAGGAGTTTAGCCT
1 TAGCTCAACTTCAGCTCACGAGCTAAACCT
* * * *
37194974 CAGCTCAACTTTAGTTCACGAGCTAAAGCT
1 TAGCTCAACTTCAGCTCACGAGCTAAACCT
37195004 TAGCTCA
1 TAGCTCA
37195011 TTTTAGTTTA
Statistics
Matches: 51, Mismatches: 15, Indels: 2
0.75 0.22 0.03
Matches are distributed among these distances:
29 1 0.02
30 50 0.98
ACGTcount: A:0.28, C:0.27, G:0.16, T:0.29
Consensus pattern (30 bp):
TAGCTCAACTTCAGCTCACGAGCTAAACCT
Found at i:37200493 original size:20 final size:20
Alignment explanation
Indices: 37200446--37200493 Score: 51
Period size: 20 Copynumber: 2.4 Consensus size: 20
37200436 AGTAAGCTCG
37200446 GTTGAGCTCAAACGAGCTGA
1 GTTGAGCTCAAACGAGCTGA
**** *
37200466 AACAAGCTCAAATGAGCTGA
1 GTTGAGCTCAAACGAGCTGA
37200486 GTTGAGCT
1 GTTGAGCT
37200494 AGACGGAGCT
Statistics
Matches: 19, Mismatches: 9, Indels: 0
0.68 0.32 0.00
Matches are distributed among these distances:
20 19 1.00
ACGTcount: A:0.33, C:0.19, G:0.27, T:0.21
Consensus pattern (20 bp):
GTTGAGCTCAAACGAGCTGA
Found at i:37202107 original size:18 final size:19
Alignment explanation
Indices: 37202084--37202122 Score: 53
Period size: 18 Copynumber: 2.1 Consensus size: 19
37202074 TTTATCTCAA
*
37202084 TTTCTTTTTC-CACTCTTT
1 TTTCTTGTTCACACTCTTT
*
37202102 TTTCTTGTTCACATTCTTT
1 TTTCTTGTTCACACTCTTT
37202121 TT
1 TT
37202123 CTCTCTCAAA
Statistics
Matches: 18, Mismatches: 2, Indels: 1
0.86 0.10 0.05
Matches are distributed among these distances:
18 9 0.50
19 9 0.50
ACGTcount: A:0.08, C:0.23, G:0.03, T:0.67
Consensus pattern (19 bp):
TTTCTTGTTCACACTCTTT
Found at i:37202138 original size:48 final size:49
Alignment explanation
Indices: 37202086--37202189 Score: 115
Period size: 48 Copynumber: 2.2 Consensus size: 49
37202076 TATCTCAATT
* * *
37202086 TCTTTTTCCACTCT-TTTTTC-TTGTTCACATTCTTTTTCTCTCTCAAAC
1 TCTTTTTCCACTCTCTTTTTCAAT-CTCACATTCTTTTTCACTCTCAAAC
* ** *
37202134 TCTTTTT-CATTCTCTTTTTCAATCTCATTTTCTTTTTCACTCTCAATC
1 TCTTTTTCCACTCTCTTTTTCAATCTCACATTCTTTTTCACTCTCAAAC
37202182 TCTTTTTC
1 TCTTTTTC
37202190 TTTTTCTTTC
Statistics
Matches: 46, Mismatches: 7, Indels: 5
0.79 0.12 0.09
Matches are distributed among these distances:
47 5 0.11
48 40 0.87
49 1 0.02
ACGTcount: A:0.12, C:0.28, G:0.01, T:0.59
Consensus pattern (49 bp):
TCTTTTTCCACTCTCTTTTTCAATCTCACATTCTTTTTCACTCTCAAAC
Found at i:37202161 original size:18 final size:18
Alignment explanation
Indices: 37202140--37202189 Score: 73
Period size: 18 Copynumber: 2.8 Consensus size: 18
37202130 AAACTCTTTT
37202140 TCATTCTCTTTTTCAATC
1 TCATTCTCTTTTTCAATC
* *
37202158 TCATTTTCTTTTTCACTC
1 TCATTCTCTTTTTCAATC
*
37202176 TCAATCTCTTTTTC
1 TCATTCTCTTTTTC
37202190 TTTTTCTTTC
Statistics
Matches: 28, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
18 28 1.00
ACGTcount: A:0.14, C:0.28, G:0.00, T:0.58
Consensus pattern (18 bp):
TCATTCTCTTTTTCAATC
Found at i:37202179 original size:24 final size:24
Alignment explanation
Indices: 37202115--37202196 Score: 101
Period size: 24 Copynumber: 3.4 Consensus size: 24
37202105 CTTGTTCACA
*
37202115 TTCTTTTTCTCTCTCAAACTCTTT
1 TTCTTTTTCTCTCTCAATCTCTTT
* * * * *
37202139 TTCATTCTCTTTTTCAATCTCATT
1 TTCTTTTTCTCTCTCAATCTCTTT
*
37202163 TTCTTTTTCACTCTCAATCTCTTT
1 TTCTTTTTCTCTCTCAATCTCTTT
37202187 TTCTTTTTCT
1 TTCTTTTTCT
37202197 TTCATTTCTT
Statistics
Matches: 45, Mismatches: 13, Indels: 0
0.78 0.22 0.00
Matches are distributed among these distances:
24 45 1.00
ACGTcount: A:0.12, C:0.27, G:0.00, T:0.61
Consensus pattern (24 bp):
TTCTTTTTCTCTCTCAATCTCTTT
Found at i:37202295 original size:17 final size:17
Alignment explanation
Indices: 37202266--37202312 Score: 51
Period size: 17 Copynumber: 2.6 Consensus size: 17
37202256 CTTTTCTTGC
*
37202266 CTCTCTTTTCTTTTGAT
1 CTCTCTTTTCTTTTCAT
37202283 CTCT-TTTTGCTTTTCAT
1 CTCTCTTTT-CTTTTCAT
37202300 CTTCTTCTTTTCT
1 C-TC-TCTTTTCT
37202313 CGCTTGCTTT
Statistics
Matches: 25, Mismatches: 1, Indels: 6
0.78 0.03 0.19
Matches are distributed among these distances:
16 4 0.16
17 12 0.48
18 2 0.08
19 3 0.12
20 4 0.16
ACGTcount: A:0.04, C:0.26, G:0.04, T:0.66
Consensus pattern (17 bp):
CTCTCTTTTCTTTTCAT
Found at i:37207609 original size:30 final size:30
Alignment explanation
Indices: 37207524--37207620 Score: 106
Period size: 30 Copynumber: 3.2 Consensus size: 30
37207514 TAAACTAAAA
* *
37207524 TGAGCTAAGCTTTAGCTCGTGAGCTAAAGT
1 TGAGCTAAGATTTAGCTCGTGAGCTGAAGT
* * * * *
37207554 TGAGCTGAGATTAAACTCCTAAGCTGAAGT
1 TGAGCTAAGATTTAGCTCGTGAGCTGAAGT
*
37207584 TGAGCTAAGGTTTAGCTCGTGAGCTGAA-T
1 TGAGCTAAGATTTAGCTCGTGAGCTGAAGT
37207613 ATGAGCTA
1 -TGAGCTA
37207621 GGAGTGAGCT
Statistics
Matches: 53, Mismatches: 13, Indels: 2
0.78 0.19 0.03
Matches are distributed among these distances:
29 1 0.02
30 52 0.98
ACGTcount: A:0.29, C:0.15, G:0.27, T:0.29
Consensus pattern (30 bp):
TGAGCTAAGATTTAGCTCGTGAGCTGAAGT
Found at i:37208034 original size:18 final size:18
Alignment explanation
Indices: 37208013--37208056 Score: 61
Period size: 18 Copynumber: 2.4 Consensus size: 18
37208003 AAACTCTTTT
37208013 TCATTCTCTTTTTCAATC
1 TCATTCTCTTTTTCAATC
* *
37208031 TCATTTTCTTTTTCACTC
1 TCATTCTCTTTTTCAATC
*
37208049 TCACTCTC
1 TCATTCTC
37208057 AATCTCTTTT
Statistics
Matches: 22, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
18 22 1.00
ACGTcount: A:0.14, C:0.32, G:0.00, T:0.55
Consensus pattern (18 bp):
TCATTCTCTTTTTCAATC
Found at i:37208041 original size:30 final size:30
Alignment explanation
Indices: 37208007--37208074 Score: 91
Period size: 30 Copynumber: 2.3 Consensus size: 30
37207997 TCTCTCAAAC
* ** *
37208007 TCTTTTTCATTCTCTTTTTCAATCTCATTT
1 TCTTTTTCACTCTCACTCTCAATCTCATTT
*
37208037 TCTTTTTCACTCTCACTCTCAATCTCTTTT
1 TCTTTTTCACTCTCACTCTCAATCTCATTT
37208067 TCTTTTTC
1 TCTTTTTC
37208075 TTTCATTTCT
Statistics
Matches: 33, Mismatches: 5, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
30 33 1.00
ACGTcount: A:0.12, C:0.28, G:0.00, T:0.60
Consensus pattern (30 bp):
TCTTTTTCACTCTCACTCTCAATCTCATTT
Found at i:37209065 original size:10 final size:10
Alignment explanation
Indices: 37209050--37209083 Score: 52
Period size: 10 Copynumber: 3.5 Consensus size: 10
37209040 TTTTTTATAA
37209050 TTTCATTTTT
1 TTTCATTTTT
37209060 TTTCATTTTT
1 TTTCATTTTT
*
37209070 TGTC-TTTTT
1 TTTCATTTTT
37209079 TTTCA
1 TTTCA
37209084 ATACTTCACA
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
9 8 0.38
10 13 0.62
ACGTcount: A:0.09, C:0.12, G:0.03, T:0.76
Consensus pattern (10 bp):
TTTCATTTTT
Found at i:37210580 original size:10 final size:10
Alignment explanation
Indices: 37210567--37210601 Score: 52
Period size: 10 Copynumber: 3.5 Consensus size: 10
37210557 AAGCTCGGTT
37210567 GAGCTCAAAC
1 GAGCTCAAAC
*
37210577 GAGCTAAAAC
1 GAGCTCAAAC
*
37210587 GAGCTCAAAT
1 GAGCTCAAAC
37210597 GAGCT
1 GAGCT
37210602 GAGTTGAGCT
Statistics
Matches: 22, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
10 22 1.00
ACGTcount: A:0.40, C:0.23, G:0.23, T:0.14
Consensus pattern (10 bp):
GAGCTCAAAC
Found at i:37210610 original size:20 final size:20
Alignment explanation
Indices: 37210564--37210611 Score: 51
Period size: 20 Copynumber: 2.4 Consensus size: 20
37210554 AGTAAGCTCG
37210564 GTTGAGCTCAAACGAGCTAA
1 GTTGAGCTCAAACGAGCTAA
*** * *
37210584 AACGAGCTCAAATGAGCTGA
1 GTTGAGCTCAAACGAGCTAA
37210604 GTTGAGCT
1 GTTGAGCT
37210612 GGACGGAGCT
Statistics
Matches: 20, Mismatches: 8, Indels: 0
0.71 0.29 0.00
Matches are distributed among these distances:
20 20 1.00
ACGTcount: A:0.33, C:0.19, G:0.27, T:0.21
Consensus pattern (20 bp):
GTTGAGCTCAAACGAGCTAA
Found at i:37217721 original size:29 final size:27
Alignment explanation
Indices: 37217703--37217772 Score: 113
Period size: 27 Copynumber: 2.6 Consensus size: 27
37217693 ATATTAAGTC
37217703 CGCACACTCAGTGCTATATAATCAACT
1 CGCACACTCAGTGCTATATAATCAACT
*
37217730 CGCACACTTAGTGCTATATAATCAAACT
1 CGCACACTCAGTGCTATATAATC-AACT
*
37217758 CGCACACTTAGTGCT
1 CGCACACTCAGTGCT
37217773 GTACAATTTA
Statistics
Matches: 41, Mismatches: 1, Indels: 1
0.95 0.02 0.02
Matches are distributed among these distances:
27 22 0.54
28 19 0.46
ACGTcount: A:0.31, C:0.29, G:0.13, T:0.27
Consensus pattern (27 bp):
CGCACACTCAGTGCTATATAATCAACT
Found at i:37217766 original size:28 final size:28
Alignment explanation
Indices: 37217703--37217800 Score: 135
Period size: 28 Copynumber: 3.5 Consensus size: 28
37217693 ATATTAAGTC
*
37217703 CGCACACTCAGTGCTATATAATC-AACT
1 CGCACACTTAGTGCTATATAATCAAACT
37217730 CGCACACTTAGTGCTATATAATCAAACT
1 CGCACACTTAGTGCTATATAATCAAACT
* * * *
37217758 CGCACACTTAGTGCTGTACAATTTAAACC
1 CGCACACTTAGTGCTATATAA-TCAAACT
37217787 CGCACACTTAGTGC
1 CGCACACTTAGTGC
37217801 CAATCTCATG
Statistics
Matches: 64, Mismatches: 5, Indels: 2
0.90 0.07 0.03
Matches are distributed among these distances:
27 22 0.34
28 23 0.36
29 19 0.30
ACGTcount: A:0.32, C:0.29, G:0.13, T:0.27
Consensus pattern (28 bp):
CGCACACTTAGTGCTATATAATCAAACT
Found at i:37221499 original size:50 final size:50
Alignment explanation
Indices: 37221440--37221541 Score: 195
Period size: 50 Copynumber: 2.0 Consensus size: 50
37221430 CTTACCTCGG
*
37221440 TAGAAAATATGGACAATTAATTCGATTTAGCTAAAATCTTGTCCTTTCCC
1 TAGAAAATATGGACAATTAATTCGATTTAGCTAAAATCTTGTACTTTCCC
37221490 TAGAAAATATGGACAATTAATTCGATTTAGCTAAAATCTTGTACTTTCCC
1 TAGAAAATATGGACAATTAATTCGATTTAGCTAAAATCTTGTACTTTCCC
37221540 TA
1 TA
37221542 CTCTAGGTCC
Statistics
Matches: 51, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
50 51 1.00
ACGTcount: A:0.35, C:0.17, G:0.12, T:0.36
Consensus pattern (50 bp):
TAGAAAATATGGACAATTAATTCGATTTAGCTAAAATCTTGTACTTTCCC
Found at i:37223476 original size:40 final size:40
Alignment explanation
Indices: 37223427--37223513 Score: 113
Period size: 40 Copynumber: 2.2 Consensus size: 40
37223417 GTGTTGTACA
*
37223427 TAGCTGAAGCTAT-CTCAAATCGCACACTAAGTGCCAAAAT
1 TAGCCGAAGCTATAC-CAAATCGCACACTAAGTGCCAAAAT
* * * *
37223467 TAGCCGAAGCTGTACCGAATCGCACACTAAGTGCCATATT
1 TAGCCGAAGCTATACCAAATCGCACACTAAGTGCCAAAAT
37223507 TAGCCGA
1 TAGCCGA
37223514 TATGTCATCA
Statistics
Matches: 41, Mismatches: 5, Indels: 2
0.85 0.10 0.04
Matches are distributed among these distances:
40 40 0.98
41 1 0.02
ACGTcount: A:0.33, C:0.26, G:0.18, T:0.22
Consensus pattern (40 bp):
TAGCCGAAGCTATACCAAATCGCACACTAAGTGCCAAAAT
Found at i:37224330 original size:36 final size:36
Alignment explanation
Indices: 37224290--37224362 Score: 146
Period size: 36 Copynumber: 2.0 Consensus size: 36
37224280 ATTTATTATT
37224290 AACTTTAATTACCTATTTACCTTTTTACCCTTTAAA
1 AACTTTAATTACCTATTTACCTTTTTACCCTTTAAA
37224326 AACTTTAATTACCTATTTACCTTTTTACCCTTTAAA
1 AACTTTAATTACCTATTTACCTTTTTACCCTTTAAA
37224362 A
1 A
37224363 CCATTAATAA
Statistics
Matches: 37, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
36 37 1.00
ACGTcount: A:0.32, C:0.22, G:0.00, T:0.47
Consensus pattern (36 bp):
AACTTTAATTACCTATTTACCTTTTTACCCTTTAAA
Found at i:37224370 original size:36 final size:36
Alignment explanation
Indices: 37224294--37224370 Score: 136
Period size: 36 Copynumber: 2.1 Consensus size: 36
37224284 ATTATTAACT
*
37224294 TTAATTACCTATTTACCTTTTTACCCTTTAAAAACT
1 TTAATTACCTATTTACCTTTTTACCCTTTAAAAACA
*
37224330 TTAATTACCTATTTACCTTTTTACCCTTTAAAACCA
1 TTAATTACCTATTTACCTTTTTACCCTTTAAAAACA
37224366 TTAAT
1 TTAAT
37224371 AAATACACTA
Statistics
Matches: 39, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
36 39 1.00
ACGTcount: A:0.31, C:0.22, G:0.00, T:0.47
Consensus pattern (36 bp):
TTAATTACCTATTTACCTTTTTACCCTTTAAAAACA
Found at i:37233992 original size:40 final size:40
Alignment explanation
Indices: 37233917--37234098 Score: 282
Period size: 40 Copynumber: 4.6 Consensus size: 40
37233907 AACCCAAGTA
*
37233917 CCTTCGGGATTTAG-CCGGATATAG-CAACTCA-CACAAATG
1 CCTTCGGGACTTAGCCCGGATATAGTCAA-T-AGCACAAATG
*
37233956 CCTTCGGGTCTTAGCCCGGATATAGTCAATAGCACAAAAT-
1 CCTTCGGGACTTAGCCCGGATATAGTCAATAGCAC-AAATG
*
37233996 CCTTCGGGACTTAGCCCGGATATAGTCACTAGCACAAATG
1 CCTTCGGGACTTAGCCCGGATATAGTCAATAGCACAAATG
37234036 CCTTCGGGACTTAGCCCGGATATAGTCAATAGCACAAATG
1 CCTTCGGGACTTAGCCCGGATATAGTCAATAGCACAAATG
37234076 CCTTCGGGACTTAGCCCGGATAT
1 CCTTCGGGACTTAGCCCGGATAT
37234099 CATTCGAATA
Statistics
Matches: 133, Mismatches: 5, Indels: 9
0.90 0.03 0.06
Matches are distributed among these distances:
39 17 0.13
40 109 0.82
41 7 0.05
ACGTcount: A:0.28, C:0.26, G:0.22, T:0.24
Consensus pattern (40 bp):
CCTTCGGGACTTAGCCCGGATATAGTCAATAGCACAAATG
Found at i:37237790 original size:13 final size:13
Alignment explanation
Indices: 37237774--37237798 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
37237764 TTTTTAAAAA
37237774 TTATTTTGTGTGT
1 TTATTTTGTGTGT
37237787 TTATTTTGTGTG
1 TTATTTTGTGTG
37237799 AAATTATATC
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.08, C:0.00, G:0.24, T:0.68
Consensus pattern (13 bp):
TTATTTTGTGTGT
Found at i:37249232 original size:69 final size:70
Alignment explanation
Indices: 37249084--37249244 Score: 164
Period size: 69 Copynumber: 2.3 Consensus size: 70
37249074 CTTCATTTGA
* * *
37249084 GAACCTTAATATGACAGCTGGGAACTTTTGCTCTCGCCAACTATTTTAGAGGTTGCGAATCTTTG
1 GAACCTTAATATGACAGCTGGGAACTTTTGCTCTCACCAACTATTTTAGAGGTTGAGAATCTTCG
*
37249149 CCTGT
66 CCCGT
* * * * * * * **
37249154 GGACCTTAATATTAC-GACTGGGAAC-TTTGCTTTTACTAACTGTTTTGGAGGTTGAGGCTCTTC
1 GAACCTTAATATGACAG-CTGGGAACTTTTGCTCTCACCAACTATTTTAGAGGTTGAGAATCTTC
37249217 GCCCGT
65 GCCCGT
* *
37249223 GAACCTTAATATAAAAGCTGGG
1 GAACCTTAATATGACAGCTGGG
37249245 GAGCTTTGTT
Statistics
Matches: 73, Mismatches: 16, Indels: 5
0.78 0.17 0.05
Matches are distributed among these distances:
69 51 0.70
70 22 0.30
ACGTcount: A:0.24, C:0.20, G:0.23, T:0.34
Consensus pattern (70 bp):
GAACCTTAATATGACAGCTGGGAACTTTTGCTCTCACCAACTATTTTAGAGGTTGAGAATCTTCG
CCCGT
Found at i:37251688 original size:14 final size:13
Alignment explanation
Indices: 37251668--37251704 Score: 58
Period size: 14 Copynumber: 2.8 Consensus size: 13
37251658 AATATTTGAC
37251668 TTGTTCTTAATTA
1 TTGTTCTTAATTA
37251681 TGTGTTCTTAATTA
1 T-TGTTCTTAATTA
37251695 TTGTT-TTAAT
1 TTGTTCTTAAT
37251705 ATTTCAGGAT
Statistics
Matches: 23, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
12 5 0.22
13 5 0.22
14 13 0.57
ACGTcount: A:0.22, C:0.05, G:0.11, T:0.62
Consensus pattern (13 bp):
TTGTTCTTAATTA
Found at i:37255497 original size:47 final size:46
Alignment explanation
Indices: 37255438--37255606 Score: 171
Period size: 47 Copynumber: 3.6 Consensus size: 46
37255428 ATCCATAAGT
37255438 GAACTCGGACTCAACTCAACGAGTTCGGATGCCTAGTTACATTTCAC
1 GAACTCGGACTCAACTCAACGAGTTCGGATGCCTAGTTACA-TTCAC
** * * * * * * * *
37255485 GAACTCAAACTCAACTCAACGAGTTCAGACG-TTCGCATCCA-TAAGT
1 GAACTCGGACTCAACTCAACGAGTTCGGATGCCTAG-TTACATTCA-C
*
37255531 GAACTCGGACTCAACTCAATGAGTTCGGATGCCTAGTTACATCTCAC
1 GAACTCGGACTCAACTCAACGAGTTCGGATGCCTAGTTACAT-TCAC
* *
37255578 GAACTCGGACTCAACTAAATGAGTTCGGA
1 GAACTCGGACTCAACTCAACGAGTTCGGA
37255607 CGTTTGCATC
Statistics
Matches: 95, Mismatches: 22, Indels: 10
0.75 0.17 0.08
Matches are distributed among these distances:
45 2 0.02
46 31 0.33
47 60 0.63
48 2 0.02
ACGTcount: A:0.31, C:0.27, G:0.19, T:0.24
Consensus pattern (46 bp):
GAACTCGGACTCAACTCAACGAGTTCGGATGCCTAGTTACATTCAC
Found at i:37255504 original size:93 final size:93
Alignment explanation
Indices: 37255391--37255652 Score: 418
Period size: 93 Copynumber: 2.8 Consensus size: 93
37255381 CACCCATAAG
* *
37255391 CGAACTCAGACTCAATTCAACGAGCTCAGGCGTTCGCATCCATAAGTGAACTCGGACTCAACTCA
1 CGAACTCAGACTCAACTCAACGAGTTCAGGCGTTCGCATCCATAAGTGAACTCGGACTCAACTCA
*
37255456 ACGAGTTCGGATGCCTAGTTACATTTCA
66 ACGAGTTCGGATGCCTAGTTACATCTCA
* *
37255484 CGAACTCAAACTCAACTCAACGAGTTCAGACGTTCGCATCCATAAGTGAACTCGGACTCAACTCA
1 CGAACTCAGACTCAACTCAACGAGTTCAGGCGTTCGCATCCATAAGTGAACTCGGACTCAACTCA
*
37255549 ATGAGTTCGGATGCCTAGTTACATCTCA
66 ACGAGTTCGGATGCCTAGTTACATCTCA
* * * *
37255577 CGAACTCGGACTCAACTAAATGAGTTC-GGACGTTTGCATCCATAAGTGAACTCGGACTCAACTC
1 CGAACTCAGACTCAACTCAACGAGTTCAGG-CGTTCGCATCCATAAGTGAACTCGGACTCAACTC
37255641 AACGAGTTCGGA
65 AACGAGTTCGGA
37255653 CGCTCAAATA
Statistics
Matches: 155, Mismatches: 13, Indels: 2
0.91 0.08 0.01
Matches are distributed among these distances:
92 1 0.01
93 154 0.99
ACGTcount: A:0.30, C:0.27, G:0.19, T:0.23
Consensus pattern (93 bp):
CGAACTCAGACTCAACTCAACGAGTTCAGGCGTTCGCATCCATAAGTGAACTCGGACTCAACTCA
ACGAGTTCGGATGCCTAGTTACATCTCA
Found at i:37255555 original size:46 final size:46
Alignment explanation
Indices: 37255384--37255654 Score: 203
Period size: 46 Copynumber: 5.8 Consensus size: 46
37255374 TGTAACCCAC
* * * *
37255384 CCATAAGCGAACTCAGACTCAATTCAACGAGCTCAGGCGTTCGCAT
1 CCATAAGCGAACTCGGACTCAACTCAACGAGTTCAGACGTTCGCAT
* * * * * *
37255430 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGATGCCTAG-TT
1 CCATAAGCGAACTCGGACTCAACTCAACGAGTTCAGACG-TTCGCAT
* * **
37255476 ACATTTCA-CGAACTCAAACTCAACTCAACGAGTTCAGACGTTCGCAT
1 CCA--TAAGCGAACTCGGACTCAACTCAACGAGTTCAGACGTTCGCAT
* * * *
37255523 CCATAAGTGAACTCGGACTCAACTCAATGAGTTCGGATGCCTAGTT-ACAT
1 CCATAAGCGAACTCGGACTCAACTCAACGAGTTC--A-GAC--GTTCGCAT
* * * * *
37255573 -C-TCA-CGAACTCGGACTCAACTAAATGAGTTCGGACGTTTGCAT
1 CCATAAGCGAACTCGGACTCAACTCAACGAGTTCAGACGTTCGCAT
* *
37255616 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGACG
1 CCATAAGCGAACTCGGACTCAACTCAACGAGTTCAGACG
37255655 CTCAAATATC
Statistics
Matches: 173, Mismatches: 38, Indels: 28
0.72 0.16 0.12
Matches are distributed among these distances:
42 3 0.02
43 3 0.02
44 3 0.02
45 4 0.02
46 89 0.51
47 57 0.33
48 5 0.03
49 3 0.02
50 3 0.02
51 3 0.02
ACGTcount: A:0.30, C:0.27, G:0.20, T:0.23
Consensus pattern (46 bp):
CCATAAGCGAACTCGGACTCAACTCAACGAGTTCAGACGTTCGCAT
Found at i:37258924 original size:49 final size:49
Alignment explanation
Indices: 37258831--37259254 Score: 743
Period size: 49 Copynumber: 8.8 Consensus size: 49
37258821 GGATAATTGT
37258831 GATGTGATGAATGTGAAAGTG--TATATATGTGATAAGGCCTAATGGCC
1 GATGTGATGAATGTGAAAGTGTATATATATGTGATAAGGCCTAATGGCC
37258878 GATGTGATGAATGTGAAAGTGTATATATATGTGATAAGGCCTAATGGCC
1 GATGTGATGAATGTGAAAGTGTATATATATGTGATAAGGCCTAATGGCC
37258927 GATGTGATGAATGTGAAAGTGTATATATATGTGATAAGGCCTAATGGCC
1 GATGTGATGAATGTGAAAGTGTATATATATGTGATAAGGCCTAATGGCC
37258976 GATGTGATGAATGTGAAAGTGTATATATATGTGATAAGGCCTAATGGCC
1 GATGTGATGAATGTGAAAGTGTATATATATGTGATAAGGCCTAATGGCC
37259025 GATGTGATGAATGTGAAAGTGTATATATATGTGATAAGGCCTAATGGCC
1 GATGTGATGAATGTGAAAGTGTATATATATGTGATAAGGCCTAATGGCC
37259074 GATGTGATGAATGTGAAAGTGTATATATATGTGATAAGGCCTAATGGCC
1 GATGTGATGAATGTGAAAGTGTATATATATGTGATAAGGCCTAATGGCC
37259123 GATGTGATGAATGTGAAAGTGTATATATATGTGATAAGGCCTAATGGCC
1 GATGTGATGAATGTGAAAGTGTATATATATGTGATAAGGCCTAATGGCC
* * * *
37259172 GATGTGATGAATGTGAAAGTG--TATATATGTGACAGGGCCGAGTGGCC
1 GATGTGATGAATGTGAAAGTGTATATATATGTGATAAGGCCTAATGGCC
* * *
37259219 AACGTGATGGATGTGAAAGTG--TATATATGTGATAAG
1 GATGTGATGAATGTGAAAGTGTATATATATGTGATAAG
37259255 TCCTGAAGGG
Statistics
Matches: 366, Mismatches: 9, Indels: 4
0.97 0.02 0.01
Matches are distributed among these distances:
47 74 0.20
49 292 0.80
ACGTcount: A:0.32, C:0.08, G:0.30, T:0.30
Consensus pattern (49 bp):
GATGTGATGAATGTGAAAGTGTATATATATGTGATAAGGCCTAATGGCC
Found at i:37259414 original size:37 final size:37
Alignment explanation
Indices: 37259373--37259451 Score: 122
Period size: 37 Copynumber: 2.1 Consensus size: 37
37259363 CCGAGCTCTA
* * *
37259373 AAGACCCGATGACTACGTGTGGGGATTTTGTCCGGGT
1 AAGACCCGATAACTACGTGTGGAGATTATGTCCGGGT
*
37259410 AAGACCCGATAACTTCGTGTGGAGATTATGTCCGGGT
1 AAGACCCGATAACTACGTGTGGAGATTATGTCCGGGT
37259447 AAGAC
1 AAGAC
37259452 TTCGTAATAA
Statistics
Matches: 38, Mismatches: 4, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
37 38 1.00
ACGTcount: A:0.24, C:0.19, G:0.32, T:0.25
Consensus pattern (37 bp):
AAGACCCGATAACTACGTGTGGAGATTATGTCCGGGT
Found at i:37261590 original size:14 final size:15
Alignment explanation
Indices: 37261563--37261591 Score: 58
Period size: 15 Copynumber: 1.9 Consensus size: 15
37261553 ATTGAGAAAC
37261563 CCAGAATAAAAAAAT
1 CCAGAATAAAAAAAT
37261578 CCAGAATAAAAAAA
1 CCAGAATAAAAAAA
37261592 CCCAAGATAT
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 14 1.00
ACGTcount: A:0.69, C:0.14, G:0.07, T:0.10
Consensus pattern (15 bp):
CCAGAATAAAAAAAT
Found at i:37264455 original size:46 final size:46
Alignment explanation
Indices: 37264388--37264611 Score: 222
Period size: 46 Copynumber: 4.8 Consensus size: 46
37264378 TGTAACCCGC
* * * *
37264388 CCATAAGCGAAATCGGACTCAACTCAATGATCTCGGGCGTTCGCAT
1 CCATAAGTGAACTCGGACTCAACTCAATGAGCTCGGACGTTCGCAT
*
37264434 CCATAAGTGAACTCGGACTCAACTCAACGAGCTCGGACGTTCGCAT
1 CCATAAGTGAACTCGGACTCAACTCAATGAGCTCGGACGTTCGCAT
* * **
37264480 CCATAAGTGAACTCGGACTCAACTCAATGAGTTCGGATGCCTATTTACAT
1 CCATAAGTGAACTCGGACTCAACTCAATGAGCTCGGA---C-GTTCGCAT
* * * * *
37264530 CTCA-CA---AACTCGGACTCAACTAAACGAGTTCGGACGTTTGCAT
1 C-CATAAGTGAACTCGGACTCAACTCAATGAGCTCGGACGTTCGCAT
* * *
37264573 CCATAAGTGAACTCGGACTCAAGTCAACGAGTTCGGACG
1 CCATAAGTGAACTCGGACTCAACTCAATGAGCTCGGACG
37264612 CTCAAATATC
Statistics
Matches: 151, Mismatches: 18, Indels: 18
0.81 0.10 0.10
Matches are distributed among these distances:
42 2 0.01
43 8 0.05
44 1 0.01
46 104 0.69
47 26 0.17
49 1 0.01
50 7 0.05
51 2 0.01
ACGTcount: A:0.29, C:0.27, G:0.21, T:0.22
Consensus pattern (46 bp):
CCATAAGTGAACTCGGACTCAACTCAATGAGCTCGGACGTTCGCAT
Found at i:37278575 original size:21 final size:20
Alignment explanation
Indices: 37278551--37278589 Score: 60
Period size: 21 Copynumber: 1.9 Consensus size: 20
37278541 GAGTATTTTG
37278551 ATGTTTAATGATAGATTATGA
1 ATGTTTAATGATAG-TTATGA
*
37278572 ATGTTTGATGATAGTTAT
1 ATGTTTAATGATAGTTAT
37278590 ACTAGTTTTG
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
20 4 0.24
21 13 0.76
ACGTcount: A:0.33, C:0.00, G:0.21, T:0.46
Consensus pattern (20 bp):
ATGTTTAATGATAGTTATGA
Found at i:37284015 original size:153 final size:152
Alignment explanation
Indices: 37283770--37284071 Score: 419
Period size: 153 Copynumber: 2.0 Consensus size: 152
37283760 GCGACACGGG
* ** *
37283770 TGTGTGTGTTGGCCGTGTGACCCAGGTCAGAGAGTTACATGAGTTCAGACACGGGCTGGGACACG
1 TGTGTGTGTTGGCCGTGTGACCCAAGTCAGAGAGTTACACCAGGTCAGACACGGGCTGGGACACG
* * * * * *
37283835 TCCATGTGCTTCCACTTTGAATGTCCACAC-AGCCTTTGGCACGGGCATGTCTTTGGCCGTGTGA
66 GCCATGTGCTTCCACTTTGAATATCCACACGA-CCTGTGACACAGGCATGTCTTTGGCCGTATGA
* *
37283899 GACACATGGCCGGGCCACACCTA
130 AACACACGGCCGGGCCACACCTA
* **
37283922 TGTGTGTGTTGGCCGTGTGACCCAAGTCAGAGAGTTACACCAGGGTCGGACATTGGCTGGGACAC
1 TGTGTGTGTTGGCCGTGTGACCCAAGTCAGAGAGTTACACCA-GGTCAGACACGGGCTGGGACAC
*
37283987 GGCCATGTGCTTCC-TTTTCGAATATCCACACGACCTGTGACACAGGCATGTCTTTGGCCGTATG
65 GGCCATGTGCTTCCACTTT-GAATATCCACACGACCTGTGACACAGGCATGTCTTTGGCCGTATG
37284051 AAACACACGGCCGGGCCACAC
129 AAACACACGGCCGGGCCACAC
37284072 AGGCGTGTGT
Statistics
Matches: 131, Mismatches: 16, Indels: 5
0.86 0.11 0.03
Matches are distributed among these distances:
152 42 0.32
153 88 0.67
154 1 0.01
ACGTcount: A:0.20, C:0.27, G:0.29, T:0.24
Consensus pattern (152 bp):
TGTGTGTGTTGGCCGTGTGACCCAAGTCAGAGAGTTACACCAGGTCAGACACGGGCTGGGACACG
GCCATGTGCTTCCACTTTGAATATCCACACGACCTGTGACACAGGCATGTCTTTGGCCGTATGAA
ACACACGGCCGGGCCACACCTA
Found at i:37284397 original size:30 final size:30
Alignment explanation
Indices: 37284363--37284422 Score: 111
Period size: 30 Copynumber: 2.0 Consensus size: 30
37284353 AGCTACTAGA
37284363 ACTCAACTTTTATATTTTATACAATTTGGT
1 ACTCAACTTTTATATTTTATACAATTTGGT
*
37284393 ACTCAACTTTTATATTTTATGCAATTTGGT
1 ACTCAACTTTTATATTTTATACAATTTGGT
37284423 CTTTTCTATA
Statistics
Matches: 29, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
30 29 1.00
ACGTcount: A:0.28, C:0.13, G:0.08, T:0.50
Consensus pattern (30 bp):
ACTCAACTTTTATATTTTATACAATTTGGT
Found at i:37287856 original size:45 final size:45
Alignment explanation
Indices: 37287776--37287883 Score: 148
Period size: 45 Copynumber: 2.4 Consensus size: 45
37287766 GTGTTTCGCC
* *
37287776 TGCTAGGCTCGAA-GCCCG-ATAACATTTCACCGGCATTATAGCA
1 TGCTAGGCTCAAAGGCCCGAATAACATCTCACCGGCATTATAGCA
** *
37287819 TGCTAGGCTCAAAGGCCCGAATAGTATCTCACCGGCATTATAGCC
1 TGCTAGGCTCAAAGGCCCGAATAACATCTCACCGGCATTATAGCA
*
37287864 TGCAAGGCTCAAAGGCCCGA
1 TGCTAGGCTCAAAGGCCCGA
37287884 CTAATACTAT
Statistics
Matches: 57, Mismatches: 6, Indels: 2
0.88 0.09 0.03
Matches are distributed among these distances:
43 12 0.21
44 5 0.09
45 40 0.70
ACGTcount: A:0.28, C:0.29, G:0.23, T:0.20
Consensus pattern (45 bp):
TGCTAGGCTCAAAGGCCCGAATAACATCTCACCGGCATTATAGCA
Found at i:37288748 original size:47 final size:46
Alignment explanation
Indices: 37288693--37288830 Score: 194
Period size: 47 Copynumber: 3.0 Consensus size: 46
37288683 AAAATTTTCT
* *
37288693 TTAACTAAGTAACTTATCTGGAAATAATAAGGGAAAATTTAACAAGC
1 TTAACTAAGTAACTTATCCGGAAATATTAAGGG-AAATTTAACAAGC
37288740 TTAACTAAGTAACTTATCCGGAAATATTAAGGGCAAATTTAACAAGC
1 TTAACTAAGTAACTTATCCGGAAATATTAAGGG-AAATTTAACAAGC
* *
37288787 TTAAC----TAACTTATCCGGAAATATTAAGAGCAATTTAACAAGC
1 TTAACTAAGTAACTTATCCGGAAATATTAAGGGAAATTTAACAAGC
37288829 TT
1 TT
37288831 TAAATTCAAC
Statistics
Matches: 86, Mismatches: 5, Indels: 5
0.90 0.05 0.05
Matches are distributed among these distances:
42 14 0.16
43 23 0.27
47 49 0.57
ACGTcount: A:0.43, C:0.14, G:0.14, T:0.29
Consensus pattern (46 bp):
TTAACTAAGTAACTTATCCGGAAATATTAAGGGAAATTTAACAAGC
Found at i:37293388 original size:40 final size:40
Alignment explanation
Indices: 37293266--37293489 Score: 337
Period size: 40 Copynumber: 5.6 Consensus size: 40
37293256 TATTCGGATG
37293266 ATATCCGGGCTAAGACCCGAAGGCATTTTGTGCTAGTGACT
1 ATATCCGGGCTAAGACCCGAAGGCA-TTTGTGCTAGTGACT
37293307 ATATCCGGGCTAAGACCCGAAGGCATTTTGTGCTAGTGACT
1 ATATCCGGGCTAAGACCCGAAGGCA-TTTGTGCTAGTGACT
* *
37293348 ATATCCAGGCTAAGTCCCGAAGGCATTTGTGCTAGTGACT
1 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCTAGTGACT
* *
37293388 ATATCCGGGTTAAGTCCCGAAGGCATTTGTGCTAGTGACT
1 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCTAGTGACT
* *
37293428 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCGAGTTG-TT
1 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCTAG-TGACT
37293468 ATATCC-GGCTAA-ATCCCGAAGG
1 ATATCCGGGCTAAGA-CCCGAAGG
37293490 TTCTTGGGTT
Statistics
Matches: 173, Mismatches: 8, Indels: 6
0.93 0.04 0.03
Matches are distributed among these distances:
38 1 0.01
39 14 0.08
40 92 0.53
41 66 0.38
ACGTcount: A:0.25, C:0.22, G:0.27, T:0.27
Consensus pattern (40 bp):
ATATCCGGGCTAAGACCCGAAGGCATTTGTGCTAGTGACT
Found at i:37295193 original size:13 final size:13
Alignment explanation
Indices: 37295175--37295202 Score: 56
Period size: 13 Copynumber: 2.2 Consensus size: 13
37295165 TATATATATA
37295175 AAAGAAACAAAAG
1 AAAGAAACAAAAG
37295188 AAAGAAACAAAAG
1 AAAGAAACAAAAG
37295201 AA
1 AA
37295203 TAAAAAGAGG
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 15 1.00
ACGTcount: A:0.79, C:0.07, G:0.14, T:0.00
Consensus pattern (13 bp):
AAAGAAACAAAAG
Found at i:37296011 original size:2 final size:2
Alignment explanation
Indices: 37296006--37296033 Score: 56
Period size: 2 Copynumber: 14.0 Consensus size: 2
37295996 AATATATATA
37296006 TG TG TG TG TG TG TG TG TG TG TG TG TG TG
1 TG TG TG TG TG TG TG TG TG TG TG TG TG TG
37296034 CGCGCATGAG
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 26 1.00
ACGTcount: A:0.00, C:0.00, G:0.50, T:0.50
Consensus pattern (2 bp):
TG
Found at i:37296629 original size:23 final size:21
Alignment explanation
Indices: 37296603--37296652 Score: 73
Period size: 21 Copynumber: 2.3 Consensus size: 21
37296593 AGGCACTTTA
37296603 TGTGTCATATTTCAGGCACCTCG
1 TGTGTCATA--TCAGGCACCTCG
*
37296626 TGTGTCGTATCAGGCACCTCG
1 TGTGTCATATCAGGCACCTCG
37296647 TGTGTC
1 TGTGTC
37296653 GTTTTAGGCA
Statistics
Matches: 26, Mismatches: 1, Indels: 2
0.90 0.03 0.07
Matches are distributed among these distances:
21 18 0.69
23 8 0.31
ACGTcount: A:0.14, C:0.26, G:0.26, T:0.34
Consensus pattern (21 bp):
TGTGTCATATCAGGCACCTCG
Found at i:37296638 original size:21 final size:21
Alignment explanation
Indices: 37296614--37296677 Score: 83
Period size: 21 Copynumber: 3.0 Consensus size: 21
37296604 GTGTCATATT
37296614 TCAGGCACCTCGTGTGTCGTA
1 TCAGGCACCTCGTGTGTCGTA
*
37296635 TCAGGCACCTCGTGTGTCGTT
1 TCAGGCACCTCGTGTGTCGTA
* * **
37296656 TTAGGCACTTTATGTGTCGTA
1 TCAGGCACCTCGTGTGTCGTA
37296677 T
1 T
37296678 ACTAATCAGG
Statistics
Matches: 37, Mismatches: 6, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
21 37 1.00
ACGTcount: A:0.14, C:0.23, G:0.27, T:0.36
Consensus pattern (21 bp):
TCAGGCACCTCGTGTGTCGTA
Found at i:37296860 original size:18 final size:19
Alignment explanation
Indices: 37296839--37296879 Score: 59
Period size: 19 Copynumber: 2.2 Consensus size: 19
37296829 AATGAAATGA
37296839 GAAATTGA-AT-TGAGAATT
1 GAAATTGAGATATGAG-ATT
37296857 GAAATTGAGATATGAGATT
1 GAAATTGAGATATGAGATT
37296876 GAAA
1 GAAA
37296880 ACATGAACCA
Statistics
Matches: 21, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
18 8 0.38
19 9 0.43
20 4 0.19
ACGTcount: A:0.46, C:0.00, G:0.24, T:0.29
Consensus pattern (19 bp):
GAAATTGAGATATGAGATT
Found at i:37303014 original size:33 final size:34
Alignment explanation
Indices: 37302972--37303044 Score: 94
Period size: 34 Copynumber: 2.2 Consensus size: 34
37302962 ATATGCATTT
*
37302972 CTGATACTG-TACTGAAATGGACTAAGTCCAACA
1 CTGATACTGTTACTGAAATGGACTAAGGCCAACA
* * * *
37303005 CTGATACTGTTACTGTATTGGGCTAAGGCCCACA
1 CTGATACTGTTACTGAAATGGACTAAGGCCAACA
37303039 CTGATA
1 CTGATA
37303045 TTGCGACTGA
Statistics
Matches: 34, Mismatches: 5, Indels: 1
0.85 0.12 0.03
Matches are distributed among these distances:
33 9 0.26
34 25 0.74
ACGTcount: A:0.30, C:0.22, G:0.21, T:0.27
Consensus pattern (34 bp):
CTGATACTGTTACTGAAATGGACTAAGGCCAACA
Found at i:37307784 original size:68 final size:67
Alignment explanation
Indices: 37307646--37307970 Score: 239
Period size: 68 Copynumber: 4.9 Consensus size: 67
37307636 TCTCTTGTAC
* * ** * *
37307646 ACATGGTGAACAC-TCAGTACCACCCATGTGACCTAGC--CA-ATTTATCTCGTAGCTCTCTTAT
1 ACATGGTGCACACATCAATACCACCCATGCAACCTAGCTACATATATGTCTCGTAGCTCTCTTAT
37307707 CT
66 CT
* * *
37307709 ACATGGTGCACACAT-AATATCACCCATGCAACCTAGCTACATCATAATGTCTTGTAACTCTCTT
1 ACATGGTGCACACATCAATACCACCCATGCAACCTAGCTACAT-AT-ATGTCTCGTAGCTCTCTT
*
37307773 GTAC-
64 AT-CT
* * ** * *
37307777 ACATGGTGAACAC-TCAGTACCACCCATGTGACCTAGC--CA-ATTTATCTCGTAGCTCTCTTAT
1 ACATGGTGCACACATCAATACCACCCATGCAACCTAGCTACATATATGTCTCGTAGCTCTCTTAT
37307838 CT
66 CT
* * * * * * *
37307840 ACATGGTG-TC-CTTCACCTGGAGCCACGCATACGACCTAGCTACATATA--TCCCGTAGCTCTC
1 ACATGGTGCACACATCA-AT--A-CCACCCATGCAACCTAGCTACATATATGTCTCGTAGCTCTC
37307901 TTATCT
62 TTATCT
* *
37307907 ACATGGTGCACACAT-AATATCACCCATGCAACCTAGCTACATCATAATGTCTTGTAGCTCTCTT
1 ACATGGTGCACACATCAATACCACCCATGCAACCTAGCTACAT-AT-ATGTCTCGTAGCTCTCTT
37307971 GTACACATGA
Statistics
Matches: 203, Mismatches: 36, Indels: 41
0.73 0.13 0.15
Matches are distributed among these distances:
61 1 0.00
62 5 0.02
63 54 0.27
64 22 0.11
65 6 0.03
66 18 0.09
67 30 0.15
68 62 0.31
69 5 0.02
ACGTcount: A:0.27, C:0.30, G:0.14, T:0.30
Consensus pattern (67 bp):
ACATGGTGCACACATCAATACCACCCATGCAACCTAGCTACATATATGTCTCGTAGCTCTCTTAT
CT
Found at i:37314915 original size:43 final size:43
Alignment explanation
Indices: 37314843--37314926 Score: 132
Period size: 43 Copynumber: 2.0 Consensus size: 43
37314833 TCACATGTAA
* *
37314843 CGCATCCATTATGAACTCGAACCAGTCAACGAGCTCGGATGCT
1 CGCATCCATAATGAACTCGAACCACTCAACGAGCTCGGATGCT
* *
37314886 CGCATCCATAATGAACTTGGACCACTCAACGAGCTCGGATG
1 CGCATCCATAATGAACTCGAACCACTCAACGAGCTCGGATG
37314927 TCATATATAT
Statistics
Matches: 37, Mismatches: 4, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
43 37 1.00
ACGTcount: A:0.29, C:0.30, G:0.21, T:0.20
Consensus pattern (43 bp):
CGCATCCATAATGAACTCGAACCACTCAACGAGCTCGGATGCT
Found at i:37325717 original size:43 final size:43
Alignment explanation
Indices: 37325663--37325754 Score: 107
Period size: 43 Copynumber: 2.1 Consensus size: 43
37325653 ATATCGTATA
* * **
37325663 ATGCCAATGTCCCAGAC-GTGGTCTTACAT-GTATTCATATATCG
1 ATGCCAATGTCCCAAACAG-GGTCTTAC-TCGCACACATATATCG
*
37325706 ATGCCACTGTCCCAAACAGGGTCTTACTCGCACACATATATCG
1 ATGCCAATGTCCCAAACAGGGTCTTACTCGCACACATATATCG
37325749 ATGCCA
1 ATGCCA
37325755 TGGTCTTACT
Statistics
Matches: 42, Mismatches: 5, Indels: 4
0.82 0.10 0.08
Matches are distributed among these distances:
42 1 0.02
43 40 0.95
44 1 0.02
ACGTcount: A:0.27, C:0.28, G:0.17, T:0.27
Consensus pattern (43 bp):
ATGCCAATGTCCCAAACAGGGTCTTACTCGCACACATATATCG
Found at i:37331744 original size:13 final size:12
Alignment explanation
Indices: 37331711--37331745 Score: 52
Period size: 12 Copynumber: 2.8 Consensus size: 12
37331701 CTGAGAAGAA
37331711 TGAAATAAAAAT
1 TGAAATAAAAAT
37331723 TGAAATAAAAAT
1 TGAAATAAAAAT
*
37331735 TAGAAGTAAAA
1 T-GAAATAAAA
37331746 GAAATCTAAA
Statistics
Matches: 21, Mismatches: 1, Indels: 1
0.91 0.04 0.04
Matches are distributed among these distances:
12 13 0.62
13 8 0.38
ACGTcount: A:0.66, C:0.00, G:0.11, T:0.23
Consensus pattern (12 bp):
TGAAATAAAAAT
Found at i:37339398 original size:48 final size:48
Alignment explanation
Indices: 37339323--37339493 Score: 204
Period size: 48 Copynumber: 3.6 Consensus size: 48
37339313 TATAAAAGTT
*
37339323 AGTGTAAGACCTAT-T-TGGGACATGGCATCGACTTTGATGTACTAGCC
1 AGTGTAAGACC-ATGTCTGGGACATGGCATTGACTTTGATGTACTAGCC
* * * ** * * *
37339370 AGTGTAAGACCATGTCTGGGACACGGCATTGGCATCAATATATATAAGTC
1 AGTGTAAGACCATGTCTGGGACATGGCATTGACTTTGATGTA-CT-AGCC
*
37339420 AGTGTAAGACC-TGTCTGGGACATGGCATTGACTTTGATGTGCTAGCC
1 AGTGTAAGACCATGTCTGGGACATGGCATTGACTTTGATGTACTAGCC
37339467 AGTGTAAGACCATGTCTGGGACATGGC
1 AGTGTAAGACCATGTCTGGGACATGGC
37339494 GTCGGCATCT
Statistics
Matches: 101, Mismatches: 18, Indels: 9
0.79 0.14 0.07
Matches are distributed among these distances:
46 2 0.02
47 26 0.26
48 35 0.35
49 24 0.24
50 14 0.14
ACGTcount: A:0.26, C:0.19, G:0.27, T:0.27
Consensus pattern (48 bp):
AGTGTAAGACCATGTCTGGGACATGGCATTGACTTTGATGTACTAGCC
Found at i:37339501 original size:97 final size:97
Alignment explanation
Indices: 37339278--37339502 Score: 308
Period size: 97 Copynumber: 2.3 Consensus size: 97
37339268 CAAGCTAGTT
* * * * * * * *
37339278 TAAGACC-TGTATAGGACACGGTATCAGCCTCGATATATAAAAGTTAGTGTAAGACCTATTTGGG
1 TAAGACCATGTCTGGGACACGGCATCGGCATCAATATATAAAAGTCAGTGTAAGACCTATCTGGG
37339342 ACATGGCATCGACTTTGATGTACTAGCCAGTG
66 ACATGGCATCGACTTTGATGTACTAGCCAGTG
* * *
37339374 TAAGACCATGTCTGGGACACGGCATTGGCATCAATATATATAAGTCAGTGTAAGACCTGTCTGGG
1 TAAGACCATGTCTGGGACACGGCATCGGCATCAATATATAAAAGTCAGTGTAAGACCTATCTGGG
* *
37339439 ACATGGCATTGACTTTGATGTGCTAGCCAGTG
66 ACATGGCATCGACTTTGATGTACTAGCCAGTG
* *
37339471 TAAGACCATGTCTGGGACATGGCGTCGGCATC
1 TAAGACCATGTCTGGGACACGGCATCGGCATC
37339503 TTACTCCATG
Statistics
Matches: 112, Mismatches: 16, Indels: 1
0.87 0.12 0.01
Matches are distributed among these distances:
96 7 0.06
97 105 0.94
ACGTcount: A:0.28, C:0.19, G:0.26, T:0.27
Consensus pattern (97 bp):
TAAGACCATGTCTGGGACACGGCATCGGCATCAATATATAAAAGTCAGTGTAAGACCTATCTGGG
ACATGGCATCGACTTTGATGTACTAGCCAGTG
Found at i:37357474 original size:18 final size:18
Alignment explanation
Indices: 37357451--37357485 Score: 61
Period size: 18 Copynumber: 1.9 Consensus size: 18
37357441 CTTGATTTCC
*
37357451 TCATTCAGGCCTTCCTCT
1 TCATTCAGACCTTCCTCT
37357469 TCATTCAGACCTTCCTC
1 TCATTCAGACCTTCCTC
37357486 GAAGCATTTA
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
18 16 1.00
ACGTcount: A:0.14, C:0.40, G:0.09, T:0.37
Consensus pattern (18 bp):
TCATTCAGACCTTCCTCT
Found at i:37377785 original size:20 final size:20
Alignment explanation
Indices: 37377760--37377807 Score: 87
Period size: 20 Copynumber: 2.4 Consensus size: 20
37377750 GGTTTTTTGT
*
37377760 ATTAATTTGGGCATAATTTA
1 ATTAATTCGGGCATAATTTA
37377780 ATTAATTCGGGCATAATTTA
1 ATTAATTCGGGCATAATTTA
37377800 ATTAATTC
1 ATTAATTC
37377808 ATGCTACGTA
Statistics
Matches: 27, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
20 27 1.00
ACGTcount: A:0.35, C:0.08, G:0.12, T:0.44
Consensus pattern (20 bp):
ATTAATTCGGGCATAATTTA
Found at i:37380596 original size:21 final size:21
Alignment explanation
Indices: 37380539--37380596 Score: 66
Period size: 21 Copynumber: 2.8 Consensus size: 21
37380529 TTCTCATTTT
37380539 CAGCAAC-TTCTTTTTCTTCAG
1 CAGCAACTTTC-TTTTCTTCAG
* *
37380560 CAACAACTTCCTTTTCTGT-AG
1 CAGCAACTTTCTTTTCT-TCAG
37380581 CAGCAACTTTCTTTTC
1 CAGCAACTTTCTTTTC
37380597 AACAACAGTT
Statistics
Matches: 31, Mismatches: 4, Indels: 4
0.79 0.10 0.10
Matches are distributed among these distances:
21 28 0.90
22 3 0.10
ACGTcount: A:0.21, C:0.29, G:0.09, T:0.41
Consensus pattern (21 bp):
CAGCAACTTTCTTTTCTTCAG
Found at i:37384241 original size:34 final size:32
Alignment explanation
Indices: 37384196--37384293 Score: 92
Period size: 34 Copynumber: 3.0 Consensus size: 32
37384186 ATATCAGTTA
* *
37384196 GGGCCTTAGCCCTTTACAGTAACAGTAGCAGTCT
1 GGGCCTAAGCCCTTTACAGTAACAGTA-CAGT-G
* *
37384230 GGGCCTGAGCCCATTT-CAGTAACAATACCAGTG
1 GGGCCTAAGCCC-TTTACAGTAACAGTA-CAGTG
*
37384263 GGGCCTAAGCCCATTACAG-AATCAGTACAGT
1 GGGCCTAAGCCCTTTACAGTAA-CAGTACAGT
37384294 ATGCAATCAA
Statistics
Matches: 54, Mismatches: 7, Indels: 8
0.78 0.10 0.12
Matches are distributed among these distances:
32 8 0.15
33 18 0.33
34 25 0.46
35 3 0.06
ACGTcount: A:0.28, C:0.27, G:0.23, T:0.22
Consensus pattern (32 bp):
GGGCCTAAGCCCTTTACAGTAACAGTACAGTG
Found at i:37384274 original size:33 final size:35
Alignment explanation
Indices: 37384196--37384281 Score: 99
Period size: 34 Copynumber: 2.6 Consensus size: 35
37384186 ATATCAGTTA
* * * *
37384196 GGGCCTTAGCCC-TTTACAGTAACAGTAGCAGTCT
1 GGGCCTAAGCCCATTTACAGTAACAATACCAGTCG
*
37384230 GGGCCTGAGCCCATTT-CAGTAACAATACCAGT-G
1 GGGCCTAAGCCCATTTACAGTAACAATACCAGTCG
37384263 GGGCCTAAGCCCA-TTACAG
1 GGGCCTAAGCCCATTTACAG
37384282 AATCAGTACA
Statistics
Matches: 45, Mismatches: 5, Indels: 5
0.82 0.09 0.09
Matches are distributed among these distances:
32 2 0.04
33 15 0.33
34 25 0.56
35 3 0.07
ACGTcount: A:0.26, C:0.28, G:0.24, T:0.22
Consensus pattern (35 bp):
GGGCCTAAGCCCATTTACAGTAACAATACCAGTCG
Found at i:37385824 original size:28 final size:28
Alignment explanation
Indices: 37385789--37385890 Score: 89
Period size: 28 Copynumber: 3.5 Consensus size: 28
37385779 TAAACAGTGC
37385789 ATACAGTAACAGTCTGGGCCTGAGCCCT
1 ATACAGTAACAGTCTGGGCCTGAGCCCT
* *
37385817 ATTCAGTATCAGTACAGTCTGGGCCTTAGCCCT
1 ATACAG--T-A--ACAGTCTGGGCCTGAGCCCT
* * *
37385850 ATACAGTAACAGTGT-GGCCTTAAGCCCA
1 ATACAGTAACAGTCTGGGCC-TGAGCCCT
*
37385878 ATACAGTATCAGT
1 ATACAGTAACAGT
37385891 AAGTGTAATG
Statistics
Matches: 61, Mismatches: 7, Indels: 12
0.76 0.09 0.15
Matches are distributed among these distances:
27 4 0.07
28 29 0.48
30 2 0.03
31 2 0.03
33 24 0.39
ACGTcount: A:0.27, C:0.25, G:0.22, T:0.25
Consensus pattern (28 bp):
ATACAGTAACAGTCTGGGCCTGAGCCCT
Found at i:37385835 original size:33 final size:34
Alignment explanation
Indices: 37385791--37385862 Score: 110
Period size: 33 Copynumber: 2.1 Consensus size: 34
37385781 AACAGTGCAT
*
37385791 ACAGTAACAGTCTGGGCCTGAGCCCTATTCAGTA
1 ACAGTAACAGTCTGGGCCTGAGCCCTATACAGTA
* *
37385825 TCAGT-ACAGTCTGGGCCTTAGCCCTATACAGTA
1 ACAGTAACAGTCTGGGCCTGAGCCCTATACAGTA
37385858 ACAGT
1 ACAGT
37385863 GTGGCCTTAA
Statistics
Matches: 34, Mismatches: 4, Indels: 1
0.87 0.10 0.03
Matches are distributed among these distances:
33 30 0.88
34 4 0.12
ACGTcount: A:0.26, C:0.26, G:0.22, T:0.25
Consensus pattern (34 bp):
ACAGTAACAGTCTGGGCCTGAGCCCTATACAGTA
Found at i:37386258 original size:26 final size:27
Alignment explanation
Indices: 37386225--37386304 Score: 67
Period size: 27 Copynumber: 3.0 Consensus size: 27
37386215 TCATACGGAA
37386225 CATA-AGGGCATAAT-C-ATCATTTTAC
1 CATATAGGG-ATAATACGATCATTTTAC
* *
37386250 CATATAGGGGTATTACGATCATTTTAC
1 CATATAGGGATAATACGATCATTTTAC
* ** * *
37386277 CCTATAGGGGCATTACGGTCATTTTAC
1 CATATAGGGATAATACGATCATTTTAC
37386304 C
1 C
37386305 CCATAGGGGT
Statistics
Matches: 47, Mismatches: 5, Indels: 4
0.84 0.09 0.07
Matches are distributed among these distances:
25 7 0.15
26 5 0.11
27 35 0.74
ACGTcount: A:0.29, C:0.20, G:0.17, T:0.34
Consensus pattern (27 bp):
CATATAGGGATAATACGATCATTTTAC
Found at i:37386271 original size:27 final size:27
Alignment explanation
Indices: 37386240--37386314 Score: 114
Period size: 27 Copynumber: 2.8 Consensus size: 27
37386230 GGGCATAATC
*
37386240 ATCATTTTACCATATAGGGGTATTACG
1 ATCATTTTACCCTATAGGGGTATTACG
*
37386267 ATCATTTTACCCTATAGGGGCATTACG
1 ATCATTTTACCCTATAGGGGTATTACG
* *
37386294 GTCATTTTACCCCATAGGGGT
1 ATCATTTTACCCTATAGGGGT
37386315 TTCAGCTCAG
Statistics
Matches: 43, Mismatches: 5, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
27 43 1.00
ACGTcount: A:0.25, C:0.20, G:0.20, T:0.35
Consensus pattern (27 bp):
ATCATTTTACCCTATAGGGGTATTACG
Found at i:37395028 original size:29 final size:28
Alignment explanation
Indices: 37394995--37395085 Score: 103
Period size: 29 Copynumber: 3.2 Consensus size: 28
37394985 GTGAGCATGA
*
37394995 ATATGCATGTGATTTGGGCCTAATGGGCC
1 ATATGAATGTGA-TTGGGCCTAATGGGCC
* *
37395024 ATATGAATATGAATTGGGCCTGATGGGCC
1 ATATGAATGTG-ATTGGGCCTAATGGGCC
* *
37395053 ATATAAATGAGATTGGGCC-AAGTGGGCC
1 ATATGAATGTGATTGGGCCTAA-TGGGCC
37395081 ATATG
1 ATATG
37395086 CATATATGTA
Statistics
Matches: 52, Mismatches: 8, Indels: 5
0.80 0.12 0.08
Matches are distributed among these distances:
27 1 0.02
28 18 0.35
29 32 0.62
30 1 0.02
ACGTcount: A:0.27, C:0.14, G:0.31, T:0.27
Consensus pattern (28 bp):
ATATGAATGTGATTGGGCCTAATGGGCC
Found at i:37395078 original size:28 final size:29
Alignment explanation
Indices: 37395008--37395090 Score: 93
Period size: 28 Copynumber: 2.9 Consensus size: 29
37394998 TGCATGTGAT
37395008 TTGGGCCTAA-TGGGCCATATGAATATGAA
1 TTGGGCC-AAGTGGGCCATATGAATATGAA
*
37395037 TTGGGCC-TGATGGGCCATAT-AA-ATGAGA
1 TTGGGCCAAG-TGGGCCATATGAATATGA-A
*
37395065 TTGGGCCAAGTGGGCCATATGCATAT
1 TTGGGCCAAGTGGGCCATATGAATAT
37395091 ATGTAGGGGT
Statistics
Matches: 45, Mismatches: 3, Indels: 11
0.76 0.05 0.19
Matches are distributed among these distances:
27 4 0.09
28 20 0.44
29 19 0.42
30 2 0.04
ACGTcount: A:0.28, C:0.16, G:0.30, T:0.27
Consensus pattern (29 bp):
TTGGGCCAAGTGGGCCATATGAATATGAA
Found at i:37402481 original size:16 final size:16
Alignment explanation
Indices: 37402460--37402502 Score: 50
Period size: 16 Copynumber: 2.7 Consensus size: 16
37402450 AAGAATCGGA
*
37402460 AAAAGCTAAAATGCCG
1 AAAAGCCAAAATGCCG
* *
37402476 AAAAGCCGAAATGCTG
1 AAAAGCCAAAATGCCG
*
37402492 AAAAGGCAAAA
1 AAAAGCCAAAA
37402503 GTTGGGCTAC
Statistics
Matches: 22, Mismatches: 5, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
16 22 1.00
ACGTcount: A:0.53, C:0.16, G:0.21, T:0.09
Consensus pattern (16 bp):
AAAAGCCAAAATGCCG
Found at i:37402746 original size:29 final size:29
Alignment explanation
Indices: 37402726--37402832 Score: 121
Period size: 29 Copynumber: 3.7 Consensus size: 29
37402716 TGCATCTGAT
37402726 TTGGGCCTAATGGGCCATATGAATATGAA
1 TTGGGCCTAATGGGCCATATGAATATGAA
* *
37402755 TTGGGCCTGATGGGCCATATGAATGTGAA
1 TTGGGCCTAATGGGCCATATGAATATGAA
* * *
37402784 TTGGGCCTGATGCGCCTTAT-AA-ATGAGA
1 TTGGGCCTAATGGGCCATATGAATATGA-A
*
37402812 TTGGGCC-AAGTGGGTCATATG
1 TTGGGCCTAA-TGGGCCATATG
37402833 CATGTATGTA
Statistics
Matches: 66, Mismatches: 9, Indels: 6
0.81 0.11 0.07
Matches are distributed among these distances:
27 4 0.06
28 17 0.26
29 45 0.68
ACGTcount: A:0.25, C:0.15, G:0.32, T:0.28
Consensus pattern (29 bp):
TTGGGCCTAATGGGCCATATGAATATGAA
Found at i:37402831 original size:57 final size:58
Alignment explanation
Indices: 37402726--37402837 Score: 131
Period size: 57 Copynumber: 1.9 Consensus size: 58
37402716 TGCATCTGAT
* *
37402726 TTGGGCCTAATGGGCCATATGAATATGAATTGGGCCTGATGGGCCATATGAATGTGAA
1 TTGGGCCTAATGCGCCATATGAATATGAATTGGGCCAGATGGGCCATATGAATGTGAA
* * * *
37402784 TTGGGCCTGATGCGCCTTAT-AA-ATGAGATTGGGCCA-AGTGGGTCATATGCATGT
1 TTGGGCCTAATGCGCCATATGAATATGA-ATTGGGCCAGA-TGGGCCATATGAATGT
37402838 ATGTAGGAGT
Statistics
Matches: 46, Mismatches: 6, Indels: 5
0.81 0.11 0.09
Matches are distributed among these distances:
56 5 0.11
57 24 0.52
58 17 0.37
ACGTcount: A:0.25, C:0.15, G:0.31, T:0.29
Consensus pattern (58 bp):
TTGGGCCTAATGCGCCATATGAATATGAATTGGGCCAGATGGGCCATATGAATGTGAA
Found at i:37413058 original size:98 final size:97
Alignment explanation
Indices: 37412912--37413089 Score: 218
Period size: 98 Copynumber: 1.8 Consensus size: 97
37412902 GCACATCAAA
* * *
37412912 GTCGATGTCATGTCCCAAACAAGTCTGGCACTGACTTTCATATATCGAGGCCGATGTCGTGTCCT
1 GTCGATGTCATGTCCCAAACAAGTCTGACACTGACTTTCATATATCGAGGCCGATG-CATGTCCC
*
37412977 AGACAGGTCTTACACTGGCCCTCAACTATCGGT
65 AAACAGGTCTTACACTGGCCCTCAACTATCGGT
* * * *
37413010 GTCGATG-CTATGTCCCAAACAGGTCTTACACT-AGCTTGT-ATATCTCGAGGCTGATGCATGTC
1 GTCGATGTC-ATGTCCCAAACAAGTCTGACACTGA-CTT-TCATATATCGAGGCCGATGCATGTC
*
37413072 CCAAACATGTCTTACACT
63 CCAAACAGGTCTTACACT
37413090 AGCTCTCGTC
Statistics
Matches: 68, Mismatches: 9, Indels: 7
0.81 0.11 0.08
Matches are distributed among these distances:
97 22 0.32
98 45 0.66
99 1 0.01
ACGTcount: A:0.24, C:0.27, G:0.21, T:0.29
Consensus pattern (97 bp):
GTCGATGTCATGTCCCAAACAAGTCTGACACTGACTTTCATATATCGAGGCCGATGCATGTCCCA
AACAGGTCTTACACTGGCCCTCAACTATCGGT
Found at i:37413086 original size:48 final size:46
Alignment explanation
Indices: 37413012--37413184 Score: 168
Period size: 46 Copynumber: 3.7 Consensus size: 46
37413002 CTATCGGTGT
* * * *
37413012 CGATGCTATGTCCCAAACAGGTCTTACACTAGCTTGTATATCTCGAGGC
1 CGATGC-ATGTCCCAAACATGTCTTACACTAGC-TCT-CATCTCAAGGC
* * *
37413061 TGATGCATGTCCCAAACATGTCTTACACTAGCTCTCGTCTCAATGC
1 CGATGCATGTCCCAAACATGTCTTACACTAGCTCTCATCTCAAGGC
* * * * *
37413107 CGATGCATGTCCCATACATGTCTTACATTGGCTCTCATAAT-ATGGC
1 CGATGCATGTCCCAAACATGTCTTACACTAGCTCTCAT-CTCAAGGC
* **
37413153 CGATGCATATCCCAGGCATGTCTTACACTAGC
1 CGATGCATGTCCCAAACATGTCTTACACTAGC
37413185 ACACATATCA
Statistics
Matches: 103, Mismatches: 20, Indels: 5
0.80 0.16 0.04
Matches are distributed among these distances:
46 70 0.68
47 3 0.03
48 25 0.24
49 5 0.05
ACGTcount: A:0.24, C:0.28, G:0.18, T:0.29
Consensus pattern (46 bp):
CGATGCATGTCCCAAACATGTCTTACACTAGCTCTCATCTCAAGGC
Found at i:37413869 original size:20 final size:20
Alignment explanation
Indices: 37413844--37413882 Score: 53
Period size: 20 Copynumber: 1.9 Consensus size: 20
37413834 AAAATTTCAA
37413844 TTATTTCAC-ACATTTACAAC
1 TTATTTCACAAC-TTTACAAC
*
37413864 TTATTTTACAACTTTACAA
1 TTATTTCACAACTTTACAA
37413883 ATAGCCCTTT
Statistics
Matches: 17, Mismatches: 1, Indels: 2
0.85 0.05 0.10
Matches are distributed among these distances:
20 15 0.88
21 2 0.12
ACGTcount: A:0.36, C:0.21, G:0.00, T:0.44
Consensus pattern (20 bp):
TTATTTCACAACTTTACAAC
Found at i:37417827 original size:85 final size:85
Alignment explanation
Indices: 37417732--37417902 Score: 324
Period size: 85 Copynumber: 2.0 Consensus size: 85
37417722 ATCTAAACTA
*
37417732 ATCAGTGTTTGATTGAAACAAGTAAATAGAGTTTAACTGAAAAATTATTTCTCAAATTTGACTGA
1 ATCAGTGTTTGATTGAAACAAGTAAATAGAGTTTAACTGAAAAATTATTTCTCAAATTTGACTAA
37417797 AAATAGGAGTCATATTTAAC
66 AAATAGGAGTCATATTTAAC
*
37417817 ATCAGTGTTTGATTGAAACAAGTAAATAGAGTTTAACTGAAAGATTATTTCTCAAATTTGACTAA
1 ATCAGTGTTTGATTGAAACAAGTAAATAGAGTTTAACTGAAAAATTATTTCTCAAATTTGACTAA
37417882 AAATAGGAGTCATATTTAAC
66 AAATAGGAGTCATATTTAAC
37417902 A
1 A
37417903 AATCTCCACC
Statistics
Matches: 84, Mismatches: 2, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
85 84 1.00
ACGTcount: A:0.42, C:0.09, G:0.15, T:0.34
Consensus pattern (85 bp):
ATCAGTGTTTGATTGAAACAAGTAAATAGAGTTTAACTGAAAAATTATTTCTCAAATTTGACTAA
AAATAGGAGTCATATTTAAC
Found at i:37424719 original size:42 final size:41
Alignment explanation
Indices: 37424538--37424718 Score: 158
Period size: 40 Copynumber: 4.5 Consensus size: 41
37424528 GATATCTCAT
* * *
37424538 ACACTAAGTGCTAATACATAGCCGAAGCTATT-AT-AATTTCAC
1 ACACTAAGTGC-CATATATAGCCGAAGCTATTCTTGAA--TCAC
* * * * * *
37424580 ACACTAAGTGCCTTACATAGCCGAAACTA-TCTCG-GTCTCC
1 ACACTAAGTGCCATATATAGCCGAAGCTATTCTTGAATC-AC
* * *
37424620 ACACTAAGTGTCATATATAGCTGAAGCTATTC-TGAATCGC
1 ACACTAAGTGCCATATATAGCCGAAGCTATTCTTGAATCAC
* *
37424660 ACAGTAAGTGTCATATATAGCCGAAGCT-TTCTTGAATCAC
1 ACACTAAGTGCCATATATAGCCGAAGCTATTCTTGAATCAC
37424700 ACACTAAGTGCCATATATA
1 ACACTAAGTGCCATATATA
37424719 TATATATGAA
Statistics
Matches: 113, Mismatches: 20, Indels: 14
0.77 0.14 0.10
Matches are distributed among these distances:
39 5 0.04
40 78 0.69
41 19 0.17
42 11 0.10
ACGTcount: A:0.34, C:0.23, G:0.15, T:0.28
Consensus pattern (41 bp):
ACACTAAGTGCCATATATAGCCGAAGCTATTCTTGAATCAC
Found at i:37428621 original size:23 final size:22
Alignment explanation
Indices: 37428594--37428666 Score: 85
Period size: 23 Copynumber: 3.2 Consensus size: 22
37428584 GATAAAAGAA
37428594 ACAAATCCCTAAAATTATGGAAG
1 ACAAATCCCTAAAATT-TGGAAG
* *
37428617 ACAAATGCCTACAATTTAGGCAA-
1 ACAAATCCCTAAAATTT-GG-AAG
37428640 ACAAATCCCTAAAATTGTGGAAG
1 ACAAATCCCTAAAATT-TGGAAG
37428663 ACAA
1 ACAA
37428667 CTTGACTTGA
Statistics
Matches: 42, Mismatches: 4, Indels: 8
0.78 0.07 0.15
Matches are distributed among these distances:
22 3 0.07
23 36 0.86
24 3 0.07
ACGTcount: A:0.47, C:0.19, G:0.14, T:0.21
Consensus pattern (22 bp):
ACAAATCCCTAAAATTTGGAAG
Found at i:37430602 original size:33 final size:33
Alignment explanation
Indices: 37430565--37430631 Score: 125
Period size: 33 Copynumber: 2.0 Consensus size: 33
37430555 AATATCAAGA
37430565 TTGACAAATTCATCCCTTAAAGTTAACTCGATT
1 TTGACAAATTCATCCCTTAAAGTTAACTCGATT
*
37430598 TTGACAAATTTATCCCTTAAAGTTAACTCGATT
1 TTGACAAATTCATCCCTTAAAGTTAACTCGATT
37430631 T
1 T
37430632 CAAATCAAAA
Statistics
Matches: 33, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
33 33 1.00
ACGTcount: A:0.33, C:0.19, G:0.09, T:0.39
Consensus pattern (33 bp):
TTGACAAATTCATCCCTTAAAGTTAACTCGATT
Found at i:37432146 original size:13 final size:13
Alignment explanation
Indices: 37432128--37432159 Score: 55
Period size: 13 Copynumber: 2.5 Consensus size: 13
37432118 ATGTGTAAAT
37432128 TGAAATGGATATA
1 TGAAATGGATATA
*
37432141 TGAAATGGCTATA
1 TGAAATGGATATA
37432154 TGAAAT
1 TGAAAT
37432160 TAGTCATGTG
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
13 18 1.00
ACGTcount: A:0.44, C:0.03, G:0.22, T:0.31
Consensus pattern (13 bp):
TGAAATGGATATA
Found at i:37442216 original size:21 final size:21
Alignment explanation
Indices: 37442190--37442231 Score: 84
Period size: 21 Copynumber: 2.0 Consensus size: 21
37442180 TATAGAACAG
37442190 AAAGATACTTACAGACTTGGT
1 AAAGATACTTACAGACTTGGT
37442211 AAAGATACTTACAGACTTGGT
1 AAAGATACTTACAGACTTGGT
37442232 GTCGGGGATT
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
21 21 1.00
ACGTcount: A:0.38, C:0.14, G:0.19, T:0.29
Consensus pattern (21 bp):
AAAGATACTTACAGACTTGGT
Found at i:37459250 original size:26 final size:26
Alignment explanation
Indices: 37459220--37459271 Score: 104
Period size: 26 Copynumber: 2.0 Consensus size: 26
37459210 TCAAGGACAT
37459220 CAAACATTACAACCTTTTAGGCGTAA
1 CAAACATTACAACCTTTTAGGCGTAA
37459246 CAAACATTACAACCTTTTAGGCGTAA
1 CAAACATTACAACCTTTTAGGCGTAA
37459272 AGGCACAAAA
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
26 26 1.00
ACGTcount: A:0.38, C:0.23, G:0.12, T:0.27
Consensus pattern (26 bp):
CAAACATTACAACCTTTTAGGCGTAA
Found at i:37459585 original size:16 final size:16
Alignment explanation
Indices: 37459566--37459603 Score: 67
Period size: 16 Copynumber: 2.4 Consensus size: 16
37459556 TAAAAAGTAA
37459566 TACTAAACTAAGCTTT
1 TACTAAACTAAGCTTT
37459582 TACTAAACTAAGCTTT
1 TACTAAACTAAGCTTT
*
37459598 AACTAA
1 TACTAA
37459604 GATAGGCGCC
Statistics
Matches: 21, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
16 21 1.00
ACGTcount: A:0.42, C:0.18, G:0.05, T:0.34
Consensus pattern (16 bp):
TACTAAACTAAGCTTT
Found at i:37460051 original size:3 final size:3
Alignment explanation
Indices: 37460043--37460078 Score: 72
Period size: 3 Copynumber: 12.0 Consensus size: 3
37460033 ATTAGTACTG
37460043 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT
37460079 GTGTTCCTGA
Statistics
Matches: 33, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 33 1.00
ACGTcount: A:0.67, C:0.00, G:0.00, T:0.33
Consensus pattern (3 bp):
AAT
Found at i:37468604 original size:36 final size:36
Alignment explanation
Indices: 37468564--37468636 Score: 137
Period size: 36 Copynumber: 2.0 Consensus size: 36
37468554 AAAGGGATAG
37468564 TTAATTTTTTTTCCTTCTTTTTTGATAAAAGACTGT
1 TTAATTTTTTTTCCTTCTTTTTTGATAAAAGACTGT
*
37468600 TTAATTTTTTTTTCTTCTTTTTTGATAAAAGACTGT
1 TTAATTTTTTTTCCTTCTTTTTTGATAAAAGACTGT
37468636 T
1 T
37468637 ATTTAAAAGG
Statistics
Matches: 36, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
36 36 1.00
ACGTcount: A:0.22, C:0.10, G:0.08, T:0.60
Consensus pattern (36 bp):
TTAATTTTTTTTCCTTCTTTTTTGATAAAAGACTGT
Found at i:37469318 original size:21 final size:21
Alignment explanation
Indices: 37469292--37469331 Score: 71
Period size: 21 Copynumber: 1.9 Consensus size: 21
37469282 TACAAAAGAC
*
37469292 TTTTCTCCTTTTAGCTTTTAG
1 TTTTCTCCTTTCAGCTTTTAG
37469313 TTTTCTCCTTTCAGCTTTT
1 TTTTCTCCTTTCAGCTTTT
37469332 CTCACAAGAG
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
21 18 1.00
ACGTcount: A:0.07, C:0.23, G:0.07, T:0.62
Consensus pattern (21 bp):
TTTTCTCCTTTCAGCTTTTAG
Found at i:37469353 original size:28 final size:28
Alignment explanation
Indices: 37469322--37469377 Score: 112
Period size: 28 Copynumber: 2.0 Consensus size: 28
37469312 GTTTTCTCCT
37469322 TTCAGCTTTTCTCACAAGAGATATACAA
1 TTCAGCTTTTCTCACAAGAGATATACAA
37469350 TTCAGCTTTTCTCACAAGAGATATACAA
1 TTCAGCTTTTCTCACAAGAGATATACAA
37469378 CGAGTAATTA
Statistics
Matches: 28, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
28 28 1.00
ACGTcount: A:0.36, C:0.21, G:0.11, T:0.32
Consensus pattern (28 bp):
TTCAGCTTTTCTCACAAGAGATATACAA
Found at i:37474009 original size:19 final size:19
Alignment explanation
Indices: 37473985--37474024 Score: 80
Period size: 19 Copynumber: 2.1 Consensus size: 19
37473975 ATTAGTTCGC
37473985 ACTAACTATTACCATTGAG
1 ACTAACTATTACCATTGAG
37474004 ACTAACTATTACCATTGAG
1 ACTAACTATTACCATTGAG
37474023 AC
1 AC
37474025 GGCTAATGAC
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
19 21 1.00
ACGTcount: A:0.38, C:0.23, G:0.10, T:0.30
Consensus pattern (19 bp):
ACTAACTATTACCATTGAG
Found at i:37487035 original size:29 final size:32
Alignment explanation
Indices: 37487001--37487059 Score: 79
Period size: 32 Copynumber: 1.9 Consensus size: 32
37486991 AAAAATAATT
37487001 AATTTA-AAATTTC-AT-TAAATTAATAAAAA
1 AATTTATAAATTTCAATATAAATTAATAAAAA
* *
37487030 AATTTATCATTTTCAATATAAATTAATAAA
1 AATTTATAAATTTCAATATAAATTAATAAA
37487060 TAATAAAGTT
Statistics
Matches: 25, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
29 6 0.24
30 5 0.20
31 2 0.08
32 12 0.48
ACGTcount: A:0.54, C:0.05, G:0.00, T:0.41
Consensus pattern (32 bp):
AATTTATAAATTTCAATATAAATTAATAAAAA
Found at i:37491446 original size:22 final size:22
Alignment explanation
Indices: 37491421--37491486 Score: 84
Period size: 22 Copynumber: 3.1 Consensus size: 22
37491411 TAAGTGACTT
37491421 AATATGTAGAAAAGATCAAATA
1 AATATGTAGAAAAGATCAAATA
**
37491443 AATATGTTTAAAAGATCAAAT-
1 AATATGTAGAAAAGATCAAATA
*
37491464 --TATGTAGAAAAGATCAGATA
1 AATATGTAGAAAAGATCAAATA
37491484 AAT
1 AAT
37491487 TACTGTTTAA
Statistics
Matches: 36, Mismatches: 5, Indels: 6
0.77 0.11 0.13
Matches are distributed among these distances:
19 16 0.44
22 20 0.56
ACGTcount: A:0.55, C:0.05, G:0.14, T:0.27
Consensus pattern (22 bp):
AATATGTAGAAAAGATCAAATA
Found at i:37491475 original size:41 final size:42
Alignment explanation
Indices: 37491423--37491504 Score: 132
Period size: 41 Copynumber: 2.0 Consensus size: 42
37491413 AGTGACTTAA
37491423 TATGTAGAAAAGATCAAATAAA-TA-TGTTTAAAAGATCAAAT
1 TATGTAGAAAAGATCAAATAAATTACTGTTTAAAAGA-CAAAT
*
37491464 TATGTAGAAAAGATCAGATAAATTACTGTTTAAAAGACAAA
1 TATGTAGAAAAGATCAAATAAATTACTGTTTAAAAGACAAA
37491505 ATAGTATATA
Statistics
Matches: 38, Mismatches: 1, Indels: 3
0.90 0.02 0.07
Matches are distributed among these distances:
41 21 0.55
42 6 0.16
43 11 0.29
ACGTcount: A:0.52, C:0.06, G:0.13, T:0.28
Consensus pattern (42 bp):
TATGTAGAAAAGATCAAATAAATTACTGTTTAAAAGACAAAT
Found at i:37501329 original size:39 final size:40
Alignment explanation
Indices: 37501285--37501451 Score: 189
Period size: 40 Copynumber: 4.2 Consensus size: 40
37501275 CCTTCGGAGT
* *
37501285 TTAG-CCGGATATAGCCACTAGCTCAAATGCCTTCGGGAC
1 TTAGCCCGGATATAGCAACTAGCACAAATGCCTTCGGGAC
* * * *
37501324 TTAGCCCGGTTATAGTAACTTGCACAAATGCCTTTGGGAC
1 TTAGCCCGGATATAGCAACTAGCACAAATGCCTTCGGGAC
** *
37501364 TTAGCCCGG-TATAATAACTTGCACAAATGCCTTCGGGAC
1 TTAGCCCGGATATAGCAACTAGCACAAATGCCTTCGGGAC
* *
37501403 TTAGCCCGGA-ATTAGCCACTAGCTCAAATG-CTCTCGGGAC
1 TTAGCCCGGATA-TAGCAACTAGCACAAATGCCT-TCGGGAC
37501443 TTAGCCCGG
1 TTAGCCCGG
37501452 TTATCATCCG
Statistics
Matches: 111, Mismatches: 13, Indels: 7
0.85 0.10 0.05
Matches are distributed among these distances:
39 44 0.40
40 67 0.60
ACGTcount: A:0.25, C:0.27, G:0.23, T:0.25
Consensus pattern (40 bp):
TTAGCCCGGATATAGCAACTAGCACAAATGCCTTCGGGAC
Found at i:37501352 original size:40 final size:39
Alignment explanation
Indices: 37501308--37501452 Score: 193
Period size: 40 Copynumber: 3.7 Consensus size: 39
37501298 GCCACTAGCT
37501308 CAAATGCCTTCGGGACTTAGCCCGGTTATAGTAACTTGCA
1 CAAATGCCTTCGGGACTTAGCCCGG-TATAGTAACTTGCA
* *
37501348 CAAATGCCTTTGGGACTTAGCCCGGTATAATAACTTGCA
1 CAAATGCCTTCGGGACTTAGCCCGGTATAGTAACTTGCA
* ** * *
37501387 CAAATGCCTTCGGGACTTAGCCCGGAATTAGCCACTAGCT
1 CAAATGCCTTCGGGACTTAGCCCGGTA-TAGTAACTTGCA
37501427 CAAATG-CTCTCGGGACTTAGCCCGGT
1 CAAATGCCT-TCGGGACTTAGCCCGGT
37501453 TATCATCCGA
Statistics
Matches: 93, Mismatches: 10, Indels: 4
0.87 0.09 0.04
Matches are distributed among these distances:
39 40 0.43
40 53 0.57
ACGTcount: A:0.25, C:0.27, G:0.23, T:0.26
Consensus pattern (39 bp):
CAAATGCCTTCGGGACTTAGCCCGGTATAGTAACTTGCA
Found at i:37503701 original size:40 final size:40
Alignment explanation
Indices: 37503646--37503875 Score: 331
Period size: 40 Copynumber: 5.8 Consensus size: 40
37503636 GATGATAACG
*
37503646 GGGCTAAGTCCCGAAGGCATTTGTGCTAGTGACTAATTCC
1 GGGCTAAGTCCCGAAGGCATTTGTGCGAGTGACTAATTCC
* *
37503686 GGGCTAAGTCCCGAAGGCATTTGTGCTAGTGACTAATTTC
1 GGGCTAAGTCCCGAAGGCATTTGTGCGAGTGACTAATTCC
*
37503726 GGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTAATTCC
1 GGGCTAAGTCCCGAAGGCATTTGTGCGAGTGACTAATTCC
* * *
37503766 GGGCTAAGTCCCGAAGGCATTCGTGCGAGTTACT-ATATAC
1 GGGCTAAGTCCCGAAGGCATTTGTGCGAGTGACTAAT-TCC
*
37503806 GGGCTAAGTCCCGAAGGCATTTGTGCGAACT-ACT-ATATCC
1 GGGCTAAGTCCCGAAGGCATTTGTGCG-AGTGACTAAT-TCC
*
37503846 GGGCTAAGTCCCGAAGGCATTTGAGCGAGT
1 GGGCTAAGTCCCGAAGGCATTTGTGCGAGT
37503876 AGCTATATCC
Statistics
Matches: 177, Mismatches: 11, Indels: 5
0.92 0.06 0.03
Matches are distributed among these distances:
39 4 0.02
40 171 0.97
41 2 0.01
ACGTcount: A:0.23, C:0.22, G:0.28, T:0.26
Consensus pattern (40 bp):
GGGCTAAGTCCCGAAGGCATTTGTGCGAGTGACTAATTCC
Found at i:37503882 original size:40 final size:39
Alignment explanation
Indices: 37503646--37503901 Score: 322
Period size: 40 Copynumber: 6.4 Consensus size: 39
37503636 GATGATAACG
*
37503646 GGGCTAAGTCCCGAAGGCATTTGTGCTAGTGACTAATTCC
1 GGGCTAAGTCCCGAAGGCATTTGTGCGAGT-ACTAATTCC
* *
37503686 GGGCTAAGTCCCGAAGGCATTTGTGCTAGTGACTAATTTC
1 GGGCTAAGTCCCGAAGGCATTTGTGCGAGT-ACTAATTCC
37503726 GGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTAATTCC
1 GGGCTAAGTCCCGAAGGCATTTGTGCGAG-TACTAATTCC
* *
37503766 GGGCTAAGTCCCGAAGGCATTCGTGCGAGTTACT-ATATAC
1 GGGCTAAGTCCCGAAGGCATTTGTGCGAG-TACTAAT-TCC
*
37503806 GGGCTAAGTCCCGAAGGCATTTGTGCGAACTACT-ATATCC
1 GGGCTAAGTCCCGAAGGCATTTGTGCG-AGTACTAAT-TCC
*
37503846 GGGCTAAGTCCCGAAGGCATTTGAGCGAGTAGCT-ATATCC
1 GGGCTAAGTCCCGAAGGCATTTGTGCGAGTA-CTAAT-TCC
* *
37503886 -GGTTAAATCCCGAAGG
1 GGGCTAAGTCCCGAAGG
37503902 TACTTGGTTT
Statistics
Matches: 200, Mismatches: 12, Indels: 9
0.90 0.05 0.04
Matches are distributed among these distances:
39 19 0.09
40 179 0.89
41 2 0.01
ACGTcount: A:0.24, C:0.22, G:0.28, T:0.26
Consensus pattern (39 bp):
GGGCTAAGTCCCGAAGGCATTTGTGCGAGTACTAATTCC
Found at i:37506184 original size:22 final size:22
Alignment explanation
Indices: 37506159--37506201 Score: 52
Period size: 22 Copynumber: 2.0 Consensus size: 22
37506149 AAAGCCGAGG
37506159 AGCTCAGTA-GGGAGAAAAGGAA
1 AGCTCA-TATGGGAGAAAAGGAA
* *
37506181 AGCTGATATGGGAGCAAAGGA
1 AGCTCATATGGGAGAAAAGGA
37506202 GTTTTATAAG
Statistics
Matches: 18, Mismatches: 2, Indels: 2
0.82 0.09 0.09
Matches are distributed among these distances:
21 2 0.11
22 16 0.89
ACGTcount: A:0.42, C:0.09, G:0.37, T:0.12
Consensus pattern (22 bp):
AGCTCATATGGGAGAAAAGGAA
Found at i:37517137 original size:43 final size:42
Alignment explanation
Indices: 37517034--37517158 Score: 155
Period size: 42 Copynumber: 3.0 Consensus size: 42
37517024 TTAGGGTTAT
*
37517034 TGAGATTTCGTATAAGACCATATCTGGGATATGGCATCGACA
1 TGAGATTTCGTATAAGACCATATCTGGGATATGGCATCGAAA
* ** *
37517076 TGCA-ATTTCGTGTAAGACCACGTCTGGGACT-TGGCTTCGAAAA
1 TG-AGATTTCGTATAAGACCATATCTGGGA-TATGGCATCG-AAA
*
37517119 TGAGACTTCGTATAAGACCATATCTGGGATATGGCATCGA
1 TGAGATTTCGTATAAGACCATATCTGGGATATGGCATCGA
37517159 TTTGAGACAT
Statistics
Matches: 68, Mismatches: 10, Indels: 10
0.77 0.11 0.11
Matches are distributed among these distances:
42 34 0.50
43 34 0.50
ACGTcount: A:0.29, C:0.18, G:0.25, T:0.28
Consensus pattern (42 bp):
TGAGATTTCGTATAAGACCATATCTGGGATATGGCATCGAAA
Found at i:37522175 original size:40 final size:40
Alignment explanation
Indices: 37522120--37522261 Score: 234
Period size: 40 Copynumber: 3.5 Consensus size: 40
37522110 ATGATAACCT
*
37522120 GGCTAAGTCCCGAAGGCATTTGTGCTAGTGT-CTA-ATTCCG
1 GGCTAAGTCCCGAAGGCATTTGTGCGAGT-TACTATA-TCCG
37522160 GGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATATCCG
1 GGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATATCCG
*
37522200 GGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAACCG
1 GGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATATCCG
37522240 GGCTAAGTCCCGAAGGCATTTG
1 GGCTAAGTCCCGAAGGCATTTG
37522262 AGCAAGTAGT
Statistics
Matches: 98, Mismatches: 2, Indels: 4
0.94 0.02 0.04
Matches are distributed among these distances:
39 1 0.01
40 96 0.98
41 1 0.01
ACGTcount: A:0.23, C:0.23, G:0.28, T:0.27
Consensus pattern (40 bp):
GGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATATCCG
Found at i:37522276 original size:80 final size:79
Alignment explanation
Indices: 37522120--37522293 Score: 228
Period size: 80 Copynumber: 2.2 Consensus size: 79
37522110 ATGATAACCT
* * *
37522120 GGCTAAGTCCCGAAGGCATTTGTGCTAGTGTCTAATTCCGGGCTAAGTCCCGAAGGCATTTGTGC
1 GGCTAAGTCCCGAAGGCATTTGTGCGAGTGTCTAATACCGGGCTAAGTCCCGAAGGCATTTGAGC
*
37522185 GAGTTACTATATCC
66 AAGTTACTATATCC
37522199 GGGCTAAGTCCCGAAGGCATTTGTGCGAGT-TACT-ATAACCGGGCTAAGTCCCGAAGGCATTTG
1 -GGCTAAGTCCCGAAGGCATTTGTGCGAGTGT-CTAAT-ACCGGGCTAAGTCCCGAAGGCATTTG
* *
37522262 AGCAAG-TAGTTATATTC
63 AGCAAGTTA-CTATATCC
*
37522279 GGCTAAATCCCGAAG
1 GGCTAAGTCCCGAAG
37522294 ATGCTTGGGT
Statistics
Matches: 84, Mismatches: 7, Indels: 7
0.86 0.07 0.07
Matches are distributed among these distances:
79 19 0.23
80 65 0.77
ACGTcount: A:0.25, C:0.22, G:0.27, T:0.26
Consensus pattern (79 bp):
GGCTAAGTCCCGAAGGCATTTGTGCGAGTGTCTAATACCGGGCTAAGTCCCGAAGGCATTTGAGC
AAGTTACTATATCC
Found at i:37522561 original size:22 final size:21
Alignment explanation
Indices: 37522520--37522563 Score: 54
Period size: 22 Copynumber: 2.0 Consensus size: 21
37522510 GAATGTGCAG
37522520 ATATGAAGTTATCCATTTAGCC
1 ATATGAAGTTATCCA-TTAGCC
37522542 ATATGAATGTTATACC-TTAGCC
1 ATATGAA-GTTAT-CCATTAGCC
37522564 GAAACTAATT
Statistics
Matches: 20, Mismatches: 0, Indels: 4
0.83 0.00 0.17
Matches are distributed among these distances:
22 13 0.65
23 5 0.25
24 2 0.10
ACGTcount: A:0.32, C:0.18, G:0.14, T:0.36
Consensus pattern (21 bp):
ATATGAAGTTATCCATTAGCC
Found at i:37528606 original size:20 final size:19
Alignment explanation
Indices: 37528570--37528620 Score: 54
Period size: 20 Copynumber: 2.7 Consensus size: 19
37528560 AATGGCTATT
*
37528570 TTGTAAA-GTTGTAAAATAA
1 TTGTAAATG-TGTGAAATAA
37528589 GTTGTAAATGTGTGAAATAA
1 -TTGTAAATGTGTGAAATAA
37528609 TTG-AAAT-TGTGA
1 TTGTAAATGTGTGA
37528621 GTTGCTATAG
Statistics
Matches: 29, Mismatches: 1, Indels: 5
0.83 0.03 0.14
Matches are distributed among these distances:
17 5 0.17
18 4 0.14
19 3 0.10
20 16 0.55
21 1 0.03
ACGTcount: A:0.41, C:0.00, G:0.22, T:0.37
Consensus pattern (19 bp):
TTGTAAATGTGTGAAATAA
Found at i:37529378 original size:48 final size:45
Alignment explanation
Indices: 37529277--37529449 Score: 154
Period size: 48 Copynumber: 3.7 Consensus size: 45
37529267 ATGGATGTGT
*
37529277 GCTAGTGTAAGACATGTCTGGGACATGCATCGGCCACATTATGAGA
1 GCTAGTGTAAGACATGTCTGGGACAGGCATC-GCCACATTATGAGA
* *
37529323 GCCAGTGTAAGACCATGTCTGGGACAGGGCA-C-CGACATTAAGATGAGA
1 GCTAGTGTAAGA-CATGTCTGGGACA-GGCATCGCCACATT---ATGAGA
* * * *
37529371 GCTAGTGTGAGACATGTCTGGGACATGCATCGGCCTCGAGATATGCAG-
1 GCTAGTGTAAGACATGTCTGGGACAGGCATC-GCCAC-A-TTATG-AGA
*
37529419 GCTAGTGTAAGACTTGTCTGGGACATGGCAT
1 GCTAGTGTAAGACATGTCTGGGACA-GGCAT
37529450 AGCTTGACAT
Statistics
Matches: 103, Mismatches: 12, Indels: 21
0.76 0.09 0.15
Matches are distributed among these distances:
45 6 0.06
46 14 0.14
47 28 0.27
48 45 0.44
49 8 0.08
50 1 0.01
51 1 0.01
ACGTcount: A:0.27, C:0.20, G:0.31, T:0.23
Consensus pattern (45 bp):
GCTAGTGTAAGACATGTCTGGGACAGGCATCGCCACATTATGAGA
Found at i:37529566 original size:49 final size:49
Alignment explanation
Indices: 37529462--37529572 Score: 125
Period size: 49 Copynumber: 2.3 Consensus size: 49
37529452 CTTGACATGT
*** * *
37529462 GTCAGTGTAAGACCTGTTTGGGACATGGCATCGACACCGATAGATGAGA
1 GTCAGTGTAAGACCTGTCCAGGACATGGCATCGACACCAATAGATGAAA
* * * *
37529511 GCCAGTGTAAGACCTGTCCAGGATATGGCATCGGC-CTCAATATATGAAA
1 GTCAGTGTAAGACCTGTCCAGGACATGGCATCGACAC-CAATAGATGAAA
37529560 GTCAGTGTAAGAC
1 GTCAGTGTAAGAC
37529573 GGACATGGCA
Statistics
Matches: 51, Mismatches: 10, Indels: 2
0.81 0.16 0.03
Matches are distributed among these distances:
48 1 0.02
49 50 0.98
ACGTcount: A:0.30, C:0.20, G:0.28, T:0.23
Consensus pattern (49 bp):
GTCAGTGTAAGACCTGTCCAGGACATGGCATCGACACCAATAGATGAAA
Found at i:37533562 original size:42 final size:42
Alignment explanation
Indices: 37533514--37533669 Score: 125
Period size: 49 Copynumber: 3.5 Consensus size: 42
37533504 AGACTTTGTA
* *
37533514 TAAGACCATATCTGGGATATGGCATCCATATGAGA-CATCGTG
1 TAAGACCATATCTGGGATATGGCATCCATATGAGATC-CCATG
* * * * *
37533556 TAAGACCATAGCTAGGCTATTGGCATCGATATGTGATCCCATG
1 TAAGACCATATCTGGGATA-TGGCATCCATATGAGATCCCATG
* * *
37533599 TAAGACTATATCTGGGATATGGCTATTTGCATCGATATGTGATCCTATG
1 TAAGACCATATCTGGGATATGGC-A--T-C--C-ATATGAGATCCCATG
*
37533648 TAAGACCATATTTGGGATATGG
1 TAAGACCATATCTGGGATATGG
37533670 TATTGGCATC
Statistics
Matches: 90, Mismatches: 15, Indels: 11
0.78 0.13 0.09
Matches are distributed among these distances:
42 20 0.22
43 33 0.37
44 1 0.01
45 1 0.01
46 1 0.01
49 34 0.38
ACGTcount: A:0.29, C:0.17, G:0.24, T:0.31
Consensus pattern (42 bp):
TAAGACCATATCTGGGATATGGCATCCATATGAGATCCCATG
Found at i:37533631 original size:49 final size:49
Alignment explanation
Indices: 37533570--37533679 Score: 177
Period size: 49 Copynumber: 2.3 Consensus size: 49
37533560 ACCATAGCTA
*
37533570 GGCTATTGGCATCGATATGTGATCCCATGTAAGACTATATCTGGGATAT
1 GGCTATTGGCATCGATATGTGATCCCATGTAAGACCATATCTGGGATAT
* * *
37533619 GGCTATTTGCATCGATATGTGATCCTATGTAAGACCATATTTGGGATAT
1 GGCTATTGGCATCGATATGTGATCCCATGTAAGACCATATCTGGGATAT
37533668 GG-TATTGGCATC
1 GGCTATTGGCATC
37533680 TTGCTATGTG
Statistics
Matches: 56, Mismatches: 5, Indels: 1
0.90 0.08 0.02
Matches are distributed among these distances:
48 9 0.16
49 47 0.84
ACGTcount: A:0.25, C:0.15, G:0.25, T:0.35
Consensus pattern (49 bp):
GGCTATTGGCATCGATATGTGATCCCATGTAAGACCATATCTGGGATAT
Found at i:37534768 original size:41 final size:43
Alignment explanation
Indices: 37534684--37534777 Score: 138
Period size: 43 Copynumber: 2.2 Consensus size: 43
37534674 CATGTGGCTA
*
37534684 GGCTGTGTGTGACACACGGTTTGCCCCCATAGGCGTGTGATCC
1 GGCTGTGTGTGACACACGGTTTGCCCCCATAGGCGTGTAATCC
*
37534727 GGCTGTGTGTGACACATGGTTTGCCCCCAT-GG-GTGTAATCC
1 GGCTGTGTGTGACACACGGTTTGCCCCCATAGGCGTGTAATCC
* *
37534768 GACCGTGTGT
1 GGCTGTGTGT
37534778 CCCCTGCATC
Statistics
Matches: 47, Mismatches: 4, Indels: 2
0.89 0.08 0.04
Matches are distributed among these distances:
41 16 0.34
42 2 0.04
43 29 0.62
ACGTcount: A:0.14, C:0.26, G:0.33, T:0.28
Consensus pattern (43 bp):
GGCTGTGTGTGACACACGGTTTGCCCCCATAGGCGTGTAATCC
Found at i:37536777 original size:17 final size:17
Alignment explanation
Indices: 37536752--37536788 Score: 56
Period size: 17 Copynumber: 2.2 Consensus size: 17
37536742 AGTGATGTTC
37536752 TAATAGCTAAAGAATTT
1 TAATAGCTAAAGAATTT
* *
37536769 TAATTGCTATAGAATTT
1 TAATAGCTAAAGAATTT
37536786 TAA
1 TAA
37536789 ATGGATGTCC
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
17 18 1.00
ACGTcount: A:0.43, C:0.05, G:0.11, T:0.41
Consensus pattern (17 bp):
TAATAGCTAAAGAATTT
Found at i:37545299 original size:43 final size:43
Alignment explanation
Indices: 37545238--37545341 Score: 208
Period size: 43 Copynumber: 2.4 Consensus size: 43
37545228 GCTAGTTTTC
37545238 GGCACTAAGTGTGCGGGCAATAAGTGTTCACGGTTGTGAGATT
1 GGCACTAAGTGTGCGGGCAATAAGTGTTCACGGTTGTGAGATT
37545281 GGCACTAAGTGTGCGGGCAATAAGTGTTCACGGTTGTGAGATT
1 GGCACTAAGTGTGCGGGCAATAAGTGTTCACGGTTGTGAGATT
37545324 GGCACTAAGTGTGCGGGC
1 GGCACTAAGTGTGCGGGC
37545342 TTGAAATGCA
Statistics
Matches: 61, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
43 61 1.00
ACGTcount: A:0.22, C:0.15, G:0.37, T:0.26
Consensus pattern (43 bp):
GGCACTAAGTGTGCGGGCAATAAGTGTTCACGGTTGTGAGATT
Found at i:37545358 original size:29 final size:29
Alignment explanation
Indices: 37545323--37545396 Score: 105
Period size: 29 Copynumber: 2.6 Consensus size: 29
37545313 GTTGTGAGAT
* *
37545323 TGGCACTAAGTGTGCGGGCTTGAAA-TGCA
1 TGGCACTAAGTGTGCGAG-TTGAAAGTACA
*
37545352 TGGCACTAAGTGTGCGAGTTTAAAGTACA
1 TGGCACTAAGTGTGCGAGTTGAAAGTACA
37545381 TGGCACTAAGTGTGCG
1 TGGCACTAAGTGTGCG
37545397 TGGTTGATTA
Statistics
Matches: 41, Mismatches: 3, Indels: 2
0.89 0.07 0.04
Matches are distributed among these distances:
28 5 0.12
29 36 0.88
ACGTcount: A:0.26, C:0.16, G:0.32, T:0.26
Consensus pattern (29 bp):
TGGCACTAAGTGTGCGAGTTGAAAGTACA
Found at i:37562586 original size:97 final size:97
Alignment explanation
Indices: 37562420--37562784 Score: 547
Period size: 97 Copynumber: 3.7 Consensus size: 97
37562410 TTAAACCCAT
*
37562420 ATGTGAAAGTGTATATATATGTGATAAGGCTTAATGGCCGATGTGATGAATGTGAAAGTGTATAT
1 ATGTGAAAGTGTATATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATAT
37562485 ATGTGAATAGGGCCTAATGGCCGATGTGATGA
66 ATGTGAATAGGGCCTAATGGCCGATGTGATGA
*
37562517 ATGTGAAAGTGTATATATATGTGATAAGGCTTAATGGCCGATGTGATGAATGTGAAAGTGTATAT
1 ATGTGAAAGTGTATATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATAT
37562582 ATGTGAATAGGGCCTAATGGCCGATGTGATGA
66 ATGTGAATAGGGCCTAATGGCCGATGTGATGA
37562614 ATGTGAAAGTGTATATATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTAT
1 ATGTGAAAGTG--TATATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTG---
* *
37562679 ATATATATGTG-ATAAGGCCTAATGGCCGATGTGGTGA
61 -TATATATGTGAATAGGGCCTAATGGCCGATGTGATGA
* * * * * * * *
37562716 ATGTGAAAGTG--TATATATGTGACAGGGCCGAGTGGCCAATGTGATGGATGTGAAAGTGCATAA
1 ATGTGAAAGTGTATATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATAT
37562779 ATGTGA
66 ATGTGA
37562785 TAAGTCCCGA
Statistics
Matches: 250, Mismatches: 11, Indels: 16
0.90 0.04 0.06
Matches are distributed among these distances:
94 8 0.03
97 108 0.43
98 41 0.16
99 48 0.19
102 35 0.14
103 10 0.04
ACGTcount: A:0.32, C:0.08, G:0.30, T:0.30
Consensus pattern (97 bp):
ATGTGAAAGTGTATATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATAT
ATGTGAATAGGGCCTAATGGCCGATGTGATGA
Found at i:37562653 original size:51 final size:49
Alignment explanation
Indices: 37562420--37562788 Score: 520
Period size: 51 Copynumber: 7.6 Consensus size: 49
37562410 TTAAACCCAT
*
37562420 ATGTGAAAGTGTATATATATGTGATAAGGCTTAATGGCCGATGTGATGA
1 ATGTGAAAGTGTATATATATGTGATAAGGCCTAATGGCCGATGTGATGA
*
37562469 ATGTGAAAGTG--TATATATGTGAATAGGGCCTAATGGCCGATGTGATGA
1 ATGTGAAAGTGTATATATATGTG-ATAAGGCCTAATGGCCGATGTGATGA
*
37562517 ATGTGAAAGTGTATATATATGTGATAAGGCTTAATGGCCGATGTGATGA
1 ATGTGAAAGTGTATATATATGTGATAAGGCCTAATGGCCGATGTGATGA
*
37562566 ATGTGAAAGTG--TATATATGTGAATAGGGCCTAATGGCCGATGTGATGA
1 ATGTGAAAGTGTATATATATGTG-ATAAGGCCTAATGGCCGATGTGATGA
37562614 ATGTGAAAGTGTATATATATATGTGATAAGGCCTAATGGCCGATGTGATGA
1 ATGTGAAAGTG--TATATATATGTGATAAGGCCTAATGGCCGATGTGATGA
*
37562665 ATGTGAAAGTGTATATATATATGTGATAAGGCCTAATGGCCGATGTGGTGA
1 ATGTGAAAGTG--TATATATATGTGATAAGGCCTAATGGCCGATGTGATGA
* * * * * *
37562716 ATGTGAAAGTG--TATATATGTGACAGGGCCGAGTGGCCAATGTGATGG
1 ATGTGAAAGTGTATATATATGTGATAAGGCCTAATGGCCGATGTGATGA
*
37562763 ATGTGAAAGTGCATA-A-ATGTGATAAG
1 ATGTGAAAGTGTATATATATGTGATAAG
37562789 TCCCGAAGGG
Statistics
Matches: 293, Mismatches: 17, Indels: 22
0.88 0.05 0.07
Matches are distributed among these distances:
47 68 0.23
48 71 0.24
49 48 0.16
50 10 0.03
51 86 0.29
52 10 0.03
ACGTcount: A:0.32, C:0.08, G:0.30, T:0.30
Consensus pattern (49 bp):
ATGTGAAAGTGTATATATATGTGATAAGGCCTAATGGCCGATGTGATGA
Found at i:37562963 original size:37 final size:37
Alignment explanation
Indices: 37562907--37562985 Score: 131
Period size: 37 Copynumber: 2.1 Consensus size: 37
37562897 CCGAGCTCTA
* *
37562907 AAGACCCGATGACTACGTGTGGAGATTTTGTCCGGGT
1 AAGACCCGATAACTACGTGTGGAGATTATGTCCGGGT
*
37562944 AAGACCCGATAACTTCGTGTGGAGATTATGTCCGGGT
1 AAGACCCGATAACTACGTGTGGAGATTATGTCCGGGT
37562981 AAGAC
1 AAGAC
37562986 TTCGTAATAA
Statistics
Matches: 39, Mismatches: 3, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
37 39 1.00
ACGTcount: A:0.25, C:0.19, G:0.30, T:0.25
Consensus pattern (37 bp):
AAGACCCGATAACTACGTGTGGAGATTATGTCCGGGT
Found at i:37576704 original size:293 final size:291
Alignment explanation
Indices: 37576125--37576712 Score: 1043
Period size: 293 Copynumber: 2.0 Consensus size: 291
37576115 CCGTAGTTCC
*
37576125 GCGAGAAAGAGTTACTTAGGAGTTCTTCAAGTTGAATTTATAAAGAAATACATTAGTCAAAGGTT
1 GCGAGAAAGAGTTACTTAGGAGTTCTTCAAGTTGAATTTATAAAGAAATACATCAGTCAAAGGTT
* * *
37576190 CATTGATCAGAAATGAAAGGAGTTTCTTGAATTGAAACATGGCCGTATGTCGGTAACAGAATACG
66 CATTGATCAGAAACGAAAGGAATTTCTTGAATTGAAACAGGGCCGTATGTCGGTAACAGAATACG
***
37576255 AAAGAGAGTTTGTACGACTTAGAAACATGCTCGTGAATGTGTTTCTTGTGAGGCTATAATGTGTA
131 AAAGAGAGTTTGTACGACTTAGAAACATGCTCGTGAATGTGTTTCTTCCAAGGCTATAATGTGTA
*
37576320 AAAGGTTCGAAGATGGATTGAATGAAGAAATCAGACTATTAGTTGAGATTCTTAAGCTGAAAAAG
196 AAAGCTTCGAAGATGGATTGAATGAAGAAATCAGACTATTAGTTGAGATTCTTAAGCTGAAAAAG
*
37576385 TTTGTCGTTCTATTTGACAGAGCTTGCAAAG
261 TTTGTCATTCTATTTGACAGAGCTTGCAAAG
*
37576416 GCGAGAAAGAGTTACTTGGGAGTTCTTTCAAGTTGAATTTATAAAGAAATACATCAGTCAAAGGT
1 GCGAGAAAGAGTTACTTAGGAGTTC-TTCAAGTTGAATTTATAAAGAAATACATCAGTCAAAGGT
*
37576481 TCATTGATCAGAAACGAAAGGAATTTCTTGAATTGAAATAGGGCCGTATGTCGGTAACAGAATAC
65 TCATTGATCAGAAACGAAAGGAATTTCTTGAATTGAAACAGGGCCGTATGTCGGTAACAGAATAC
37576546 GAAAGAGAGTTTGTACGACTTAGCAAACATGCTCGTGAATGTGTTTCTTCCAAGGCTATAATGTG
130 GAAAGAGAGTTTGTACGACTTAG-AAACATGCTCGTGAATGTGTTTCTTCCAAGGCTATAATGTG
37576611 TAAAAGCTTCGAAGATGGATTGAATGAAGAAATCAGACTATTAGTTGAGATTCTTAAGCTGAAAG
194 TAAAAGCTTCGAAGATGGATTGAATGAAGAAATCAGACTATTAGTTGAGATTCTTAAGCTGAAA-
37576676 AA-TTTGTCATTCTATTTGACAGAGCTTGCAAAG
258 AAGTTTGTCATTCTATTTGACAGAGCTTGCAAAG
37576709 GCGA
1 GCGA
37576713 AGAGCTTAGC
Statistics
Matches: 283, Mismatches: 11, Indels: 4
0.95 0.04 0.01
Matches are distributed among these distances:
291 24 0.08
292 122 0.43
293 135 0.48
294 2 0.01
ACGTcount: A:0.35, C:0.12, G:0.24, T:0.30
Consensus pattern (291 bp):
GCGAGAAAGAGTTACTTAGGAGTTCTTCAAGTTGAATTTATAAAGAAATACATCAGTCAAAGGTT
CATTGATCAGAAACGAAAGGAATTTCTTGAATTGAAACAGGGCCGTATGTCGGTAACAGAATACG
AAAGAGAGTTTGTACGACTTAGAAACATGCTCGTGAATGTGTTTCTTCCAAGGCTATAATGTGTA
AAAGCTTCGAAGATGGATTGAATGAAGAAATCAGACTATTAGTTGAGATTCTTAAGCTGAAAAAG
TTTGTCATTCTATTTGACAGAGCTTGCAAAG
Found at i:37582167 original size:13 final size:13
Alignment explanation
Indices: 37582149--37582180 Score: 64
Period size: 13 Copynumber: 2.5 Consensus size: 13
37582139 ATTAATATGG
37582149 TAAGTTTGGATAC
1 TAAGTTTGGATAC
37582162 TAAGTTTGGATAC
1 TAAGTTTGGATAC
37582175 TAAGTT
1 TAAGTT
37582181 ATATGTAGTA
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 19 1.00
ACGTcount: A:0.31, C:0.06, G:0.22, T:0.41
Consensus pattern (13 bp):
TAAGTTTGGATAC
Found at i:37582729 original size:15 final size:14
Alignment explanation
Indices: 37582704--37582733 Score: 51
Period size: 15 Copynumber: 2.1 Consensus size: 14
37582694 CAAAAAATTC
37582704 TCTGATTCTCGATT
1 TCTGATTCTCGATT
37582718 TCTGAGTTCTCGATT
1 TCTGA-TTCTCGATT
37582733 T
1 T
37582734 TGTCTCTACT
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
14 5 0.33
15 10 0.67
ACGTcount: A:0.13, C:0.20, G:0.17, T:0.50
Consensus pattern (14 bp):
TCTGATTCTCGATT
Found at i:37583494 original size:19 final size:19
Alignment explanation
Indices: 37583470--37583512 Score: 86
Period size: 19 Copynumber: 2.3 Consensus size: 19
37583460 TCATAAGTAT
37583470 ATGTTAGAGTGGGAATTTG
1 ATGTTAGAGTGGGAATTTG
37583489 ATGTTAGAGTGGGAATTTG
1 ATGTTAGAGTGGGAATTTG
37583508 ATGTT
1 ATGTT
37583513 TCCATAGGTA
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
19 24 1.00
ACGTcount: A:0.26, C:0.00, G:0.35, T:0.40
Consensus pattern (19 bp):
ATGTTAGAGTGGGAATTTG
Found at i:37584172 original size:53 final size:53
Alignment explanation
Indices: 37583975--37584178 Score: 173
Period size: 53 Copynumber: 3.8 Consensus size: 53
37583965 ATTAGGGTTT
* * * * *
37583975 AAGGATACCAAGTAAGACCATGTCAAGGCATGGCATTGGTAAGTTCTACAAGGC
1 AAGGATACCACGTAAGACCATGTCAAGACATGGAAATGGTAAGTTC-ATAAGGC
* * * * * * * *
37584029 AAGGA-AGGCATGTAAGACCATGTCAAGACATGGCATTGATAA-AT-AGTAAAGA
1 AAGGATA-CCACGTAAGACCATGTCAAGACATGGAAATGGTAAGTTCA-TAAGGC
* * * * *
37584081 AAAGATCCCACGTAAGACCATGCCAAGGCAT-GACAATGGTGAGTTCATAAGGC
1 AAGGATACCACGTAAGACCATGTCAAGACATGGA-AATGGTAAGTTCATAAGGC
*
37584134 AAGGATACCACGTAAGGCCATGTCAAGACATGGAAATGGTAAGTT
1 AAGGATACCACGTAAGACCATGTCAAGACATGGAAATGGTAAGTT
37584179 TCAAAAGGAA
Statistics
Matches: 116, Mismatches: 27, Indels: 15
0.73 0.17 0.09
Matches are distributed among these distances:
51 2 0.02
52 32 0.28
53 43 0.37
54 39 0.34
ACGTcount: A:0.38, C:0.17, G:0.25, T:0.19
Consensus pattern (53 bp):
AAGGATACCACGTAAGACCATGTCAAGACATGGAAATGGTAAGTTCATAAGGC
Found at i:37587935 original size:36 final size:36
Alignment explanation
Indices: 37587862--37587935 Score: 121
Period size: 36 Copynumber: 2.1 Consensus size: 36
37587852 TTCAATCGAC
* **
37587862 TAAACAGATTCTAATAAGCAAACATGTTATTGTACA
1 TAAACAGATTCTAATAAGAAAACATGTTATTCCACA
37587898 TAAACAGATTCTAATAAGAAAACATGTTATTCCACA
1 TAAACAGATTCTAATAAGAAAACATGTTATTCCACA
37587934 TA
1 TA
37587936 CATACTCAAT
Statistics
Matches: 35, Mismatches: 3, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
36 35 1.00
ACGTcount: A:0.46, C:0.15, G:0.09, T:0.30
Consensus pattern (36 bp):
TAAACAGATTCTAATAAGAAAACATGTTATTCCACA
Found at i:37592181 original size:25 final size:24
Alignment explanation
Indices: 37592132--37592185 Score: 65
Period size: 25 Copynumber: 2.2 Consensus size: 24
37592122 AATAAAAATT
*
37592132 ATTAATAATTCAATAAATTGGAAA
1 ATTAATAATTCAATAAATTGAAAA
*
37592156 ATTAACTAATTGAATAAAATT-AAAA
1 ATTAA-TAATTCAAT-AAATTGAAAA
37592181 ATTAA
1 ATTAA
37592186 GAGAAAACTA
Statistics
Matches: 26, Mismatches: 2, Indels: 3
0.84 0.06 0.10
Matches are distributed among these distances:
24 5 0.19
25 16 0.62
26 5 0.19
ACGTcount: A:0.57, C:0.04, G:0.06, T:0.33
Consensus pattern (24 bp):
ATTAATAATTCAATAAATTGAAAA
Found at i:37604491 original size:16 final size:15
Alignment explanation
Indices: 37604466--37604497 Score: 55
Period size: 16 Copynumber: 2.1 Consensus size: 15
37604456 ATGGATAATT
37604466 AAGCTTACAAGCCAC
1 AAGCTTACAAGCCAC
37604481 AAGCATTACAAGCCAC
1 AAGC-TTACAAGCCAC
37604497 A
1 A
37604498 TCTCATGGCT
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
15 4 0.25
16 12 0.75
ACGTcount: A:0.44, C:0.31, G:0.12, T:0.12
Consensus pattern (15 bp):
AAGCTTACAAGCCAC
Found at i:37605649 original size:100 final size:101
Alignment explanation
Indices: 37605517--37605706 Score: 276
Period size: 100 Copynumber: 1.9 Consensus size: 101
37605507 GTCACCGAAG
* * * *
37605517 CTATTTGGTACGCATAGTATCCTGCACTTAGTACTACACACGTGACCT-AACCATCTGATACA-A
1 CTATCTGGTACACATAGTAGCCTGCACTTAGTACTACACACGTGACCTAAACCATCTGAAACACA
*
37605580 GTAGTAGCCTGCACTTAGTACTACACATGCCACCTAA
66 -TAGTAGCCTGCACATAGTACTACACATGCCACCTAA
* * *
37605617 CTATCTGGTACACATAGTAGCTTGCACTTAGTACTACACATGTGACCTACAACCATCTTAAACAC
1 CTATCTGGTACACATAGTAGCCTGCACTTAGTACTACACACGTGACCTA-AACCATCTGAAACAC
37605682 ATAGTAGCCTGCACATAGTACTACA
65 ATAGTAGCCTGCACATAGTACTACA
37605707 AATGTGTTCT
Statistics
Matches: 79, Mismatches: 8, Indels: 4
0.87 0.09 0.04
Matches are distributed among these distances:
100 43 0.54
102 35 0.44
103 1 0.01
ACGTcount: A:0.32, C:0.27, G:0.14, T:0.27
Consensus pattern (101 bp):
CTATCTGGTACACATAGTAGCCTGCACTTAGTACTACACACGTGACCTAAACCATCTGAAACACA
TAGTAGCCTGCACATAGTACTACACATGCCACCTAA
Done.