Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Gbar_D10
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: 65706892
ACGTcount: A:0.33, C:0.16, G:0.16, T:0.33
Warning! 869813 characters in sequence are not A, C, G, or T
File 110 of 218
Found at i:32346323 original size:27 final size:27
Alignment explanation
Indices: 32346289--32346341 Score: 88
Period size: 27 Copynumber: 2.0 Consensus size: 27
32346279 CCAATGATTC
* *
32346289 GGGGAATCAGCACTTCGCAACCCCTTG
1 GGGGAATCAACACTTAGCAACCCCTTG
32346316 GGGGAATCAACACTTAGCAACCCCTT
1 GGGGAATCAACACTTAGCAACCCCTT
32346342 TTATATTCAA
Statistics
Matches: 24, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
27 24 1.00
ACGTcount: A:0.26, C:0.32, G:0.23, T:0.19
Consensus pattern (27 bp):
GGGGAATCAACACTTAGCAACCCCTTG
Found at i:32346709 original size:31 final size:30
Alignment explanation
Indices: 32346674--32346735 Score: 81
Period size: 30 Copynumber: 2.0 Consensus size: 30
32346664 TCCTCGACTC
32346674 AACTTTTTACAAAATTACGA-TTTTGTCCCCA
1 AACTTTTT-CAAAATTAC-ACTTTTGTCCCCA
* *
32346705 AACTTTTTCATATTTACACTTTTGTCCCCA
1 AACTTTTTCAAAATTACACTTTTGTCCCCA
32346735 A
1 A
32346736 GATCGAAAAT
Statistics
Matches: 28, Mismatches: 2, Indels: 3
0.85 0.06 0.09
Matches are distributed among these distances:
29 1 0.04
30 19 0.68
31 8 0.29
ACGTcount: A:0.29, C:0.24, G:0.05, T:0.42
Consensus pattern (30 bp):
AACTTTTTCAAAATTACACTTTTGTCCCCA
Found at i:32353682 original size:75 final size:74
Alignment explanation
Indices: 32353505--32353751 Score: 377
Period size: 75 Copynumber: 3.3 Consensus size: 74
32353495 CGTTACTCGA
* * *
32353505 TGGATTCAGCACTTAGCAACCACCAGTGATTCGGGGAATCAACACTTAGCAACCCCTTTCACATT
1 TGGAATCAGCACTTAGCAACCACCAATGATTC-GGGAATCAGCACTTAGCAACCCCTTTCACATT
*
32353570 AAAAGATACGG
65 -CAAGATACGG
* *
32353581 TAGAATCAGCACTTAGCAACCACCAATGATTTGGCGAATCAGCACTTAGCAACCCCTTTCACATT
1 TGGAATCAGCACTTAGCAACCACCAATGATTCGG-GAATCAGCACTTAGCAACCCCTTTCACATT
32353646 CAAGATACGG
65 CAAGATACGG
* *
32353656 TGGAATCAGCACTTAGCAGCCACCAATGATTCGGGAAATCAGCACTTAGCAACCCCATTCACATT
1 TGGAATCAGCACTTAGCAACCACCAATGATTCGGG-AATCAGCACTTAGCAACCCCTTTCACATT
*
32353721 CAAGTTACGG
65 CAAGATACGG
32353731 TGGAATCAGCACTTAGCAACC
1 TGGAATCAGCACTTAGCAACC
32353752 CCTTGGGGGA
Statistics
Matches: 157, Mismatches: 12, Indels: 5
0.90 0.07 0.03
Matches are distributed among these distances:
74 1 0.01
75 99 0.63
76 57 0.36
ACGTcount: A:0.33, C:0.28, G:0.18, T:0.22
Consensus pattern (74 bp):
TGGAATCAGCACTTAGCAACCACCAATGATTCGGGAATCAGCACTTAGCAACCCCTTTCACATTC
AAGATACGG
Found at i:32354149 original size:31 final size:30
Alignment explanation
Indices: 32354114--32354176 Score: 83
Period size: 30 Copynumber: 2.1 Consensus size: 30
32354104 ATCCTCGACT
32354114 AAACTTTTTACAAAATTACGA-TTTTGTCCCC
1 AAACTTTTT-CAAAATTAC-ACTTTTGTCCCC
* *
32354145 AAACTTTTTCATATTTACACTTTTGTCCCC
1 AAACTTTTTCAAAATTACACTTTTGTCCCC
32354175 AA
1 AA
32354177 GCTCGAAAAT
Statistics
Matches: 29, Mismatches: 2, Indels: 3
0.85 0.06 0.09
Matches are distributed among these distances:
29 1 0.03
30 19 0.66
31 9 0.31
ACGTcount: A:0.30, C:0.24, G:0.05, T:0.41
Consensus pattern (30 bp):
AAACTTTTTCAAAATTACACTTTTGTCCCC
Found at i:32358823 original size:19 final size:19
Alignment explanation
Indices: 32358801--32358874 Score: 85
Period size: 19 Copynumber: 3.9 Consensus size: 19
32358791 CTAGCACCTA
32358801 AAGTGCATACTGGCACACG
1 AAGTGCATACTGGCACACG
* *
32358820 AAGTGCATCCTAGCACACG
1 AAGTGCATACTGGCACACG
* * * *
32358839 AAGTGTATATTGACGCACG
1 AAGTGCATACTGGCACACG
*
32358858 AAGTGCATCCTGGCACA
1 AAGTGCATACTGGCACA
32358875 TGAGGTGTAT
Statistics
Matches: 42, Mismatches: 13, Indels: 0
0.76 0.24 0.00
Matches are distributed among these distances:
19 42 1.00
ACGTcount: A:0.31, C:0.26, G:0.24, T:0.19
Consensus pattern (19 bp):
AAGTGCATACTGGCACACG
Found at i:32358843 original size:38 final size:38
Alignment explanation
Indices: 32358801--32358874 Score: 103
Period size: 38 Copynumber: 1.9 Consensus size: 38
32358791 CTAGCACCTA
*
32358801 AAGTGCATACTGGCACACGAAGTGCATCCTAGCACACG
1 AAGTGCATACTGACACACGAAGTGCATCCTAGCACACG
* * * *
32358839 AAGTGTATATTGACGCACGAAGTGCATCCTGGCACA
1 AAGTGCATACTGACACACGAAGTGCATCCTAGCACA
32358875 TGAGGTGTAT
Statistics
Matches: 31, Mismatches: 5, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
38 31 1.00
ACGTcount: A:0.31, C:0.26, G:0.24, T:0.19
Consensus pattern (38 bp):
AAGTGCATACTGACACACGAAGTGCATCCTAGCACACG
Found at i:32359270 original size:20 final size:20
Alignment explanation
Indices: 32359228--32359270 Score: 50
Period size: 20 Copynumber: 2.1 Consensus size: 20
32359218 AAAAAAATTT
*
32359228 AAAACAATTTTCAAAAATGA
1 AAAACAATTTTCAAAAATCA
* * *
32359248 AAAATAATTTTTAAAATTCA
1 AAAACAATTTTCAAAAATCA
32359268 AAA
1 AAA
32359271 TATTTATAAA
Statistics
Matches: 19, Mismatches: 4, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
20 19 1.00
ACGTcount: A:0.60, C:0.07, G:0.02, T:0.30
Consensus pattern (20 bp):
AAAACAATTTTCAAAAATCA
Found at i:32359316 original size:10 final size:10
Alignment explanation
Indices: 32359297--32359363 Score: 50
Period size: 10 Copynumber: 6.9 Consensus size: 10
32359287 CAAATTTTAT
*
32359297 ATTTTTAAAA
1 ATTTTAAAAA
32359307 ATTTTAAAAA
1 ATTTTAAAAA
**
32359317 ATTCAAAAAA
1 ATTTTAAAAA
**
32359327 AAGTT--AAA
1 ATTTTAAAAA
32359335 ATTTT-AAAA
1 ATTTTAAAAA
32359344 ATTTTAAAAA
1 ATTTTAAAAA
*
32359354 TTTTCTAAAA
1 ATTT-TAAAA
32359364 TAATAATTTT
Statistics
Matches: 44, Mismatches: 10, Indels: 5
0.75 0.17 0.08
Matches are distributed among these distances:
8 6 0.14
9 8 0.18
10 25 0.57
11 5 0.11
ACGTcount: A:0.57, C:0.03, G:0.01, T:0.39
Consensus pattern (10 bp):
ATTTTAAAAA
Found at i:32359364 original size:10 final size:9
Alignment explanation
Indices: 32359220--32359357 Score: 59
Period size: 9 Copynumber: 15.0 Consensus size: 9
32359210 ATATTACCAA
*
32359220 AAAAATTTA
1 AAAAATTTT
32359229 AAACAATTTT
1 AAA-AATTTT
***
32359239 CAAAAATGAA
1 -AAAAATTTT
32359249 AAATAATTTT
1 AAA-AATTTT
* *
32359259 TAAAA-TTC
1 AAAAATTTT
32359267 AAAATATTTAT
1 AAAA-ATTT-T
*
32359278 AAAAAATTT
1 AAAAATTTT
*
32359287 -CAAATTTT
1 AAAAATTTT
* *
32359295 -ATATTTTT
1 AAAAATTTT
32359303 AAAAATTTT
1 AAAAATTTT
**
32359312 AAAAAATTCAA
1 -AAAAATT-TT
**
32359323 AAAAAAGTT
1 AAAAATTTT
32359332 -AAAATTTT
1 AAAAATTTT
32359340 AAAAATTTT
1 AAAAATTTT
32359349 AAAAATTTT
1 AAAAATTTT
32359358 CTAAAATAAT
Statistics
Matches: 92, Mismatches: 27, Indels: 20
0.66 0.19 0.14
Matches are distributed among these distances:
8 22 0.24
9 33 0.36
10 30 0.33
11 7 0.08
ACGTcount: A:0.56, C:0.04, G:0.01, T:0.39
Consensus pattern (9 bp):
AAAAATTTT
Found at i:32362420 original size:39 final size:36
Alignment explanation
Indices: 32362334--32362420 Score: 102
Period size: 39 Copynumber: 2.3 Consensus size: 36
32362324 GATATTAAGC
* *
32362334 TTATGTATGATTTAAACGCATAAGTTTAAATATCAT
1 TTATATATGATTTAAACGCATAAATTTAAATATCAT
* *
32362370 ATATAACATGATTTAAACGCATAAAATGTTAAATATCAT
1 TTAT-ATATGATTTAAACGCAT-AAAT-TTAAATATCAT
32362409 GTTATATATGAT
1 -TTATATATGAT
32362421 AAAAAGTTAA
Statistics
Matches: 41, Mismatches: 6, Indels: 5
0.79 0.12 0.10
Matches are distributed among these distances:
36 3 0.07
37 15 0.37
38 3 0.07
39 17 0.41
40 3 0.07
ACGTcount: A:0.43, C:0.08, G:0.10, T:0.39
Consensus pattern (36 bp):
TTATATATGATTTAAACGCATAAATTTAAATATCAT
Found at i:32364169 original size:10 final size:10
Alignment explanation
Indices: 32364154--32364190 Score: 65
Period size: 10 Copynumber: 3.7 Consensus size: 10
32364144 TACAATGCAT
32364154 AAGTAAATTA
1 AAGTAAATTA
*
32364164 AAGTAAAGTA
1 AAGTAAATTA
32364174 AAGTAAATTA
1 AAGTAAATTA
32364184 AAGTAAA
1 AAGTAAA
32364191 GCTTTAGTTG
Statistics
Matches: 25, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
10 25 1.00
ACGTcount: A:0.62, C:0.00, G:0.14, T:0.24
Consensus pattern (10 bp):
AAGTAAATTA
Found at i:32364170 original size:5 final size:5
Alignment explanation
Indices: 32364154--32364191 Score: 58
Period size: 5 Copynumber: 7.6 Consensus size: 5
32364144 TACAATGCAT
* *
32364154 AAGTA AATTA AAGTA AAGTA AAGTA AATTA AAGTA AAG
1 AAGTA AAGTA AAGTA AAGTA AAGTA AAGTA AAGTA AAG
32364192 CTTTAGTTGT
Statistics
Matches: 29, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
5 29 1.00
ACGTcount: A:0.61, C:0.00, G:0.16, T:0.24
Consensus pattern (5 bp):
AAGTA
Found at i:32365129 original size:14 final size:13
Alignment explanation
Indices: 32365101--32365138 Score: 60
Period size: 14 Copynumber: 2.9 Consensus size: 13
32365091 ACAATAAAAG
32365101 AAGAAGAGAGAAA
1 AAGAAGAGAGAAA
32365114 AAGAAGAGACGAAA
1 AAGAAGAGA-GAAA
32365128 AAGAAGA-AGAA
1 AAGAAGAGAGAA
32365139 GAATTGGAGA
Statistics
Matches: 24, Mismatches: 0, Indels: 3
0.89 0.00 0.11
Matches are distributed among these distances:
12 3 0.12
13 10 0.42
14 11 0.46
ACGTcount: A:0.68, C:0.03, G:0.29, T:0.00
Consensus pattern (13 bp):
AAGAAGAGAGAAA
Found at i:32370777 original size:20 final size:20
Alignment explanation
Indices: 32370733--32370777 Score: 51
Period size: 19 Copynumber: 2.4 Consensus size: 20
32370723 TTTGATAAAC
32370733 TCCC-CCCAATCCCTTAACT
1 TCCCTCCCAATCCCTTAACT
*
32370752 T-TCTCCCATATCCC-TAACT
1 TCCCTCCCA-ATCCCTTAACT
32370771 TCCCTCC
1 TCCCTCC
32370778 TAAAAACTGC
Statistics
Matches: 21, Mismatches: 2, Indels: 5
0.75 0.07 0.18
Matches are distributed among these distances:
18 1 0.05
19 11 0.52
20 9 0.43
ACGTcount: A:0.18, C:0.51, G:0.00, T:0.31
Consensus pattern (20 bp):
TCCCTCCCAATCCCTTAACT
Found at i:32375073 original size:122 final size:122
Alignment explanation
Indices: 32374856--32375099 Score: 488
Period size: 122 Copynumber: 2.0 Consensus size: 122
32374846 TTTCTCAAAA
32374856 TTGTTATGACTCAGATGGGCTTTGTGGATGGTTAGGTGACTTTGATTATGCAGTTTGTCCGTTCG
1 TTGTTATGACTCAGATGGGCTTTGTGGATGGTTAGGTGACTTTGATTATGCAGTTTGTCCGTTCG
32374921 GTCAAATATGTCATCAAGTGTAACTTGACCCTTTCCGAGGAAATTATTCCGGAGCGT
66 GTCAAATATGTCATCAAGTGTAACTTGACCCTTTCCGAGGAAATTATTCCGGAGCGT
32374978 TTGTTATGACTCAGATGGGCTTTGTGGATGGTTAGGTGACTTTGATTATGCAGTTTGTCCGTTCG
1 TTGTTATGACTCAGATGGGCTTTGTGGATGGTTAGGTGACTTTGATTATGCAGTTTGTCCGTTCG
32375043 GTCAAATATGTCATCAAGTGTAACTTGACCCTTTCCGAGGAAATTATTCCGGAGCGT
66 GTCAAATATGTCATCAAGTGTAACTTGACCCTTTCCGAGGAAATTATTCCGGAGCGT
32375100 GGCCTCCGTC
Statistics
Matches: 122, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
122 122 1.00
ACGTcount: A:0.21, C:0.16, G:0.26, T:0.36
Consensus pattern (122 bp):
TTGTTATGACTCAGATGGGCTTTGTGGATGGTTAGGTGACTTTGATTATGCAGTTTGTCCGTTCG
GTCAAATATGTCATCAAGTGTAACTTGACCCTTTCCGAGGAAATTATTCCGGAGCGT
Found at i:32378496 original size:18 final size:18
Alignment explanation
Indices: 32378470--32378505 Score: 63
Period size: 18 Copynumber: 2.0 Consensus size: 18
32378460 CATGTCAATC
*
32378470 TAATGTTTTTAAATTTTT
1 TAATATTTTTAAATTTTT
32378488 TAATATTTTTAAATTTTT
1 TAATATTTTTAAATTTTT
32378506 AAAAAATTAA
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
18 17 1.00
ACGTcount: A:0.31, C:0.00, G:0.03, T:0.67
Consensus pattern (18 bp):
TAATATTTTTAAATTTTT
Found at i:32378503 original size:8 final size:8
Alignment explanation
Indices: 32378475--32378508 Score: 50
Period size: 9 Copynumber: 4.0 Consensus size: 8
32378465 CAATCTAATG
32378475 TTTTTAAA
1 TTTTTAAA
32378483 TTTTTTAATA
1 -TTTTTAA-A
32378493 TTTTTAAA
1 TTTTTAAA
32378501 TTTTTAAA
1 TTTTTAAA
32378509 AAATTAACTA
Statistics
Matches: 24, Mismatches: 0, Indels: 3
0.89 0.00 0.11
Matches are distributed among these distances:
8 9 0.38
9 14 0.58
10 1 0.04
ACGTcount: A:0.35, C:0.00, G:0.00, T:0.65
Consensus pattern (8 bp):
TTTTTAAA
Found at i:32380038 original size:104 final size:104
Alignment explanation
Indices: 32379847--32380217 Score: 611
Period size: 104 Copynumber: 3.6 Consensus size: 104
32379837 TGTATATAAA
** * *
32379847 AGGGGTTGCTGTGTGCTGATTCCCCGATTCATTGGTGGTGCTATGTGCG-TGATCCACCATATCT
1 AGGGGTTGCTAAGTGCTGATTCCCCGATTCATTGGTGGTGCTAAGTGCGAT-ATCCACCGTATCT
**
32379911 TTGAAATGTGAAAGGGGGTTGCTATGTGCTGATTCCCCCG
65 TTGAAATGAAAAAGGGGGTTGCTATGTGCTGATTCCCCCG
32379951 AGGGGTTGCTAAGTGCTGATTCCCCGATTTCATTGGTGGTGCTAAGTGCGATATCCACCGTATCT
1 AGGGGTTGCTAAGTGCTGATTCCCCGA-TTCATTGGTGGTGCTAAGTGCGATATCCACCGTATCT
32380016 TTGAAATG-AAAAGGGGGTTGCTATGTGCTGATTCCCCCG
65 TTGAAATGAAAAAGGGGGTTGCTATGTGCTGATTCCCCCG
*
32380055 AGGGGTTGCTAAGTGCTGATTCCCCGATTCATTGGTGATGCTAAGTGCGATATCCACCGTATCTT
1 AGGGGTTGCTAAGTGCTGATTCCCCGATTCATTGGTGGTGCTAAGTGCGATATCCACCGTATCTT
*
32380120 TGAAATGAAAAAGGGGGTTGCTATCTGCTGATTCCCCCG
66 TGAAATGAAAAAGGGGGTTGCTATGTGCTGATTCCCCCG
* **
32380159 AGGGGTTGCTAAGTGCTGATTCCCCGATTCAGTGGTGGTGCTAAGTGCGGGATCCACCG
1 AGGGGTTGCTAAGTGCTGATTCCCCGATTCATTGGTGGTGCTAAGTGCGATATCCACCG
32380218 ATAACGGTTA
Statistics
Matches: 253, Mismatches: 11, Indels: 6
0.94 0.04 0.02
Matches are distributed among these distances:
103 44 0.17
104 167 0.66
105 41 0.16
106 1 0.00
ACGTcount: A:0.19, C:0.21, G:0.30, T:0.30
Consensus pattern (104 bp):
AGGGGTTGCTAAGTGCTGATTCCCCGATTCATTGGTGGTGCTAAGTGCGATATCCACCGTATCTT
TGAAATGAAAAAGGGGGTTGCTATGTGCTGATTCCCCCG
Found at i:32383169 original size:20 final size:20
Alignment explanation
Indices: 32383137--32383175 Score: 53
Period size: 20 Copynumber: 1.9 Consensus size: 20
32383127 TTTTAAATTT
*
32383137 ATAATTATAAATATTTAAAA
1 ATAATTATAAATATATAAAA
32383157 ATAA-TATATAATATATAAA
1 ATAATTATA-AATATATAAA
32383176 TAACAACCTA
Statistics
Matches: 17, Mismatches: 1, Indels: 2
0.85 0.05 0.10
Matches are distributed among these distances:
19 4 0.24
20 13 0.76
ACGTcount: A:0.62, C:0.00, G:0.00, T:0.38
Consensus pattern (20 bp):
ATAATTATAAATATATAAAA
Found at i:32387022 original size:40 final size:39
Alignment explanation
Indices: 32386948--32387098 Score: 162
Period size: 39 Copynumber: 4.1 Consensus size: 39
32386938 AATATATTTA
* * *
32386948 TTTTTTAATTTTAAAATATTTTTTACATA-CTTTTTAATT
1 TTTTTTAATTTTAAAATATTTTTAAAATATTTTTTTAA-T
32386987 TTTTTTAATTTTAAAATATTTTTAAAATATTTTTTTAAT
1 TTTTTTAATTTTAAAATATTTTTAAAATATTTTTTTAAT
*
32387026 TTTTTTAATTTT-AAA-A----T---A-CTTTTTTTAAT
1 TTTTTTAATTTTAAAATATTTTTAAAATATTTTTTTAAT
*
32387055 TTTTTAAATTTTAAAATATTTTTAAAATACTTTTTTTAAT
1 TTTTTTAATTTTAAAATATTTTTAAAATA-TTTTTTTAAT
32387095 TTTT
1 TTTT
32387099 AAAAATTTTT
Statistics
Matches: 94, Mismatches: 6, Indels: 23
0.76 0.05 0.19
Matches are distributed among these distances:
29 21 0.22
30 4 0.04
31 1 0.01
33 1 0.01
35 1 0.01
37 1 0.01
38 4 0.04
39 40 0.43
40 21 0.22
ACGTcount: A:0.33, C:0.03, G:0.00, T:0.64
Consensus pattern (39 bp):
TTTTTTAATTTTAAAATATTTTTAAAATATTTTTTTAAT
Found at i:32387030 original size:8 final size:9
Alignment explanation
Indices: 32387015--32387066 Score: 50
Period size: 9 Copynumber: 5.6 Consensus size: 9
32387005 TTTTTAAAAT
32387015 ATTTTTTTA
1 ATTTTTTTA
32387024 ATTTTTTTA
1 ATTTTTTTA
**
32387033 ATTTTAAAATA
1 ATTTT--TTTA
*
32387044 CTTTTTTTA
1 ATTTTTTTA
*
32387053 ATTTTTTAA
1 ATTTTTTTA
32387062 ATTTT
1 ATTTT
32387067 AAAATATTTT
Statistics
Matches: 34, Mismatches: 7, Indels: 4
0.76 0.16 0.09
Matches are distributed among these distances:
9 28 0.82
11 6 0.18
ACGTcount: A:0.29, C:0.02, G:0.00, T:0.69
Consensus pattern (9 bp):
ATTTTTTTA
Found at i:32387075 original size:10 final size:11
Alignment explanation
Indices: 32387063--32387114 Score: 56
Period size: 10 Copynumber: 4.9 Consensus size: 11
32387053 ATTTTTTAAA
32387063 TTTTAAAATAT
1 TTTTAAAATAT
32387074 TTTTAAAATACT
1 TTTTAAAATA-T
**
32387086 TTTT-TTA-AT
1 TTTTAAAATAT
32387095 TTTTAAAA-AT
1 TTTTAAAATAT
32387105 TTTTAAAATA
1 TTTTAAAATA
32387115 AAAATGGGTC
Statistics
Matches: 34, Mismatches: 4, Indels: 6
0.77 0.09 0.14
Matches are distributed among these distances:
9 5 0.15
10 12 0.35
11 12 0.35
12 5 0.15
ACGTcount: A:0.42, C:0.02, G:0.00, T:0.56
Consensus pattern (11 bp):
TTTTAAAATAT
Found at i:32387096 original size:31 final size:31
Alignment explanation
Indices: 32387006--32387115 Score: 117
Period size: 29 Copynumber: 3.7 Consensus size: 31
32386996 TTTAAAATAT
*
32387006 TTTTAAAATATTTTT---TTAATTTTTTTAA
1 TTTTAAAATATTTTTAAAATAATTTTTTTAA
* *
32387034 TTTTAAAATACTTTTT---TTAATTTTTTAAA
1 TTTTAAAATA-TTTTTAAAATAATTTTTTTAA
*
32387063 TTTTAAAATATTTTTAAAATACTTTTTTTAA
1 TTTTAAAATATTTTTAAAATAATTTTTTTAA
32387094 TTTTTAAAA-ATTTTTAAAATAA
1 -TTTTAAAATATTTTTAAAATAA
32387116 AAATGGGTCA
Statistics
Matches: 72, Mismatches: 5, Indels: 7
0.86 0.06 0.08
Matches are distributed among these distances:
28 15 0.21
29 27 0.38
31 22 0.31
32 8 0.11
ACGTcount: A:0.38, C:0.02, G:0.00, T:0.60
Consensus pattern (31 bp):
TTTTAAAATATTTTTAAAATAATTTTTTTAA
Found at i:32387099 original size:32 final size:31
Alignment explanation
Indices: 32387054--32387114 Score: 104
Period size: 32 Copynumber: 1.9 Consensus size: 31
32387044 CTTTTTTTAA
32387054 TTTTTTAAATTTTAAAATATTTTTAAAATACT
1 TTTTTTAAATTTTAAAA-ATTTTTAAAATACT
*
32387086 TTTTTTAATTTTTAAAAATTTTTAAAATA
1 TTTTTTAAATTTTAAAAATTTTTAAAATA
32387115 AAAATGGGTC
Statistics
Matches: 28, Mismatches: 1, Indels: 1
0.93 0.03 0.03
Matches are distributed among these distances:
31 12 0.43
32 16 0.57
ACGTcount: A:0.41, C:0.02, G:0.00, T:0.57
Consensus pattern (31 bp):
TTTTTTAAATTTTAAAAATTTTTAAAATACT
Found at i:32390383 original size:24 final size:24
Alignment explanation
Indices: 32390350--32390396 Score: 67
Period size: 24 Copynumber: 2.0 Consensus size: 24
32390340 TTCTAGAAGA
* *
32390350 TTTAGTATTTATGAGTATAATATT
1 TTTAGCATTTATGAGCATAATATT
*
32390374 TTTAGCATTTATTAGCATAATAT
1 TTTAGCATTTATGAGCATAATAT
32390397 ATTTGACTTT
Statistics
Matches: 20, Mismatches: 3, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
24 20 1.00
ACGTcount: A:0.34, C:0.04, G:0.11, T:0.51
Consensus pattern (24 bp):
TTTAGCATTTATGAGCATAATATT
Found at i:32401711 original size:6 final size:6
Alignment explanation
Indices: 32401700--32401726 Score: 54
Period size: 6 Copynumber: 4.5 Consensus size: 6
32401690 TAAAACATAG
32401700 TAATTA TAATTA TAATTA TAATTA TAA
1 TAATTA TAATTA TAATTA TAATTA TAA
32401727 AAAGTCACTT
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 21 1.00
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (6 bp):
TAATTA
Found at i:32403449 original size:14 final size:14
Alignment explanation
Indices: 32403411--32403453 Score: 54
Period size: 13 Copynumber: 3.1 Consensus size: 14
32403401 CAAAATGTAC
32403411 AATATAATTAAA-T
1 AATATAATTAAATT
32403424 AATATAAATTAAATT
1 AATAT-AATTAAATT
*
32403439 AA-ATAATTTAATT
1 AATATAATTAAATT
32403452 AA
1 AA
32403454 CTGTTTACCC
Statistics
Matches: 27, Mismatches: 1, Indels: 4
0.84 0.03 0.12
Matches are distributed among these distances:
13 15 0.56
14 9 0.33
15 3 0.11
ACGTcount: A:0.60, C:0.00, G:0.00, T:0.40
Consensus pattern (14 bp):
AATATAATTAAATT
Found at i:32409319 original size:26 final size:26
Alignment explanation
Indices: 32409269--32409324 Score: 78
Period size: 26 Copynumber: 2.2 Consensus size: 26
32409259 CTAGTAAAGT
**
32409269 TTTTAACAATTTTACCCTCGTTAAAA
1 TTTTAACAATTTTACCCTCAATAAAA
32409295 TTTTAACAATTTTA-CCTCCAATAAAA
1 TTTTAACAATTTTACCCT-CAATAAAA
32409321 TTTT
1 TTTT
32409325 GAGAAAATTT
Statistics
Matches: 27, Mismatches: 2, Indels: 2
0.87 0.06 0.06
Matches are distributed among these distances:
25 3 0.11
26 24 0.89
ACGTcount: A:0.36, C:0.18, G:0.02, T:0.45
Consensus pattern (26 bp):
TTTTAACAATTTTACCCTCAATAAAA
Found at i:32416042 original size:50 final size:51
Alignment explanation
Indices: 32415922--32416056 Score: 182
Period size: 51 Copynumber: 2.7 Consensus size: 51
32415912 CGCCTATAAA
* ** * * * *
32415922 CACGTGTGTTGTACTATGTGCAGGCTACTATATGTACCGGAAGGCTTTGGT
1 CACGTGTGTAGTACTATGTGCAGGCTACTACGTGAACCGAAAAGCTTTGAT
32415973 CACGTGTGTAGTACTATGTGCAGGCTACTACGTGAACCGAAAAG-TTTGAT
1 CACGTGTGTAGTACTATGTGCAGGCTACTACGTGAACCGAAAAGCTTTGAT
* *
32416023 CACGTGTGTAATACTATGTGAAGGCTACTACGTG
1 CACGTGTGTAGTACTATGTGCAGGCTACTACGTG
32416057 TATCGAATGA
Statistics
Matches: 75, Mismatches: 9, Indels: 1
0.88 0.11 0.01
Matches are distributed among these distances:
50 37 0.49
51 38 0.51
ACGTcount: A:0.24, C:0.18, G:0.27, T:0.30
Consensus pattern (51 bp):
CACGTGTGTAGTACTATGTGCAGGCTACTACGTGAACCGAAAAGCTTTGAT
Found at i:32421622 original size:39 final size:39
Alignment explanation
Indices: 32421568--32421649 Score: 155
Period size: 39 Copynumber: 2.1 Consensus size: 39
32421558 AAATGACACC
32421568 GTATGAAGCATTATATGGACGTAAGTGTAAAACCCCTTT
1 GTATGAAGCATTATATGGACGTAAGTGTAAAACCCCTTT
*
32421607 GTATGAAGCATTATATGGACGTAAGTGTAGAACCCCTTT
1 GTATGAAGCATTATATGGACGTAAGTGTAAAACCCCTTT
32421646 GTAT
1 GTAT
32421650 TGGACTGAGT
Statistics
Matches: 42, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
39 42 1.00
ACGTcount: A:0.32, C:0.15, G:0.22, T:0.32
Consensus pattern (39 bp):
GTATGAAGCATTATATGGACGTAAGTGTAAAACCCCTTT
Found at i:32423727 original size:50 final size:51
Alignment explanation
Indices: 32423605--32423735 Score: 147
Period size: 50 Copynumber: 2.6 Consensus size: 51
32423595 TATAAACACA
* * * ** * **
32423605 TGTGTTGTACTATGTGCAGGCTACTATGTTTACCAGAAGGCTTTGGTCAAG
1 TGTGTAGTACTATGTGAAGGCTACTACGTGAACCAGAAAGCTTTGACCAAG
* * *
32423656 TGTGTAGTACTATGTGTAGGCTACTACGTGAACCGGAAAG-TTTGACCACG
1 TGTGTAGTACTATGTGAAGGCTACTACGTGAACCAGAAAGCTTTGACCAAG
*
32423706 TGTGTAGTACTATGTGAAGGCTATTACGTG
1 TGTGTAGTACTATGTGAAGGCTACTACGTG
32423736 TATCAAATGA
Statistics
Matches: 68, Mismatches: 12, Indels: 1
0.84 0.15 0.01
Matches are distributed among these distances:
50 35 0.51
51 33 0.49
ACGTcount: A:0.24, C:0.15, G:0.28, T:0.33
Consensus pattern (51 bp):
TGTGTAGTACTATGTGAAGGCTACTACGTGAACCAGAAAGCTTTGACCAAG
Found at i:32428761 original size:12 final size:12
Alignment explanation
Indices: 32428744--32428768 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
32428734 GAAATCTGAT
32428744 TTCAATGTGTAA
1 TTCAATGTGTAA
32428756 TTCAATGTGTAA
1 TTCAATGTGTAA
32428768 T
1 T
32428769 GTGTATAAGG
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 13 1.00
ACGTcount: A:0.32, C:0.08, G:0.16, T:0.44
Consensus pattern (12 bp):
TTCAATGTGTAA
Found at i:32436990 original size:30 final size:29
Alignment explanation
Indices: 32436928--32436990 Score: 74
Period size: 30 Copynumber: 2.1 Consensus size: 29
32436918 ACTTTTCCCT
* *
32436928 CAAAACTTTTACTCCTTCCCATTTCCCCCC
1 CAAAACTTTTACTCCCTCCCA-CTCCCCCC
32436958 CAAAACTTTTACTCCCCTCCC-CTCCCCTCC
1 CAAAACTTTTACT-CCCTCCCACTCCCC-CC
32436988 CAA
1 CAA
32436991 CCCCCCAATC
Statistics
Matches: 29, Mismatches: 2, Indels: 4
0.83 0.06 0.11
Matches are distributed among these distances:
29 5 0.17
30 18 0.62
31 6 0.21
ACGTcount: A:0.21, C:0.51, G:0.00, T:0.29
Consensus pattern (29 bp):
CAAAACTTTTACTCCCTCCCACTCCCCCC
Found at i:32438150 original size:24 final size:24
Alignment explanation
Indices: 32438114--32438161 Score: 87
Period size: 24 Copynumber: 2.0 Consensus size: 24
32438104 TCATTTTCAT
*
32438114 CAATAATGTCTCAAAATAATTCGC
1 CAATAATGACTCAAAATAATTCGC
32438138 CAATAATGACTCAAAATAATTCGC
1 CAATAATGACTCAAAATAATTCGC
32438162 AAACAATCAT
Statistics
Matches: 23, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
24 23 1.00
ACGTcount: A:0.44, C:0.21, G:0.08, T:0.27
Consensus pattern (24 bp):
CAATAATGACTCAAAATAATTCGC
Found at i:32442170 original size:23 final size:24
Alignment explanation
Indices: 32442121--32442171 Score: 59
Period size: 23 Copynumber: 2.2 Consensus size: 24
32442111 ACGCCACAAC
* *
32442121 GACAGATGAAAAACATGTGATAGA
1 GACAGATGAAAAACATGTGAGAAA
* *
32442145 GACAGAT-AGAAACGTGTGAGAAA
1 GACAGATGAAAAACATGTGAGAAA
32442168 GACA
1 GACA
32442172 AACTGTAATA
Statistics
Matches: 23, Mismatches: 4, Indels: 1
0.82 0.14 0.04
Matches are distributed among these distances:
23 16 0.70
24 7 0.30
ACGTcount: A:0.49, C:0.10, G:0.27, T:0.14
Consensus pattern (24 bp):
GACAGATGAAAAACATGTGAGAAA
Found at i:32444026 original size:12 final size:12
Alignment explanation
Indices: 32444009--32444033 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
32443999 ACCAAAACAG
32444009 GCTTTTAGCGGC
1 GCTTTTAGCGGC
32444021 GCTTTTAGCGGC
1 GCTTTTAGCGGC
32444033 G
1 G
32444034 GTTGGATAAA
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 13 1.00
ACGTcount: A:0.08, C:0.24, G:0.36, T:0.32
Consensus pattern (12 bp):
GCTTTTAGCGGC
Found at i:32444508 original size:114 final size:114
Alignment explanation
Indices: 32444105--32444780 Score: 880
Period size: 114 Copynumber: 6.0 Consensus size: 114
32444095 AAAATAAGCA
* * * *
32444105 TTAGCGGCGTTTTCGA-AAACGCGCCGC-AAAATACCTAAGCCCAACGACGTCGTTTT-TCGAGC
1 TTAGCGGCGTTTTTGATAAA-GCGCCACAAAAAAACCTAAGCCCAACGACGCCGTTTTCT-GAGC
* * *
32444167 TTTCGGGGATTTAGCGGCGTTTTTAA-TAAAGTGCCACTAATGCTCAAGGCT
64 TTTCGGGGATTTAGCGGCGTTTTTAAGT-AAGCGCCGCTAATGCTCAGGGCT
32444218 TTAGCGGCGTTTTTGATAAAGCGCCACAAAAAAACCTAAGCCCAACGACGCC----TCTGAGCTT
1 TTAGCGGCGTTTTTGATAAAGCGCCACAAAAAAACCTAAGCCCAACGACGCCGTTTTCTGAGCTT
*
32444279 TCGGGGATTTAGCGGCATTTTTAAGTAAGCGCCGCTAATGCTCAGGGCT
66 TCGGGGATTTAGCGGCGTTTTTAAGTAAGCGCCGCTAATGCTCAGGGCT
* *
32444328 TTAGCGACGTTTTTGAT-----GCCACAAAAAAATCTAAGCCCAACGACGCCGTTTTCTGAGCTT
1 TTAGCGGCGTTTTTGATAAAGCGCCACAAAAAAACCTAAGCCCAACGACGCCGTTTTCTGAGCTT
* *
32444388 TCGGGGATTTAGGGGCGTTTTTAA-TAAAGCGCTGCTAATGCTCAGGGCT
66 TCGGGGATTTAGCGGCGTTTTTAAGT-AAGCGCCGCTAATGCTCAGGGCT
* * * *
32444437 TTAGCGGTGTTTTTTATAAAGCGCCACAAAAAAACCTAAGCCCAACGACGCCATTTTCTTAGCTT
1 TTAGCGGCGTTTTTGATAAAGCGCCACAAAAAAACCTAAGCCCAACGACGCCGTTTTCTGAGCTT
32444502 TCGGGGATTTAGCGGCGTTTTTAAGTAAGCGCCGCTAATGCTCAGGGCT
66 TCGGGGATTTAGCGGCGTTTTTAAGTAAGCGCCGCTAATGCTCAGGGCT
* * *
32444551 TTAGCGGCGTTTTTGATAAAGGGCCACAAAAAAACATAAGCCCAATGACGCCGTTTTCTGAGCTT
1 TTAGCGGCGTTTTTGATAAAGCGCCACAAAAAAACCTAAGCCCAACGACGCCGTTTTCTGAGCTT
* * * *
32444616 TCGAGGATTTAGCAGCTTTTTTAAGTACGCGCCGCTAATGCTCAGGGCT
66 TCGGGGATTTAGCGGCGTTTTTAAGTAAGCGCCGCTAATGCTCAGGGCT
* * * * * * *
32444665 TTAGCGACATTTTTGGA-AAAGTGCCGC-AAAAAACCTAAGCCCAACGATGCTGTTTTCTTAGCT
1 TTAGCGGCGTTTTT-GATAAAGCGCCACAAAAAAACCTAAGCCCAACGACGCCGTTTTCTGAGCT
* * * * *
32444728 TTCGGGGATTTAGTGGCGTTTTTAAGGATGCGCCGCTAATGCTGAGGGAT
65 TTCGGGGATTTAGCGGCGTTTTTAAGTAAGCGCCGCTAATGCTCAGGGCT
32444778 TTA
1 TTA
32444781 AAATAATCTA
Statistics
Matches: 498, Mismatches: 49, Indels: 32
0.86 0.08 0.06
Matches are distributed among these distances:
105 29 0.06
108 1 0.00
109 67 0.13
110 66 0.13
111 2 0.00
113 97 0.19
114 233 0.47
115 3 0.01
ACGTcount: A:0.25, C:0.22, G:0.24, T:0.28
Consensus pattern (114 bp):
TTAGCGGCGTTTTTGATAAAGCGCCACAAAAAAACCTAAGCCCAACGACGCCGTTTTCTGAGCTT
TCGGGGATTTAGCGGCGTTTTTAAGTAAGCGCCGCTAATGCTCAGGGCT
Found at i:32445403 original size:7 final size:7
Alignment explanation
Indices: 32445393--32445429 Score: 51
Period size: 7 Copynumber: 5.6 Consensus size: 7
32445383 GATTTAAGGT
32445393 TTAGGGG
1 TTAGGGG
32445400 TTAGGGG
1 TTAGGGG
*
32445407 TTAGAGG
1 TTAGGGG
32445414 TTA--GG
1 TTAGGGG
32445419 TTAGGGG
1 TTAGGGG
32445426 TTAG
1 TTAG
32445430 ATGTTAAGAG
Statistics
Matches: 27, Mismatches: 1, Indels: 4
0.84 0.03 0.12
Matches are distributed among these distances:
5 5 0.19
7 22 0.81
ACGTcount: A:0.19, C:0.00, G:0.49, T:0.32
Consensus pattern (7 bp):
TTAGGGG
Found at i:32445422 original size:19 final size:20
Alignment explanation
Indices: 32445398--32445445 Score: 71
Period size: 19 Copynumber: 2.4 Consensus size: 20
32445388 AAGGTTTAGG
32445398 GGTTAGGGGTTAGAGGTT-A
1 GGTTAGGGGTTAGAGGTTAA
*
32445417 GGTTAGGGGTTAGATGTTAA
1 GGTTAGGGGTTAGAGGTTAA
32445437 GAGTTAGGG
1 G-GTTAGGG
32445446 ATTTAGGGTT
Statistics
Matches: 26, Mismatches: 1, Indels: 2
0.90 0.03 0.07
Matches are distributed among these distances:
19 17 0.65
20 2 0.08
21 7 0.27
ACGTcount: A:0.23, C:0.00, G:0.46, T:0.31
Consensus pattern (20 bp):
GGTTAGGGGTTAGAGGTTAA
Found at i:32445435 original size:26 final size:26
Alignment explanation
Indices: 32445393--32445444 Score: 70
Period size: 26 Copynumber: 2.0 Consensus size: 26
32445383 GATTTAAGGT
*
32445393 TTAGGGGTTAGGGGTT-AGAGGTTAGG
1 TTAGGGGTTAGAGGTTAAGA-GTTAGG
*
32445419 TTAGGGGTTAGATGTTAAGAGTTAGG
1 TTAGGGGTTAGAGGTTAAGAGTTAGG
32445445 GATTTAGGGT
Statistics
Matches: 23, Mismatches: 2, Indels: 2
0.85 0.07 0.07
Matches are distributed among these distances:
26 20 0.87
27 3 0.13
ACGTcount: A:0.23, C:0.00, G:0.44, T:0.33
Consensus pattern (26 bp):
TTAGGGGTTAGAGGTTAAGAGTTAGG
Found at i:32445543 original size:7 final size:7
Alignment explanation
Indices: 32445533--32445562 Score: 51
Period size: 7 Copynumber: 4.3 Consensus size: 7
32445523 TAAGGTTTAA
32445533 GGGTTAG
1 GGGTTAG
32445540 GGGTTAG
1 GGGTTAG
*
32445547 GGGTTAA
1 GGGTTAG
32445554 GGGTTAG
1 GGGTTAG
32445561 GG
1 GG
32445563 ATTTAGGATC
Statistics
Matches: 21, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
7 21 1.00
ACGTcount: A:0.17, C:0.00, G:0.57, T:0.27
Consensus pattern (7 bp):
GGGTTAG
Found at i:32445552 original size:14 final size:14
Alignment explanation
Indices: 32445523--32445562 Score: 53
Period size: 14 Copynumber: 2.9 Consensus size: 14
32445513 ATATATTAAA
* *
32445523 TAAGGTTTAAGGGT
1 TAAGGGTTAGGGGT
*
32445537 TAGGGGTTAGGGGT
1 TAAGGGTTAGGGGT
32445551 TAAGGGTTAGGG
1 TAAGGGTTAGGG
32445563 ATTTAGGATC
Statistics
Matches: 22, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
14 22 1.00
ACGTcount: A:0.23, C:0.00, G:0.47, T:0.30
Consensus pattern (14 bp):
TAAGGGTTAGGGGT
Found at i:32445703 original size:90 final size:86
Alignment explanation
Indices: 32445543--32445800 Score: 330
Period size: 90 Copynumber: 3.0 Consensus size: 86
32445533 GGGTTAGGGG
* * *
32445543 TTAGGGGTTAAGGGTTAGGGATTTAGGATCGGGTTATGGTTTAGGGTTTAGATTAATTAGTGTTT
1 TTAGGGGTT-AGGGTTAGGGATTGAGG-TCGGGTTAGGGTTTAGGATTTAGATTAATTAGTG-TT
32445608 TTTAATTTATATATTAAATAAAGT
63 TTTAATTTATATATTAAATAAAGT
32445632 TTAGGGGTTAGGGGTTAGGGATTCGAGGTCGGGTTCAGGGTTTAGGATTTAGATTAATTAGTGTT
1 TTAGGGGTTA-GGGTTAGGGATT-GAGGTCGGGTT-AGGGTTTAGGATTTAGATTAATTAGTGTT
32445697 TGTTAATTTATATATTAAATAAAGT
63 T-TTAATTTATATATTAAATAAAGT
* * * *
32445722 TTAGGGGTTA--G--A--GATTTGGGGTCAGGTTAGGGTTTAAGATTTAGATTAATTAGTACTTT
1 TTAGGGGTTAGGGTTAGGGA-TTGAGGTCGGGTTAGGGTTTAGGATTTAGATTAATTAGT-GTTT
32445781 TTAATTTATATATTAAATAA
64 TTAATTTATATATTAAATAA
32445801 GTTCTTTATA
Statistics
Matches: 156, Mismatches: 7, Indels: 19
0.86 0.04 0.10
Matches are distributed among these distances:
82 45 0.29
83 14 0.09
84 2 0.01
85 1 0.01
87 1 0.01
88 1 0.01
89 31 0.20
90 61 0.39
ACGTcount: A:0.29, C:0.02, G:0.27, T:0.42
Consensus pattern (86 bp):
TTAGGGGTTAGGGTTAGGGATTGAGGTCGGGTTAGGGTTTAGGATTTAGATTAATTAGTGTTTTT
AATTTATATATTAAATAAAGT
Found at i:32446297 original size:84 final size:84
Alignment explanation
Indices: 32446209--32446438 Score: 243
Period size: 84 Copynumber: 2.7 Consensus size: 84
32446199 AAATATTTTT
* * ** *
32446209 GTGGCATTTTTAATAAAAACGCTGCAAG-GATTTATTAAAATTTGCCAA-A-GCGGAGCCGTTTC
1 GTGGCATTTTTAAGAAAAACGCCGCAAGAG-TGAATTAAAATTTGCCAATATG-GCA-CCGTTTC
32446271 TCTACTAGAATAAAATCTTATA
63 TCTACTAGAATAAAATCTTATA
* * * ** *
32446293 GTGGCGTTTTTTAGGAAAACGCCGCAAGAGTGAATTAATGTTTGCTAATATGGCACCGTTTCTCT
1 GTGGCATTTTTAAGAAAAACGCCGCAAGAGTGAATTAAAATTTGCCAATATGGCACCGTTTCTCT
32446358 ACTAGAATAAAATCTTATA
66 ACTAGAATAAAATCTTATA
* ** * **
32446377 GTGGCATTTTTTAAG-CAAACGCCGCAAGAGTGAATTAATGTTTGTCAATGCGGCACCGTTTC
1 GTGGCA-TTTTTAAGAAAAACGCCGCAAGAGTGAATTAAAATTTGCCAATATGGCACCGTTTC
32446439 GCTTCATGAA
Statistics
Matches: 124, Mismatches: 18, Indels: 8
0.83 0.12 0.05
Matches are distributed among these distances:
84 112 0.90
85 11 0.09
86 1 0.01
ACGTcount: A:0.31, C:0.17, G:0.20, T:0.32
Consensus pattern (84 bp):
GTGGCATTTTTAAGAAAAACGCCGCAAGAGTGAATTAAAATTTGCCAATATGGCACCGTTTCTCT
ACTAGAATAAAATCTTATA
Found at i:32447506 original size:14 final size:15
Alignment explanation
Indices: 32447479--32447509 Score: 55
Period size: 15 Copynumber: 2.1 Consensus size: 15
32447469 TCTGTAGCAG
32447479 TTTTTGTTTCTCTAT
1 TTTTTGTTTCTCTAT
32447494 TTTTTGTTT-TCTAT
1 TTTTTGTTTCTCTAT
32447508 TT
1 TT
32447510 CTGTTTCTGT
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
14 7 0.44
15 9 0.56
ACGTcount: A:0.06, C:0.10, G:0.06, T:0.77
Consensus pattern (15 bp):
TTTTTGTTTCTCTAT
Found at i:32447920 original size:12 final size:12
Alignment explanation
Indices: 32447903--32447931 Score: 58
Period size: 12 Copynumber: 2.4 Consensus size: 12
32447893 ATACTTACAT
32447903 AACTTATATATA
1 AACTTATATATA
32447915 AACTTATATATA
1 AACTTATATATA
32447927 AACTT
1 AACTT
32447932 GCATAACTTA
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 17 1.00
ACGTcount: A:0.48, C:0.10, G:0.00, T:0.41
Consensus pattern (12 bp):
AACTTATATATA
Found at i:32447945 original size:9 final size:9
Alignment explanation
Indices: 32447927--32448241 Score: 102
Period size: 9 Copynumber: 36.2 Consensus size: 9
32447917 CTTATATATA
*
32447927 AACTTGCAT
1 AACTTACAT
32447936 AACTTACAT
1 AACTTACAT
*
32447945 AA-TAACATAAT
1 AACTTAC---AT
32447956 AACTTACAT
1 AACTTACAT
*
32447965 AA--TACAC
1 AACTTACAT
32447972 AACTTACAT
1 AACTTACAT
*
32447981 AACTTAAAT
1 AACTTACAT
32447990 AACTTACAT
1 AACTTACAT
*
32447999 -A-GTACAT
1 AACTTACAT
**
32448006 AACTTTGAT
1 AACTTACAT
*
32448015 AACTAACAT
1 AACTTACAT
* *
32448024 TA--TACAC
1 AACTTACAT
32448031 AACTTACAT
1 AACTTACAT
32448040 AA--TACAT
1 AACTTACAT
**
32448047 TTCTTACAT
1 AACTTACAT
32448056 AACTTACAT
1 AACTTACAT
*
32448065 AA--TACAC
1 AACTTACAT
32448072 AACTTA-ATT
1 AACTTACA-T
*
32448081 AATATTATACAT
1 -A-ACT-TACAT
*
32448093 AACATACAT
1 AACTTACAT
*
32448102 AA--TACAC
1 AACTTACAT
32448109 AACTTA-ATT
1 AACTTACA-T
*
32448118 AATATTATACAT
1 -A-ACT-TACAT
* *
32448130 GACATACAT
1 AACTTACAT
* *
32448139 GACATACAT
1 AACTTACAT
32448148 AA--TACATAT
1 AACTTAC--AT
32448157 AACTTACAT
1 AACTTACAT
*
32448166 -A-GTACAT
1 AACTTACAT
*
32448173 AACTAACAT
1 AACTTACAT
*
32448182 AA--TACAC
1 AACTTACAT
*
32448189 AACTTACGT
1 AACTTACAT
*
32448198 AACTTAAAT
1 AACTTACAT
32448207 AACTTACAT
1 AACTTACAT
*
32448216 AGCTTACAT
1 AACTTACAT
32448225 AA--TACAT
1 AACTTACAT
32448232 AACTTA-AT
1 AACTTACAT
32448240 AA
1 AA
32448242 TTTTAAAATA
Statistics
Matches: 223, Mismatches: 47, Indels: 73
0.65 0.14 0.21
Matches are distributed among these distances:
7 52 0.23
8 13 0.06
9 131 0.59
10 4 0.02
11 12 0.05
12 9 0.04
13 2 0.01
ACGTcount: A:0.48, C:0.18, G:0.03, T:0.31
Consensus pattern (9 bp):
AACTTACAT
Found at i:32447984 original size:25 final size:25
Alignment explanation
Indices: 32447927--32448077 Score: 104
Period size: 25 Copynumber: 6.2 Consensus size: 25
32447917 CTTATATATA
*
32447927 AACTTGCATAACTTACATAATA-AC
1 AACTTACATAACTTACATAATACAC
32447951 -A--TA-ATAACTTACATAATACAC
1 AACTTACATAACTTACATAATACAC
*
32447972 AACTTACATAACTTAAATAACTTACA-
1 AACTTACATAACTTACATAA--TACAC
* * **
32447998 TA-GTACATAACTTTGATAACTA-AC
1 AACTTACATAACTTACATAA-TACAC
* * *
32448022 -ATTATACACAACTTACATAATACAT
1 AACT-TACATAACTTACATAATACAC
**
32448047 TTCTTACATAACTTACATAATACAC
1 AACTTACATAACTTACATAATACAC
32448072 AACTTA
1 AACTTA
32448078 ATTAATATTA
Statistics
Matches: 97, Mismatches: 18, Indels: 23
0.70 0.13 0.17
Matches are distributed among these distances:
20 15 0.15
21 3 0.03
22 1 0.01
23 3 0.03
24 6 0.06
25 63 0.65
26 2 0.02
27 4 0.04
ACGTcount: A:0.46, C:0.20, G:0.02, T:0.32
Consensus pattern (25 bp):
AACTTACATAACTTACATAATACAC
Found at i:32448035 original size:41 final size:41
Alignment explanation
Indices: 32447990--32448242 Score: 131
Period size: 41 Copynumber: 6.3 Consensus size: 41
32447980 TAACTTAAAT
* ** *
32447990 AACTTACATAGTACATAACTTTGATAACTAACATTATACAC
1 AACTTACATAATACATAACTTACATAACTAACATAATACAC
** *
32448031 AACTTACATAATACATTTCTTACATAACTTACATAATACAC
1 AACTTACATAATACATAACTTACATAACTAACATAATACAC
*
32448072 AACTTA-AT--TA-AT-ATTATACATAAC-ATACATAATACAC
1 AACTTACATAATACATAACT-TACATAACTA-ACATAATACAC
* * * *
32448109 AACTTAATTAATATTATACATGACATACATGAC-ATACATAATACA-
1 AACTT-A--CATA--ATACATAACTTACATAACTA-ACATAATACAC
* * *
32448154 TA-TAAC-T--TACAT-A-GTACATAACTAACATAATACAC
1 AACTTACATAATACATAACTTACATAACTAACATAATACAC
* * * * *
32448189 AACTTACGTAACTTAAATAACTTACATAGCTTACATAATACAT
1 AACTTACATAA--TACATAACTTACATAACTAACATAATACAC
32448232 AACTTA-ATAAT
1 AACTTACATAAT
32448243 TTTAAAATAT
Statistics
Matches: 164, Mismatches: 26, Indels: 45
0.70 0.11 0.19
Matches are distributed among these distances:
34 17 0.10
35 3 0.02
36 9 0.05
37 27 0.16
38 3 0.02
40 4 0.02
41 46 0.28
42 4 0.02
43 25 0.15
44 1 0.01
45 3 0.02
46 21 0.13
47 1 0.01
ACGTcount: A:0.47, C:0.18, G:0.03, T:0.32
Consensus pattern (41 bp):
AACTTACATAATACATAACTTACATAACTAACATAATACAC
Found at i:32448070 original size:16 final size:16
Alignment explanation
Indices: 32448051--32448242 Score: 82
Period size: 16 Copynumber: 12.1 Consensus size: 16
32448041 ATACATTTCT
32448051 TACATAACTTACATAA
1 TACATAACTTACATAA
* *
32448067 TACACAACTTAATTAATATTA
1 TACATAACTT-A--CATA--A
*
32448088 TACATAACATACATAA
1 TACATAACTTACATAA
*
32448104 TACACAACTTA-AT--
1 TACATAACTTACATAA
*
32448117 TA-AT-ATTATACATGACA
1 TACATAACT-TACAT-A-A
* *
32448134 TACATGACATACATAA
1 TACATAACTTACATAA
*
32448150 TACATATAACTTACATAG
1 TAC--ATAACTTACATAA
*
32448168 TACATAACTAACATAA
1 TACATAACTTACATAA
* *
32448184 TACACAACTTACGT-A
1 TACATAACTTACATAA
* * *
32448199 -ACTTAAATAAC-T--
1 TACATAACTTACATAA
*
32448211 TACATAGCTTACATAA
1 TACATAACTTACATAA
32448227 TACATAACTTA-ATAA
1 TACATAACTTACATAA
32448242 T
1 T
32448243 TTTAAAATAT
Statistics
Matches: 129, Mismatches: 28, Indels: 39
0.66 0.14 0.20
Matches are distributed among these distances:
11 2 0.02
12 3 0.02
13 12 0.09
14 8 0.06
15 8 0.06
16 55 0.43
17 4 0.03
18 23 0.18
19 4 0.03
20 1 0.01
21 9 0.07
ACGTcount: A:0.48, C:0.18, G:0.03, T:0.31
Consensus pattern (16 bp):
TACATAACTTACATAA
Found at i:32448101 original size:37 final size:37
Alignment explanation
Indices: 32448051--32448138 Score: 158
Period size: 37 Copynumber: 2.4 Consensus size: 37
32448041 ATACATTTCT
*
32448051 TACATAACTTACATAATACACAACTTAATTAATATTA
1 TACATAACATACATAATACACAACTTAATTAATATTA
32448088 TACATAACATACATAATACACAACTTAATTAATATTA
1 TACATAACATACATAATACACAACTTAATTAATATTA
*
32448125 TACATGACATACAT
1 TACATAACATACAT
32448139 GACATACATA
Statistics
Matches: 49, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
37 49 1.00
ACGTcount: A:0.49, C:0.17, G:0.01, T:0.33
Consensus pattern (37 bp):
TACATAACATACATAATACACAACTTAATTAATATTA
Found at i:32448101 original size:46 final size:41
Alignment explanation
Indices: 32448051--32448153 Score: 115
Period size: 37 Copynumber: 2.4 Consensus size: 41
32448041 ATACATTTCT
32448051 TACATAACTTACATAATACACAACTTAATTAATATTATACATA
1 TACAT-AC-TACATAATACACAACTTAATTAATATTATACATA
32448094 -AC--A-TACATAATACACAACTTAATTAATATTATACATGACA
1 TACATACTACATAATACACAACTTAATTAATATTATACAT---A
32448134 TACATGACATACATAATACA
1 TACAT-AC-TACATAATACA
32448154 TATAACTTAC
Statistics
Matches: 51, Mismatches: 0, Indels: 15
0.77 0.00 0.23
Matches are distributed among these distances:
37 33 0.65
39 1 0.02
40 1 0.02
41 2 0.04
42 2 0.04
44 1 0.02
46 11 0.22
ACGTcount: A:0.50, C:0.17, G:0.02, T:0.31
Consensus pattern (41 bp):
TACATACTACATAATACACAACTTAATTAATATTATACATA
Found at i:32448183 original size:25 final size:25
Alignment explanation
Indices: 32448155--32448237 Score: 59
Period size: 25 Copynumber: 3.3 Consensus size: 25
32448145 CATAATACAT
32448155 ATAACTTACATAGTACATAACTAAC
1 ATAACTTACATAGTACATAACTAAC
* * *
32448180 ATAA--TACACAACTTACGTAACTTAA-
1 ATAACTTACA-TA-GTACATAAC-TAAC
32448205 ATAACTTACATAGCTTACATAA-T-AC
1 ATAACTTACATAG--TACATAACTAAC
32448230 ATAACTTA
1 ATAACTTA
32448238 ATAATTTTAA
Statistics
Matches: 44, Mismatches: 6, Indels: 16
0.67 0.09 0.24
Matches are distributed among these distances:
23 4 0.09
24 2 0.05
25 24 0.55
26 4 0.09
27 10 0.23
ACGTcount: A:0.47, C:0.19, G:0.04, T:0.30
Consensus pattern (25 bp):
ATAACTTACATAGTACATAACTAAC
Found at i:32450595 original size:43 final size:43
Alignment explanation
Indices: 32450521--32450703 Score: 217
Period size: 43 Copynumber: 4.3 Consensus size: 43
32450511 CATCAGACAA
* **
32450521 TAGCGGCGTTTATGAGGGAAGCGCCGCTAAAGAACATGAATTT
1 TAGCGGCGTTTGTGAGAAAAGCGCCGCTAAAGAACATGAATTT
** *
32450564 TAGCGGCGTTTGTGAGAAAAGCATCGTTAAAGAACATG-ATCTT
1 TAGCGGCGTTTGTGAGAAAAGCGCCGCTAAAGAACATGAAT-TT
* ***
32450607 TAGCGGCGTTTGTGAGAAATGCGCCGCTAAAGAACATGACCAT
1 TAGCGGCGTTTGTGAGAAAAGCGCCGCTAAAGAACATGAATTT
* * *
32450650 TAGCGGCGTTTGTGAGAAAAGCGCCACTAAAGAACA-CATTCTT
1 TAGCGGCGTTTGTGAGAAAAGCGCCGCTAAAGAACATGAAT-TT
32450693 TAGCGGCGTTT
1 TAGCGGCGTTT
32450704 ATTTCTATAA
Statistics
Matches: 118, Mismatches: 19, Indels: 6
0.83 0.13 0.04
Matches are distributed among these distances:
42 3 0.03
43 115 0.97
ACGTcount: A:0.30, C:0.18, G:0.27, T:0.25
Consensus pattern (43 bp):
TAGCGGCGTTTGTGAGAAAAGCGCCGCTAAAGAACATGAATTT
Found at i:32450633 original size:86 final size:86
Alignment explanation
Indices: 32450521--32450705 Score: 248
Period size: 86 Copynumber: 2.2 Consensus size: 86
32450511 CATCAGACAA
* **
32450521 TAGCGGCGTTTATGAGGGAAGCGCCGCTAAAGAACATGAATTTTAGCGGCGTTTGTGAGAAAAGC
1 TAGCGGCGTTTATGAGGAAAGCGCCGCTAAAGAACATGAACATTAGCGGCGTTTGTGAGAAAAGC
* ** *
32450586 ATCGTTAAAGAACATGA-TCTT
66 ACCACTAAAGAACA-CATTCTT
* *
32450607 TAGCGGCGTTTGTGA-GAAATGCGCCGCTAAAGAACATGACCATTAGCGGCGTTTGTGAGAAAAG
1 TAGCGGCGTTTATGAGGAAA-GCGCCGCTAAAGAACATGAACATTAGCGGCGTTTGTGAGAAAAG
*
32450671 CGCCACTAAAGAACACATTCTT
65 CACCACTAAAGAACACATTCTT
32450693 TAGCGGCGTTTAT
1 TAGCGGCGTTTAT
32450706 TTCTATAAAC
Statistics
Matches: 86, Mismatches: 11, Indels: 4
0.85 0.11 0.04
Matches are distributed among these distances:
85 4 0.05
86 82 0.95
ACGTcount: A:0.30, C:0.18, G:0.27, T:0.25
Consensus pattern (86 bp):
TAGCGGCGTTTATGAGGAAAGCGCCGCTAAAGAACATGAACATTAGCGGCGTTTGTGAGAAAAGC
ACCACTAAAGAACACATTCTT
Found at i:32450808 original size:21 final size:21
Alignment explanation
Indices: 32450782--32450826 Score: 72
Period size: 21 Copynumber: 2.1 Consensus size: 21
32450772 TTTAGCAGCG
* *
32450782 CTAAAAAGTGCCGCTAAAGGC
1 CTAAAAAATGCCGCTAAAAGC
32450803 CTAAAAAATGCCGCTAAAAGC
1 CTAAAAAATGCCGCTAAAAGC
32450824 CTA
1 CTA
32450827 TTTCGGTGTA
Statistics
Matches: 22, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
21 22 1.00
ACGTcount: A:0.42, C:0.24, G:0.18, T:0.16
Consensus pattern (21 bp):
CTAAAAAATGCCGCTAAAAGC
Found at i:32456033 original size:175 final size:175
Alignment explanation
Indices: 32455775--32456092 Score: 573
Period size: 175 Copynumber: 1.8 Consensus size: 175
32455765 TGAGCACATC
* * *
32455775 TAATCAGCACAGATTCTCGTTAATTATTCAAAGCACTTCAAATAACAACCGTGCTAGCAAAGGTG
1 TAATCACCACAGATTCCCGTTAATTATTCAAAGCACTTCAAATAACAACCATGCTAGCAAAGGTG
* *
32455840 TGGGGACTTTAGCATGCAATAAGCCTCAAGTCTGCTAAAGTAAATATCTAAAAAAGATCAAAGAG
66 TGGGGACTTTAACATGCAAGAAGCCTCAAGTCTGCTAAAGTAAATATCTAAAAAAGATCAAAGAG
32455905 ATCCATGTTTGTTCAAACCTAGCCTGACCCGAGCATGAGTACCTT
131 ATCCATGTTTGTTCAAACCTAGCCTGACCCGAGCATGAGTACCTT
*
32455950 TAATCACCACAGATTCCCGTTAATTATTCAAATCACTTCAAATAACAACCATGCTAGCAAAGGTG
1 TAATCACCACAGATTCCCGTTAATTATTCAAAGCACTTCAAATAACAACCATGCTAGCAAAGGTG
*
32456015 TGGGGACTTTAACATGCAAGAAGCCTCAAGTCTGCTAAAGTAAATATCTAGAAAAGATCAAAGAG
66 TGGGGACTTTAACATGCAAGAAGCCTCAAGTCTGCTAAAGTAAATATCTAAAAAAGATCAAAGAG
32456080 ATCCATGTTTGTT
131 ATCCATGTTTGTT
32456093 GTCAGGGCAT
Statistics
Matches: 136, Mismatches: 7, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
175 136 1.00
ACGTcount: A:0.36, C:0.20, G:0.17, T:0.26
Consensus pattern (175 bp):
TAATCACCACAGATTCCCGTTAATTATTCAAAGCACTTCAAATAACAACCATGCTAGCAAAGGTG
TGGGGACTTTAACATGCAAGAAGCCTCAAGTCTGCTAAAGTAAATATCTAAAAAAGATCAAAGAG
ATCCATGTTTGTTCAAACCTAGCCTGACCCGAGCATGAGTACCTT
Found at i:32457287 original size:30 final size:31
Alignment explanation
Indices: 32457253--32457342 Score: 92
Period size: 31 Copynumber: 2.9 Consensus size: 31
32457243 TTAACTAAAA
* *
32457253 AAAGTTATAATTT-AGTTATTGAACTATTTG
1 AAAGTTATAATTTAAGTCACTGAACTATTTG
* * **
32457283 AAAGTTTTTATTTAAGTCACTGAACTATTCA
1 AAAGTTATAATTTAAGTCACTGAACTATTTG
* * *
32457314 AAAGTTTTTATTTAAGTCGCTGAACTATT
1 AAAGTTATAATTTAAGTCACTGAACTATT
32457343 ATCTTTTCTT
Statistics
Matches: 52, Mismatches: 7, Indels: 1
0.87 0.12 0.02
Matches are distributed among these distances:
30 11 0.21
31 41 0.79
ACGTcount: A:0.34, C:0.09, G:0.12, T:0.44
Consensus pattern (31 bp):
AAAGTTATAATTTAAGTCACTGAACTATTTG
Found at i:32457310 original size:31 final size:31
Alignment explanation
Indices: 32457272--32457342 Score: 115
Period size: 31 Copynumber: 2.3 Consensus size: 31
32457262 ATTTAGTTAT
**
32457272 TGAACTATTTGAAAGTTTTTATTTAAGTCAC
1 TGAACTATTCAAAAGTTTTTATTTAAGTCAC
*
32457303 TGAACTATTCAAAAGTTTTTATTTAAGTCGC
1 TGAACTATTCAAAAGTTTTTATTTAAGTCAC
32457334 TGAACTATT
1 TGAACTATT
32457343 ATCTTTTCTT
Statistics
Matches: 37, Mismatches: 3, Indels: 0
0.93 0.08 0.00
Matches are distributed among these distances:
31 37 1.00
ACGTcount: A:0.32, C:0.11, G:0.13, T:0.44
Consensus pattern (31 bp):
TGAACTATTCAAAAGTTTTTATTTAAGTCAC
Found at i:32467666 original size:10 final size:10
Alignment explanation
Indices: 32467651--32467712 Score: 52
Period size: 10 Copynumber: 5.9 Consensus size: 10
32467641 TTTGAACCAT
*
32467651 TACCAATTCG
1 TACCAATTCA
*
32467661 TACCAAATACCA
1 TACC-AAT-TCA
*
32467673 TACCATTTCA
1 TACCAATTCA
32467683 TACCAATTCCA
1 TACCAATT-CA
* *
32467694 TACCATTTCG
1 TACCAATTCA
32467704 TACCAATTC
1 TACCAATTC
32467713 CCAAATACCA
Statistics
Matches: 41, Mismatches: 8, Indels: 6
0.75 0.15 0.11
Matches are distributed among these distances:
10 22 0.54
11 14 0.34
12 5 0.12
ACGTcount: A:0.34, C:0.32, G:0.03, T:0.31
Consensus pattern (10 bp):
TACCAATTCA
Found at i:32467696 original size:21 final size:21
Alignment explanation
Indices: 32467651--32467713 Score: 90
Period size: 21 Copynumber: 3.0 Consensus size: 21
32467641 TTTGAACCAT
* *
32467651 TACCAATTCGTACCAAATACCA
1 TACCATTTCGTACC-AATTCCA
*
32467673 TACCATTTCATACCAATTCCA
1 TACCATTTCGTACCAATTCCA
32467694 TACCATTTCGTACCAATTCC
1 TACCATTTCGTACCAATTCC
32467714 CAAATACCAA
Statistics
Matches: 37, Mismatches: 4, Indels: 1
0.88 0.10 0.02
Matches are distributed among these distances:
21 25 0.68
22 12 0.32
ACGTcount: A:0.33, C:0.33, G:0.03, T:0.30
Consensus pattern (21 bp):
TACCATTTCGTACCAATTCCA
Found at i:32474752 original size:14 final size:15
Alignment explanation
Indices: 32474733--32474765 Score: 50
Period size: 15 Copynumber: 2.3 Consensus size: 15
32474723 TAATGAGTAT
32474733 TTTTC-TTTTCGTTC
1 TTTTCTTTTTCGTTC
*
32474747 TTTTCTTTTTCTTTC
1 TTTTCTTTTTCGTTC
32474762 TTTT
1 TTTT
32474766 TTACTCACTT
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
14 5 0.29
15 12 0.71
ACGTcount: A:0.00, C:0.18, G:0.03, T:0.79
Consensus pattern (15 bp):
TTTTCTTTTTCGTTC
Found at i:32479602 original size:12 final size:12
Alignment explanation
Indices: 32479585--32479612 Score: 56
Period size: 12 Copynumber: 2.3 Consensus size: 12
32479575 CAAATGGATT
32479585 ATTTCCATTTTC
1 ATTTCCATTTTC
32479597 ATTTCCATTTTC
1 ATTTCCATTTTC
32479609 ATTT
1 ATTT
32479613 TTGGAAACCT
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 16 1.00
ACGTcount: A:0.18, C:0.21, G:0.00, T:0.61
Consensus pattern (12 bp):
ATTTCCATTTTC
Found at i:32495626 original size:29 final size:29
Alignment explanation
Indices: 32495594--32495653 Score: 111
Period size: 29 Copynumber: 2.1 Consensus size: 29
32495584 AAGAAAGGTG
32495594 AAATCACGAGTGTTGAAACTGAGCGTAAC
1 AAATCACGAGTGTTGAAACTGAGCGTAAC
*
32495623 AAATCACGAGTGTTGAAACTGAGTGTAAC
1 AAATCACGAGTGTTGAAACTGAGCGTAAC
32495652 AA
1 AA
32495654 GTTAATTCCA
Statistics
Matches: 30, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
29 30 1.00
ACGTcount: A:0.40, C:0.15, G:0.23, T:0.22
Consensus pattern (29 bp):
AAATCACGAGTGTTGAAACTGAGCGTAAC
Found at i:32502336 original size:11 final size:11
Alignment explanation
Indices: 32502317--32502353 Score: 56
Period size: 11 Copynumber: 3.4 Consensus size: 11
32502307 CTTCATTCAT
32502317 CATCCCTCAAG
1 CATCCCTCAAG
* *
32502328 CATCTCTCAAT
1 CATCCCTCAAG
32502339 CATCCCTCAAG
1 CATCCCTCAAG
32502350 CATC
1 CATC
32502354 ATTCTCTCTT
Statistics
Matches: 22, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
11 22 1.00
ACGTcount: A:0.27, C:0.43, G:0.05, T:0.24
Consensus pattern (11 bp):
CATCCCTCAAG
Found at i:32507065 original size:12 final size:12
Alignment explanation
Indices: 32507048--32507072 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
32507038 TTCTTATTGC
32507048 CTCTTCTTCCAT
1 CTCTTCTTCCAT
32507060 CTCTTCTTCCAT
1 CTCTTCTTCCAT
32507072 C
1 C
32507073 ATATCCCCCA
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 13 1.00
ACGTcount: A:0.08, C:0.44, G:0.00, T:0.48
Consensus pattern (12 bp):
CTCTTCTTCCAT
Found at i:32509992 original size:47 final size:47
Alignment explanation
Indices: 32509923--32510017 Score: 181
Period size: 47 Copynumber: 2.0 Consensus size: 47
32509913 TTAGTATATT
*
32509923 TTAATAGATGATCAATAGCAAAAGGACATTACTGTAGAGATGGATGA
1 TTAATAGATGATCAAGAGCAAAAGGACATTACTGTAGAGATGGATGA
32509970 TTAATAGATGATCAAGAGCAAAAGGACATTACTGTAGAGATGGATGA
1 TTAATAGATGATCAAGAGCAAAAGGACATTACTGTAGAGATGGATGA
32510017 T
1 T
32510018 AATCAAAATA
Statistics
Matches: 47, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
47 47 1.00
ACGTcount: A:0.42, C:0.08, G:0.24, T:0.25
Consensus pattern (47 bp):
TTAATAGATGATCAAGAGCAAAAGGACATTACTGTAGAGATGGATGA
Found at i:32512738 original size:32 final size:32
Alignment explanation
Indices: 32512701--32512764 Score: 119
Period size: 32 Copynumber: 2.0 Consensus size: 32
32512691 ATTCCAAAAA
32512701 GAACACTTACAGGATGTAAAGTTTGTATTGAC
1 GAACACTTACAGGATGTAAAGTTTGTATTGAC
*
32512733 GAACACTTACAGGATGTAGAGTTTGTATTGAC
1 GAACACTTACAGGATGTAAAGTTTGTATTGAC
32512765 TACAAAAAGC
Statistics
Matches: 31, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
32 31 1.00
ACGTcount: A:0.33, C:0.12, G:0.23, T:0.31
Consensus pattern (32 bp):
GAACACTTACAGGATGTAAAGTTTGTATTGAC
Found at i:32514985 original size:20 final size:20
Alignment explanation
Indices: 32514955--32515008 Score: 72
Period size: 20 Copynumber: 2.7 Consensus size: 20
32514945 GATATCACCC
*
32514955 TATCACTCTAGGCCATGTGA
1 TATCACCCTAGGCCATGTGA
* **
32514975 TGTCACCCTAGGCTGTGTGA
1 TATCACCCTAGGCCATGTGA
32514995 TATCACCCTAGGCC
1 TATCACCCTAGGCC
32515009 GTCTTTGCCA
Statistics
Matches: 28, Mismatches: 6, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
20 28 1.00
ACGTcount: A:0.20, C:0.30, G:0.22, T:0.28
Consensus pattern (20 bp):
TATCACCCTAGGCCATGTGA
Found at i:32517337 original size:6 final size:6
Alignment explanation
Indices: 32517289--32517441 Score: 67
Period size: 6 Copynumber: 25.2 Consensus size: 6
32517279 TTTTTGGTTC
* * * * * *
32517289 ATTATT ATTTATT ATTAGT ACTATT TTTATT ACTGTT ACTATT ATTATT
1 ATTATT A-TTATT ATTATT ATTATT ATTATT ATTATT ATTATT ATTATT
* * * * * * *
32517338 AGTATT AGTATT AGTATT AGTATT AGTATT AGTATT AGTATT ATTAGTT
1 ATTATT ATTATT ATTATT ATTATT ATTATT ATTATT ATTATT ATTA-TT
* * * * * * * *
32517387 GAACTACT GTTATT ATTATT ACTATT TTTCTT A-TATT CTTATT A-TGTT
1 --ATTATT ATTATT ATTATT ATTATT ATTATT ATTATT ATTATT ATTATT
32517435 ATTATT A
1 ATTATT A
32517442 GTGTACAGCT
Statistics
Matches: 113, Mismatches: 28, Indels: 12
0.74 0.18 0.08
Matches are distributed among these distances:
5 7 0.06
6 94 0.83
7 8 0.07
8 1 0.01
9 3 0.03
ACGTcount: A:0.29, C:0.05, G:0.08, T:0.57
Consensus pattern (6 bp):
ATTATT
Found at i:32517343 original size:12 final size:12
Alignment explanation
Indices: 32517289--32517383 Score: 92
Period size: 12 Copynumber: 8.3 Consensus size: 12
32517279 TTTTTGGTTC
32517289 ATTATTA-T-TT
1 ATTATTAGTATT
*
32517299 ATTATTAGTACT
1 ATTATTAGTATT
32517311 ATT-TT--TATT
1 ATTATTAGTATT
* * *
32517320 ACTGTTACTATT
1 ATTATTAGTATT
32517332 ATTATTAGTATT
1 ATTATTAGTATT
*
32517344 AGTATTAGTATT
1 ATTATTAGTATT
*
32517356 AGTATTAGTATT
1 ATTATTAGTATT
*
32517368 AGTATTAGTATT
1 ATTATTAGTATT
32517380 ATTA
1 ATTA
32517384 GTTGAACTAC
Statistics
Matches: 72, Mismatches: 8, Indels: 8
0.82 0.09 0.09
Matches are distributed among these distances:
9 5 0.07
10 9 0.12
11 3 0.04
12 55 0.76
ACGTcount: A:0.32, C:0.03, G:0.09, T:0.56
Consensus pattern (12 bp):
ATTATTAGTATT
Found at i:32517349 original size:18 final size:18
Alignment explanation
Indices: 32517297--32517380 Score: 93
Period size: 18 Copynumber: 4.8 Consensus size: 18
32517287 TCATTATTAT
*
32517297 TTATTATTAGTACTA-T-
1 TTATTATTAGTATTAGTA
* * *
32517313 TT-TTATTACTGTTACTA
1 TTATTATTAGTATTAGTA
32517330 TTATTATTAGTATTAGTA
1 TTATTATTAGTATTAGTA
*
32517348 TTAGTATTAGTATTAGTA
1 TTATTATTAGTATTAGTA
*
32517366 TTAGTATTAGTATTA
1 TTATTATTAGTATTA
32517381 TTAGTTGAAC
Statistics
Matches: 58, Mismatches: 7, Indels: 4
0.84 0.10 0.06
Matches are distributed among these distances:
15 9 0.16
16 3 0.05
17 2 0.03
18 44 0.76
ACGTcount: A:0.31, C:0.04, G:0.11, T:0.55
Consensus pattern (18 bp):
TTATTATTAGTATTAGTA
Found at i:32518679 original size:45 final size:45
Alignment explanation
Indices: 32518615--32518701 Score: 147
Period size: 45 Copynumber: 1.9 Consensus size: 45
32518605 GGATCCTCAG
* *
32518615 GATGAGTATGAGGACCTAGCTCGCTCCCCTCCTCCTTCGAGTCAA
1 GATGAGCACGAGGACCTAGCTCGCTCCCCTCCTCCTTCGAGTCAA
*
32518660 GATGAGCACGAGGACCTAGCTCGCTCCCCTCCTCCTTTGAGT
1 GATGAGCACGAGGACCTAGCTCGCTCCCCTCCTCCTTCGAGT
32518702 TACCCTATTT
Statistics
Matches: 39, Mismatches: 3, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
45 39 1.00
ACGTcount: A:0.18, C:0.34, G:0.23, T:0.24
Consensus pattern (45 bp):
GATGAGCACGAGGACCTAGCTCGCTCCCCTCCTCCTTCGAGTCAA
Found at i:32529497 original size:15 final size:14
Alignment explanation
Indices: 32529479--32529516 Score: 51
Period size: 15 Copynumber: 2.7 Consensus size: 14
32529469 AAGAATATTA
32529479 TAATATATTTCAATT
1 TAATATATTT-AATT
*
32529494 TAATAAATTTAATT
1 TAATATATTTAATT
32529508 TAAT-TATTT
1 TAATATATTT
32529517 TATAGATCAA
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
13 4 0.19
14 8 0.38
15 9 0.43
ACGTcount: A:0.42, C:0.03, G:0.00, T:0.55
Consensus pattern (14 bp):
TAATATATTTAATT
Found at i:32530121 original size:20 final size:19
Alignment explanation
Indices: 32530096--32530145 Score: 57
Period size: 20 Copynumber: 2.5 Consensus size: 19
32530086 GCTTGTATCG
32530096 GATTGCACTTTGGTGCCTCT
1 GATTGCACTTT-GTGCCTCT
*
32530116 GATTGCACATTTGTGCTTCT
1 GATTGCAC-TTTGTGCCTCT
32530136 -ATCTGCACTT
1 GAT-TGCACTT
32530146 CAATGCCTCT
Statistics
Matches: 27, Mismatches: 1, Indels: 5
0.82 0.03 0.15
Matches are distributed among these distances:
19 4 0.15
20 20 0.74
21 3 0.11
ACGTcount: A:0.14, C:0.24, G:0.20, T:0.42
Consensus pattern (19 bp):
GATTGCACTTTGTGCCTCT
Found at i:32535119 original size:22 final size:24
Alignment explanation
Indices: 32535081--32535137 Score: 66
Period size: 22 Copynumber: 2.5 Consensus size: 24
32535071 ATTACATTTT
*
32535081 AAACTA-TAATAATAAAT-TTA-A
1 AAACTATTAAAAATAAATGTTACA
32535102 AAACTATTAAAAATAAATGTTACA
1 AAACTATTAAAAATAAATGTTACA
*
32535126 AATAATATTAAA
1 AA-ACTATTAAA
32535138 TACTATAATA
Statistics
Matches: 30, Mismatches: 2, Indels: 4
0.83 0.06 0.11
Matches are distributed among these distances:
21 6 0.20
22 10 0.33
23 3 0.10
24 3 0.10
25 8 0.27
ACGTcount: A:0.61, C:0.05, G:0.02, T:0.32
Consensus pattern (24 bp):
AAACTATTAAAAATAAATGTTACA
Found at i:32545696 original size:16 final size:16
Alignment explanation
Indices: 32545675--32545716 Score: 75
Period size: 16 Copynumber: 2.6 Consensus size: 16
32545665 AACATGATTT
32545675 TTACTTTCTTCTTTAC
1 TTACTTTCTTCTTTAC
32545691 TTACTTTCTTCTTTAC
1 TTACTTTCTTCTTTAC
*
32545707 TTACTCTCTT
1 TTACTTTCTT
32545717 ACTTGTTTAC
Statistics
Matches: 25, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
16 25 1.00
ACGTcount: A:0.12, C:0.26, G:0.00, T:0.62
Consensus pattern (16 bp):
TTACTTTCTTCTTTAC
Found at i:32545725 original size:20 final size:20
Alignment explanation
Indices: 32545687--32545740 Score: 65
Period size: 20 Copynumber: 2.7 Consensus size: 20
32545677 ACTTTCTTCT
* * *
32545687 TTACTTACTTTCTTCTTTAC
1 TTACTTGCTTACTTGTTTAC
32545707 TTACTCT-CTTACTTGTTTAC
1 TTACT-TGCTTACTTGTTTAC
32545727 TTACTTGCTTACTT
1 TTACTTGCTTACTT
32545741 AAATAACTCA
Statistics
Matches: 30, Mismatches: 2, Indels: 4
0.83 0.06 0.11
Matches are distributed among these distances:
19 1 0.03
20 28 0.93
21 1 0.03
ACGTcount: A:0.15, C:0.24, G:0.04, T:0.57
Consensus pattern (20 bp):
TTACTTGCTTACTTGTTTAC
Found at i:32546070 original size:50 final size:50
Alignment explanation
Indices: 32546008--32546140 Score: 142
Period size: 50 Copynumber: 2.7 Consensus size: 50
32545998 CAATATCATA
* * * *
32546008 TCCCAGATATGGTCTTACACAGGA-GTTCTCATATCGGTGCCCATGCCATG
1 TCCCAGACATGGTCTTACACAGGACCTT-TCATATCGGTGCCAACGCCATG
*** *
32546058 TCCCAGACATGGTCTTACGGGGGACCTTTCATCTCGGTGCCAACGCCATG
1 TCCCAGACATGGTCTTACACAGGACCTTTCATATCGGTGCCAACGCCATG
* ** *
32546108 TCCCAGACATTGTCTTACATGGGACCTCTCATA
1 TCCCAGACATGGTCTTACACAGGACCTTTCATA
32546141 ACCTCAATAA
Statistics
Matches: 69, Mismatches: 13, Indels: 2
0.82 0.15 0.02
Matches are distributed among these distances:
50 67 0.97
51 2 0.03
ACGTcount: A:0.21, C:0.30, G:0.22, T:0.27
Consensus pattern (50 bp):
TCCCAGACATGGTCTTACACAGGACCTTTCATATCGGTGCCAACGCCATG
Found at i:32553615 original size:26 final size:27
Alignment explanation
Indices: 32553564--32553633 Score: 97
Period size: 26 Copynumber: 2.6 Consensus size: 27
32553554 TGTGGGTTCA
*
32553564 GTAAAATGACCGAAATATCCCAAAAGT
1 GTAAAATGACCGAAATATCCCAAAAGG
* *
32553591 GTAAAATGATCG-AATATCCCTAAAGG
1 GTAAAATGACCGAAATATCCCAAAAGG
*
32553617 GTAAAATGACTGAAATA
1 GTAAAATGACCGAAATA
32553634 CCCTCATAGG
Statistics
Matches: 37, Mismatches: 5, Indels: 2
0.84 0.11 0.05
Matches are distributed among these distances:
26 22 0.59
27 15 0.41
ACGTcount: A:0.47, C:0.14, G:0.17, T:0.21
Consensus pattern (27 bp):
GTAAAATGACCGAAATATCCCAAAAGG
Found at i:32553637 original size:26 final size:27
Alignment explanation
Indices: 32553564--32553654 Score: 98
Period size: 27 Copynumber: 3.4 Consensus size: 27
32553554 TGTGGGTTCA
* * *
32553564 GTAAAATGACCGAAATATCCCAAAAGT
1 GTAAAATGACTGAAATATCCCTAAAGG
32553591 GTAAAATGA-TCG-AATATCCCTAAAGG
1 GTAAAATGACT-GAAATATCCCTAAAGG
*
32553617 GTAAAATGACTGAAATA-CCCTCATAGG
1 GTAAAATGACTGAAATATCCCT-AAAGG
*
32553644 ATAAAATGACT
1 GTAAAATGACT
32553655 ATTATACCCC
Statistics
Matches: 55, Mismatches: 5, Indels: 8
0.81 0.07 0.12
Matches are distributed among these distances:
26 26 0.47
27 29 0.53
ACGTcount: A:0.45, C:0.16, G:0.16, T:0.22
Consensus pattern (27 bp):
GTAAAATGACTGAAATATCCCTAAAGG
Found at i:32553926 original size:21 final size:21
Alignment explanation
Indices: 32553887--32553926 Score: 53
Period size: 21 Copynumber: 1.9 Consensus size: 21
32553877 TATCTCCACA
**
32553887 TGGTGTGTTGGTGGTATGGGG
1 TGGTGTGTTGGTGAAATGGGG
*
32553908 TGGTGTGTTGGTTAAATGG
1 TGGTGTGTTGGTGAAATGG
32553927 CATGTATAAG
Statistics
Matches: 16, Mismatches: 3, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
21 16 1.00
ACGTcount: A:0.10, C:0.00, G:0.50, T:0.40
Consensus pattern (21 bp):
TGGTGTGTTGGTGAAATGGGG
Found at i:32565772 original size:33 final size:33
Alignment explanation
Indices: 32565730--32565793 Score: 83
Period size: 33 Copynumber: 1.9 Consensus size: 33
32565720 AACAGTCTAG
* * *
32565730 GCCTGAGCCCTATTCAGTAACAGTACAGTGTGA
1 GCCTGAGCCCAATACAATAACAGTACAGTGTGA
* *
32565763 GCCTTAGCCCAATACAATAATAGTACAGTGT
1 GCCTGAGCCCAATACAATAACAGTACAGTGT
32565794 AATAATGCAA
Statistics
Matches: 26, Mismatches: 5, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
33 26 1.00
ACGTcount: A:0.31, C:0.23, G:0.20, T:0.25
Consensus pattern (33 bp):
GCCTGAGCCCAATACAATAACAGTACAGTGTGA
Found at i:32565928 original size:26 final size:26
Alignment explanation
Indices: 32565897--32565969 Score: 85
Period size: 26 Copynumber: 2.8 Consensus size: 26
32565887 AATATCACAG
*
32565897 CAAAGCTGCCATTAAT-AGTATCGCAA
1 CAAAGCTGCCAGT-ATCAGTATCGCAA
* *
32565923 CGAAGCTGCCAGTATCAGTATCGCAG
1 CAAAGCTGCCAGTATCAGTATCGCAA
* *
32565949 CAAAGCTGCTAGTAACAGTAT
1 CAAAGCTGCCAGTATCAGTAT
32565970 ATGTGGCAAA
Statistics
Matches: 40, Mismatches: 6, Indels: 2
0.83 0.12 0.04
Matches are distributed among these distances:
25 2 0.05
26 38 0.95
ACGTcount: A:0.34, C:0.23, G:0.21, T:0.22
Consensus pattern (26 bp):
CAAAGCTGCCAGTATCAGTATCGCAA
Found at i:32569520 original size:80 final size:81
Alignment explanation
Indices: 32569382--32569544 Score: 310
Period size: 80 Copynumber: 2.0 Consensus size: 81
32569372 CTTGAATTCA
32569382 TCAAATTGATCAATGAGGTAAATAATGATGTAGGAATCCCAACTTTAGCAAGAAGAATTGAGTCC
1 TCAAATTGATCAATGAGGTAAATAATGA-GTAGGAATCCCAACTTTAGCAAGAAGAATTGAGTCC
32569447 TTGTGCTCAAGAAATTG
65 TTGTGCTCAAGAAATTG
32569464 TCAAATTGATCAATGAGGTAAATAATGA-TAGGAATCCCAACTTTAGCAAGAAGAATTGAGTCCT
1 TCAAATTGATCAATGAGGTAAATAATGAGTAGGAATCCCAACTTTAGCAAGAAGAATTGAGTCCT
32569528 TGTGCTCAAGAAATTG
66 TGTGCTCAAGAAATTG
32569544 T
1 T
32569545 GAGGACAAAT
Statistics
Matches: 81, Mismatches: 0, Indels: 2
0.98 0.00 0.02
Matches are distributed among these distances:
80 53 0.65
82 28 0.35
ACGTcount: A:0.38, C:0.13, G:0.20, T:0.28
Consensus pattern (81 bp):
TCAAATTGATCAATGAGGTAAATAATGAGTAGGAATCCCAACTTTAGCAAGAAGAATTGAGTCCT
TGTGCTCAAGAAATTG
Found at i:32582855 original size:11 final size:10
Alignment explanation
Indices: 32582827--32582856 Score: 51
Period size: 10 Copynumber: 2.9 Consensus size: 10
32582817 CTTACCCTTG
32582827 GTAAAATATT
1 GTAAAATATT
32582837 GTAAAATATT
1 GTAAAATATT
32582847 GTGAAAATAT
1 GT-AAAATAT
32582857 GTTCAATATG
Statistics
Matches: 19, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
10 12 0.63
11 7 0.37
ACGTcount: A:0.50, C:0.00, G:0.13, T:0.37
Consensus pattern (10 bp):
GTAAAATATT
Found at i:32585390 original size:27 final size:27
Alignment explanation
Indices: 32585349--32585475 Score: 132
Period size: 27 Copynumber: 4.7 Consensus size: 27
32585339 CACACCAAAA
*
32585349 AAATGGAAGCCTTTGTGGCAATTTGTG
1 AAATGGAAGCCTTTGTGGCAATTTATG
* *
32585376 AATTGGAAGCCTTTGTGAC-ATTCTATG
1 AAATGGAAGCCTTTGTGGCAATT-TATG
* *
32585403 AAATGGAAGCCTTCGTGGCAATCTATG
1 AAATGGAAGCCTTTGTGGCAATTTATG
* * *
32585430 AAATGGAAGGCTTTGTGGCGATCTATGG
1 AAATGGAAGCCTTTGTGGCAATTTAT-G
*
32585458 AAA-GGAACTCCTTTGTGG
1 AAATGGAA-GCCTTTGTGG
32585476 TGCATTCTAG
Statistics
Matches: 84, Mismatches: 12, Indels: 7
0.82 0.12 0.07
Matches are distributed among these distances:
26 3 0.04
27 67 0.80
28 14 0.17
ACGTcount: A:0.27, C:0.14, G:0.28, T:0.31
Consensus pattern (27 bp):
AAATGGAAGCCTTTGTGGCAATTTATG
Found at i:32585455 original size:54 final size:55
Alignment explanation
Indices: 32585349--32585464 Score: 148
Period size: 54 Copynumber: 2.1 Consensus size: 55
32585339 CACACCAAAA
* * * *
32585349 AAATGGAAGCCTTTGTGGCAATTTGTGAATTGGAAGCCTTTGTGACATTCTAT-G
1 AAATGGAAGCCTTCGTGGCAATCTATGAAATGGAAGCCTTTGTGACATTCTATGG
* *
32585403 AAATGGAAGCCTTCGTGGCAATCTATGAAATGGAAGGCTTTGTGGCGA-TCTATGG
1 AAATGGAAGCCTTCGTGGCAATCTATGAAATGGAAGCCTTTGTGAC-ATTCTATGG
32585458 AAA-GGAA
1 AAATGGAA
32585465 CTCCTTTGTG
Statistics
Matches: 54, Mismatches: 6, Indels: 4
0.84 0.09 0.06
Matches are distributed among these distances:
54 49 0.91
55 5 0.09
ACGTcount: A:0.29, C:0.13, G:0.28, T:0.29
Consensus pattern (55 bp):
AAATGGAAGCCTTCGTGGCAATCTATGAAATGGAAGCCTTTGTGACATTCTATGG
Found at i:32591369 original size:17 final size:17
Alignment explanation
Indices: 32591355--32591387 Score: 57
Period size: 17 Copynumber: 1.9 Consensus size: 17
32591345 CGAAAGCTTG
32591355 ATCGGGTTAAAAGCTCA
1 ATCGGGTTAAAAGCTCA
*
32591372 ATCGGGTTAGAAGCTC
1 ATCGGGTTAAAAGCTC
32591388 CTCGGAGATC
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
17 15 1.00
ACGTcount: A:0.30, C:0.18, G:0.27, T:0.24
Consensus pattern (17 bp):
ATCGGGTTAAAAGCTCA
Found at i:32597196 original size:45 final size:45
Alignment explanation
Indices: 32597127--32597303 Score: 198
Period size: 45 Copynumber: 4.0 Consensus size: 45
32597117 TACGTTACCC
* * * * * *
32597127 GGTACCATTGATTATAAATGTGGTTGTTGTGTGCTGACTCCATCG
1 GGTATCATTGATTATAAAGGTGGTTGCTATGTGCTGATTCCACCG
*
32597172 GGTATCATTGATTATAAAGGTGGTTGCTGTGTGCTGATTCCACCG
1 GGTATCATTGATTATAAAGGTGGTTGCTATGTGCTGATTCCACCG
* * **
32597217 GGTA-CTACTGATTATGAAGGTGGTTGCTATGTTTTGATTCCACCG
1 GGTATC-ATTGATTATAAAGGTGGTTGCTATGTGCTGATTCCACCG
* * *
32597262 AGTATCATTGACTATAAGGGTGG-TGCTATGTGCTGA-TCCACC
1 GGTATCATTGATTATAAAGGTGGTTGCTATGTGCTGATTCCACC
32597304 ATGTACCTGT
Statistics
Matches: 113, Mismatches: 17, Indels: 6
0.83 0.12 0.04
Matches are distributed among these distances:
43 6 0.05
44 12 0.11
45 94 0.83
46 1 0.01
ACGTcount: A:0.21, C:0.16, G:0.27, T:0.36
Consensus pattern (45 bp):
GGTATCATTGATTATAAAGGTGGTTGCTATGTGCTGATTCCACCG
Found at i:32614587 original size:17 final size:17
Alignment explanation
Indices: 32614565--32614602 Score: 76
Period size: 17 Copynumber: 2.2 Consensus size: 17
32614555 TAAGTTGTCT
32614565 TTCTGGCAATGTAAACG
1 TTCTGGCAATGTAAACG
32614582 TTCTGGCAATGTAAACG
1 TTCTGGCAATGTAAACG
32614599 TTCT
1 TTCT
32614603 TACAATGCCA
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
17 21 1.00
ACGTcount: A:0.26, C:0.18, G:0.21, T:0.34
Consensus pattern (17 bp):
TTCTGGCAATGTAAACG
Found at i:32614608 original size:17 final size:17
Alignment explanation
Indices: 32614565--32614609 Score: 63
Period size: 17 Copynumber: 2.6 Consensus size: 17
32614555 TAAGTTGTCT
*
32614565 TTCTGGCAATGTAAACG
1 TTCTGACAATGTAAACG
*
32614582 TTCTGGCAATGTAAACG
1 TTCTGACAATGTAAACG
*
32614599 TTCTTACAATG
1 TTCTGACAATG
32614610 CCACTTCTCT
Statistics
Matches: 26, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
17 26 1.00
ACGTcount: A:0.29, C:0.18, G:0.20, T:0.33
Consensus pattern (17 bp):
TTCTGACAATGTAAACG
Found at i:32621552 original size:12 final size:11
Alignment explanation
Indices: 32621527--32621564 Score: 53
Period size: 10 Copynumber: 3.5 Consensus size: 11
32621517 GAACATGATG
32621527 AATTTTA-ATT
1 AATTTTATATT
32621537 AATTTTATAGTT
1 AATTTTATA-TT
32621549 AATTTT-TATT
1 AATTTTATATT
32621559 AATTTT
1 AATTTT
32621565 GACTATTTTC
Statistics
Matches: 26, Mismatches: 0, Indels: 4
0.87 0.00 0.13
Matches are distributed among these distances:
10 15 0.58
11 3 0.12
12 8 0.31
ACGTcount: A:0.34, C:0.00, G:0.03, T:0.63
Consensus pattern (11 bp):
AATTTTATATT
Found at i:32631796 original size:25 final size:25
Alignment explanation
Indices: 32631768--32631818 Score: 102
Period size: 25 Copynumber: 2.0 Consensus size: 25
32631758 CCCCCAAACA
32631768 TCCACTTATGATTTCAAACCAATCG
1 TCCACTTATGATTTCAAACCAATCG
32631793 TCCACTTATGATTTCAAACCAATCG
1 TCCACTTATGATTTCAAACCAATCG
32631818 T
1 T
32631819 TGAAATTATA
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
25 26 1.00
ACGTcount: A:0.31, C:0.27, G:0.08, T:0.33
Consensus pattern (25 bp):
TCCACTTATGATTTCAAACCAATCG
Found at i:32633063 original size:17 final size:16
Alignment explanation
Indices: 32633043--32633098 Score: 62
Period size: 17 Copynumber: 3.5 Consensus size: 16
32633033 TGGTTTATCA
32633043 ATTTATTTCGTTTATTT
1 ATTTATTTC-TTTATTT
32633060 A-TT-TTTCTTTATTT
1 ATTTATTTCTTTATTT
* *
32633074 ATTTCTTTTCTTTAGTT
1 ATTT-ATTTCTTTATTT
32633091 ATTTATTT
1 ATTTATTT
32633099 GTATTCCCTT
Statistics
Matches: 34, Mismatches: 2, Indels: 7
0.79 0.05 0.16
Matches are distributed among these distances:
14 8 0.24
15 6 0.18
16 5 0.15
17 15 0.44
ACGTcount: A:0.16, C:0.07, G:0.04, T:0.73
Consensus pattern (16 bp):
ATTTATTTCTTTATTT
Found at i:32633072 original size:14 final size:15
Alignment explanation
Indices: 32633048--32633077 Score: 53
Period size: 14 Copynumber: 2.1 Consensus size: 15
32633038 TATCAATTTA
32633048 TTTCGTTTATTTATT
1 TTTCGTTTATTTATT
32633063 TTTC-TTTATTTATT
1 TTTCGTTTATTTATT
32633077 T
1 T
32633078 CTTTTCTTTA
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
14 11 0.73
15 4 0.27
ACGTcount: A:0.13, C:0.07, G:0.03, T:0.77
Consensus pattern (15 bp):
TTTCGTTTATTTATT
Found at i:32636538 original size:7 final size:7
Alignment explanation
Indices: 32636528--32636558 Score: 55
Period size: 7 Copynumber: 4.6 Consensus size: 7
32636518 TGTTATATAT
32636528 TTTATTA
1 TTTATTA
32636535 TTTATTA
1 TTTATTA
32636542 TTTATTA
1 TTTATTA
32636549 TTTATT-
1 TTTATTA
32636555 TTTA
1 TTTA
32636559 ATCTAGAAAA
Statistics
Matches: 24, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
6 4 0.17
7 20 0.83
ACGTcount: A:0.26, C:0.00, G:0.00, T:0.74
Consensus pattern (7 bp):
TTTATTA
Found at i:32637332 original size:17 final size:17
Alignment explanation
Indices: 32637310--32637352 Score: 52
Period size: 17 Copynumber: 2.5 Consensus size: 17
32637300 TTTAAAAAAA
*
32637310 TATAAAATTTGGAATTT
1 TATAAAATTTGAAATTT
*
32637327 TATAAATATTTTAAATTT
1 TATAAA-ATTTGAAATTT
32637345 T-TAAAATT
1 TATAAAATT
32637353 ATTTTGAATT
Statistics
Matches: 23, Mismatches: 2, Indels: 3
0.82 0.07 0.11
Matches are distributed among these distances:
16 3 0.13
17 10 0.43
18 10 0.43
ACGTcount: A:0.44, C:0.00, G:0.05, T:0.51
Consensus pattern (17 bp):
TATAAAATTTGAAATTT
Found at i:32637384 original size:19 final size:18
Alignment explanation
Indices: 32637324--32637383 Score: 86
Period size: 19 Copynumber: 3.2 Consensus size: 18
32637314 AAATTTGGAA
32637324 TTTTATAAA-TATTTTAAAT
1 TTTTA-AAATTATTTT-AAT
32637343 TTTTAAAATTATTTTGAAT
1 TTTTAAAATTATTTT-AAT
32637362 TTTTAAAATTATTTTAAT
1 TTTTAAAATTATTTTAAT
32637380 TTTT
1 TTTT
32637384 TTTGTAATTT
Statistics
Matches: 39, Mismatches: 1, Indels: 3
0.91 0.02 0.07
Matches are distributed among these distances:
18 10 0.26
19 29 0.74
ACGTcount: A:0.37, C:0.00, G:0.02, T:0.62
Consensus pattern (18 bp):
TTTTAAAATTATTTTAAT
Found at i:32637385 original size:9 final size:9
Alignment explanation
Indices: 32637322--32637384 Score: 56
Period size: 9 Copynumber: 6.9 Consensus size: 9
32637312 TAAAATTTGG
*
32637322 AATTTTATA
1 AATTTTTTA
*
32637331 AATATTTTA
1 AATTTTTTA
*
32637340 AATTTTTAA
1 AATTTTTTA
*
32637349 AATTATTTTG
1 AATT-TTTTA
*
32637359 AATTTTTAA
1 AATTTTTTA
32637368 AATTATTTT-
1 AATT-TTTTA
32637377 AATTTTTT
1 AATTTTTT
32637385 TTGTAATTTT
Statistics
Matches: 43, Mismatches: 9, Indels: 5
0.75 0.16 0.09
Matches are distributed among these distances:
8 4 0.09
9 29 0.67
10 10 0.23
ACGTcount: A:0.38, C:0.00, G:0.02, T:0.60
Consensus pattern (9 bp):
AATTTTTTA
Found at i:32646373 original size:20 final size:21
Alignment explanation
Indices: 32646230--32646428 Score: 109
Period size: 20 Copynumber: 9.9 Consensus size: 21
32646220 CAAAACACAC
* *
32646230 CAGAGAGCATCGAAATGAAAAT
1 CAGAG-GCACCGAAATGCAAAT
* *
32646252 -AGAGCCACCGAAGTGCAAA-
1 CAGAGGCACCGAAATGCAAAT
32646271 CA-AGGCACCG-AA-GCATAAT
1 CAGAGGCACCGAAATGCA-AAT
* * ** *
32646290 TAGAGGCACTGAACCG-TAAT
1 CAGAGGCACCGAAATGCAAAT
32646310 CAGAGGCACCG-AA-GCACAAT
1 CAGAGGCACCGAAATGCA-AAT
* *
32646330 TAGAGGCACC-AAAGTGTAAA-
1 CAGAGGCACCGAAA-TGCAAAT
32646350 CAGAGGCACCGAAATG-AAAT
1 CAGAGGCACCGAAATGCAAAT
**
32646370 CAGAGGCATTGAAATGC-AAT
1 CAGAGGCACCGAAATGCAAAT
** * *
32646390 CAGAGGCGTCGAAGTG-AAAA
1 CAGAGGCACCGAAATGCAAAT
*
32646410 CAGAGGCATCGAAATGCAA
1 CAGAGGCACCGAAATGCAA
32646429 TCCTATACAA
Statistics
Matches: 136, Mismatches: 25, Indels: 33
0.70 0.13 0.17
Matches are distributed among these distances:
17 3 0.02
18 4 0.03
19 12 0.09
20 102 0.75
21 12 0.09
22 3 0.02
ACGTcount: A:0.42, C:0.20, G:0.26, T:0.12
Consensus pattern (21 bp):
CAGAGGCACCGAAATGCAAAT
Found at i:32646377 original size:40 final size:40
Alignment explanation
Indices: 32646251--32646362 Score: 145
Period size: 40 Copynumber: 2.8 Consensus size: 40
32646241 GAAATGAAAA
* * *
32646251 TAGAGCCACCGAAGTGCAAACA-AGGCACCGAAGCATAAT
1 TAGAGGCACCGAAGTGTAAACAGAGGCACCGAAGCACAAT
* ** *
32646290 TAGAGGCACTGAACCGTAATCAGAGGCACCGAAGCACAAT
1 TAGAGGCACCGAAGTGTAAACAGAGGCACCGAAGCACAAT
*
32646330 TAGAGGCACCAAAGTGTAAACAGAGGCACCGAA
1 TAGAGGCACCGAAGTGTAAACAGAGGCACCGAA
32646363 ATGAAATCAG
Statistics
Matches: 60, Mismatches: 12, Indels: 1
0.82 0.16 0.01
Matches are distributed among these distances:
39 16 0.27
40 44 0.73
ACGTcount: A:0.40, C:0.24, G:0.25, T:0.11
Consensus pattern (40 bp):
TAGAGGCACCGAAGTGTAAACAGAGGCACCGAAGCACAAT
Found at i:32649239 original size:23 final size:23
Alignment explanation
Indices: 32649213--32649259 Score: 94
Period size: 23 Copynumber: 2.0 Consensus size: 23
32649203 ATCTGAATTC
32649213 CAATAAAGTCAGATGCATCTACA
1 CAATAAAGTCAGATGCATCTACA
32649236 CAATAAAGTCAGATGCATCTACA
1 CAATAAAGTCAGATGCATCTACA
32649259 C
1 C
32649260 CAAAATTAGA
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
23 24 1.00
ACGTcount: A:0.43, C:0.23, G:0.13, T:0.21
Consensus pattern (23 bp):
CAATAAAGTCAGATGCATCTACA
Found at i:32657294 original size:42 final size:42
Alignment explanation
Indices: 32657246--32657348 Score: 120
Period size: 42 Copynumber: 2.5 Consensus size: 42
32657236 TGAGTTTTCG
* *
32657246 TTTAACCCTAATGGG-TTTCAGTTTAGCTCTTTTGAGCTTTAC
1 TTTAACCCTAATGGGTTTTC-GTTCAGCTCTTATGAGCTTTAC
* *
32657288 TTTAACCCTTATGGGTTTTCGTTCAGCTCTTATGAGC-TTCC
1 TTTAACCCTAATGGGTTTTCGTTCAGCTCTTATGAGCTTTAC
* *
32657329 GTTCAACCCTTATGGGTTTT
1 -TTTAACCCTAATGGGTTTT
32657349 TGTTTAGAAC
Statistics
Matches: 54, Mismatches: 5, Indels: 4
0.86 0.08 0.06
Matches are distributed among these distances:
41 3 0.06
42 47 0.87
43 4 0.07
ACGTcount: A:0.17, C:0.21, G:0.17, T:0.45
Consensus pattern (42 bp):
TTTAACCCTAATGGGTTTTCGTTCAGCTCTTATGAGCTTTAC
Found at i:32657321 original size:21 final size:21
Alignment explanation
Indices: 32657291--32657348 Score: 71
Period size: 21 Copynumber: 2.8 Consensus size: 21
32657281 GCTTTACTTT
32657291 AACCCTTATGGGTTTTCGTTC
1 AACCCTTATGGGTTTTCGTTC
* * * * *
32657312 AGCTCTTATGAGCTTCCGTTC
1 AACCCTTATGGGTTTTCGTTC
32657333 AACCCTTATGGGTTTT
1 AACCCTTATGGGTTTT
32657349 TGTTTAGAAC
Statistics
Matches: 27, Mismatches: 10, Indels: 0
0.73 0.27 0.00
Matches are distributed among these distances:
21 27 1.00
ACGTcount: A:0.16, C:0.24, G:0.19, T:0.41
Consensus pattern (21 bp):
AACCCTTATGGGTTTTCGTTC
Found at i:32659153 original size:17 final size:17
Alignment explanation
Indices: 32659127--32659159 Score: 57
Period size: 17 Copynumber: 1.9 Consensus size: 17
32659117 GTTAGTGCAC
*
32659127 ATTGTTATTGCATTTTT
1 ATTGTCATTGCATTTTT
32659144 ATTGTCATTGCATTTT
1 ATTGTCATTGCATTTT
32659160 AATGTTAGTG
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
17 15 1.00
ACGTcount: A:0.18, C:0.09, G:0.12, T:0.61
Consensus pattern (17 bp):
ATTGTCATTGCATTTTT
Found at i:32659171 original size:16 final size:16
Alignment explanation
Indices: 32659129--32659173 Score: 54
Period size: 16 Copynumber: 2.8 Consensus size: 16
32659119 TAGTGCACAT
*
32659129 TGTTATTGCATTTTTAT
1 TGTTATTGCA-TTTTAA
*
32659146 TGTCATTGCATTTTAA
1 TGTTATTGCATTTTAA
*
32659162 TGTTAGTGCATT
1 TGTTATTGCATT
32659174 GGGGACAATG
Statistics
Matches: 24, Mismatches: 4, Indels: 1
0.83 0.14 0.03
Matches are distributed among these distances:
16 15 0.62
17 9 0.38
ACGTcount: A:0.20, C:0.09, G:0.16, T:0.56
Consensus pattern (16 bp):
TGTTATTGCATTTTAA
Found at i:32660774 original size:16 final size:16
Alignment explanation
Indices: 32660753--32660785 Score: 57
Period size: 16 Copynumber: 2.1 Consensus size: 16
32660743 TGATAATAAT
*
32660753 TAATATATATTATTTA
1 TAATATATATTAATTA
32660769 TAATATATATTAATTA
1 TAATATATATTAATTA
32660785 T
1 T
32660786 TATCAACTTT
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
16 16 1.00
ACGTcount: A:0.45, C:0.00, G:0.00, T:0.55
Consensus pattern (16 bp):
TAATATATATTAATTA
Found at i:32671845 original size:14 final size:15
Alignment explanation
Indices: 32671823--32671851 Score: 51
Period size: 14 Copynumber: 2.0 Consensus size: 15
32671813 TTTTTCTATG
32671823 TTTATTATGTGTGAA
1 TTTATTATGTGTGAA
32671838 TTTA-TATGTGTGAA
1 TTTATTATGTGTGAA
32671852 AGTTTTGTGA
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
14 10 0.71
15 4 0.29
ACGTcount: A:0.28, C:0.00, G:0.21, T:0.52
Consensus pattern (15 bp):
TTTATTATGTGTGAA
Found at i:32673045 original size:43 final size:43
Alignment explanation
Indices: 32672991--32673120 Score: 158
Period size: 43 Copynumber: 3.0 Consensus size: 43
32672981 CATAGAATTT
* *
32672991 TCGAGATGTG-TTATCGTGTAAGACCATGTCTGGGACGTTTGCA
1 TCGATATGTGTTTA-CGTGTAAGACCATGTCTGGGACGTTGGCA
*
32673034 TCGACT-TGTGTTTACGTGTAAGACCCTGTCTGGGACAG-TGGCA
1 TCGA-TATGTGTTTACGTGTAAGACCATGTCTGGGAC-GTTGGCA
* * *
32673077 TCGATATGTGTTTACATGTAAGACCACGTCAGGGACGTTGGCA
1 TCGATATGTGTTTACGTGTAAGACCATGTCTGGGACGTTGGCA
32673120 T
1 T
32673121 TGTACGAGTT
Statistics
Matches: 75, Mismatches: 7, Indels: 10
0.82 0.08 0.11
Matches are distributed among these distances:
42 2 0.03
43 69 0.92
44 4 0.05
ACGTcount: A:0.22, C:0.18, G:0.29, T:0.31
Consensus pattern (43 bp):
TCGATATGTGTTTACGTGTAAGACCATGTCTGGGACGTTGGCA
Found at i:32678165 original size:12 final size:11
Alignment explanation
Indices: 32678145--32678180 Score: 56
Period size: 12 Copynumber: 3.3 Consensus size: 11
32678135 ACATGTTGAA
32678145 TTTTAATTAAT
1 TTTTAATTAAT
32678156 TTTATAATTAAT
1 TTT-TAATTAAT
32678168 TTTT-ATTAAT
1 TTTTAATTAAT
32678178 TTT
1 TTT
32678181 GAGTTATTTT
Statistics
Matches: 24, Mismatches: 0, Indels: 3
0.89 0.00 0.11
Matches are distributed among these distances:
10 9 0.38
11 4 0.17
12 11 0.46
ACGTcount: A:0.33, C:0.00, G:0.00, T:0.67
Consensus pattern (11 bp):
TTTTAATTAAT
Found at i:32686174 original size:25 final size:25
Alignment explanation
Indices: 32686133--32686227 Score: 129
Period size: 25 Copynumber: 3.8 Consensus size: 25
32686123 ATGCTCATAT
* *
32686133 GAGCTTAA-AATGGTAAGCTCTTCC
1 GAGCTGAATAATGGTAAGCTCCTCC
* *
32686157 GAGCTGAACAATGGTAAGCTCCTCT
1 GAGCTGAATAATGGTAAGCTCCTCC
32686182 GAGCTGAATAATGGTAAGCTCCTCC
1 GAGCTGAATAATGGTAAGCTCCTCC
* *
32686207 AAGCTGAATAATAGTAAGCTC
1 GAGCTGAATAATGGTAAGCTC
32686228 ATACGATCTA
Statistics
Matches: 63, Mismatches: 7, Indels: 1
0.89 0.10 0.01
Matches are distributed among these distances:
24 7 0.11
25 56 0.89
ACGTcount: A:0.32, C:0.21, G:0.22, T:0.25
Consensus pattern (25 bp):
GAGCTGAATAATGGTAAGCTCCTCC
Found at i:32705246 original size:16 final size:16
Alignment explanation
Indices: 32705225--32705255 Score: 53
Period size: 16 Copynumber: 1.9 Consensus size: 16
32705215 CTATGCATAC
*
32705225 AAAATATAAAAGACAG
1 AAAATACAAAAGACAG
32705241 AAAATACAAAAGACA
1 AAAATACAAAAGACA
32705256 TGATAGTGAA
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
16 14 1.00
ACGTcount: A:0.71, C:0.10, G:0.10, T:0.10
Consensus pattern (16 bp):
AAAATACAAAAGACAG
Found at i:32711961 original size:19 final size:19
Alignment explanation
Indices: 32711937--32712029 Score: 77
Period size: 19 Copynumber: 5.1 Consensus size: 19
32711927 AATAAATTAC
*
32711937 TCATCTTAGTTAATTGAGT
1 TCATCTTAGTTAATTAAGT
*
32711956 TCATCTTATTTAATTAAGT
1 TCATCTTAGTTAATTAAGT
** * * *
32711975 TGC-T-GGAATAAATT-A-C
1 T-CATCTTAGTTAATTAAGT
32711991 TCATCTTAGTTAATTAAGT
1 TCATCTTAGTTAATTAAGT
*
32712010 TCATCTTAGTTAATTTAGT
1 TCATCTTAGTTAATTAAGT
32712029 T
1 T
32712030 GCTGGAATAT
Statistics
Matches: 56, Mismatches: 13, Indels: 10
0.71 0.16 0.13
Matches are distributed among these distances:
15 1 0.02
16 2 0.04
17 7 0.12
18 7 0.12
19 38 0.68
20 1 0.02
ACGTcount: A:0.30, C:0.11, G:0.12, T:0.47
Consensus pattern (19 bp):
TCATCTTAGTTAATTAAGT
Found at i:32711977 original size:54 final size:54
Alignment explanation
Indices: 32711918--32712038 Score: 215
Period size: 54 Copynumber: 2.2 Consensus size: 54
32711908 ATAAGTATTT
* *
32711918 AGTTGCTGGAATAAATTACTCATCTTAGTTAATTGAGTTCATCTTATTTAATTA
1 AGTTGCTGGAATAAATTACTCATCTTAGTTAATTAAGTTCATCTTAGTTAATTA
*
32711972 AGTTGCTGGAATAAATTACTCATCTTAGTTAATTAAGTTCATCTTAGTTAATTT
1 AGTTGCTGGAATAAATTACTCATCTTAGTTAATTAAGTTCATCTTAGTTAATTA
32712026 AGTTGCTGGAATA
1 AGTTGCTGGAATA
32712039 TTTATTGTTG
Statistics
Matches: 64, Mismatches: 3, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
54 64 1.00
ACGTcount: A:0.31, C:0.11, G:0.15, T:0.43
Consensus pattern (54 bp):
AGTTGCTGGAATAAATTACTCATCTTAGTTAATTAAGTTCATCTTAGTTAATTA
Found at i:32714634 original size:861 final size:850
Alignment explanation
Indices: 32712673--32714704 Score: 3157
Period size: 861 Copynumber: 2.4 Consensus size: 850
32712663 TGTTTAAACT
* * * *
32712673 AAACTTATCACCCTTTGGTGTGACGTTCATATACCTTTGGTTCCTATCTCTTTTGATAGTGGGTC
1 AAACTTATCACCTTTTGGTGTGGCGTTCATATACCTTTGGTTCCTATCACTTTTGATAGTGGTTC
* *
32712738 AAGGTCCTTGCTATTTTCTTTAAACT-GTAAATCACCTAAGAGCCATTTTGAGACTCGGGTCAAC
66 AAGGTCCTTGTTGTTTTCTTTAAA-TAGTAAATCACCTAAGAGCCATTTTGAGACTCGGGTCAAC
* * *
32712802 AATCCAATATTGTTGGTTCATTCTCGATCTTAGCTAAATTATCCATTATTTACTTAACCATTTTA
130 AATCCAATATTTTTGGTTCATTCTCGGTCTTAGCCAAATTATCCATTATTTACTTAACCATTTTA
*
32712867 CCTACTACCATTGTTTGAAGCCATTTATCCTATTTTGTTTCATTTAACTGAAACAAACTTATCCT
195 CCTACTACCATTGTTTGAAGCCATTTATCCTATTTTGTTTCATTTAACTGAAACGAACTTATCCT
* * * * *
32712932 TACTCAATTCACGATTGGGCAATCTAAACGAAC-CAAATTATACTGAAAGGATTTCGTATCATTT
260 TACTCAATTCACGA-TCGGCAATCTAAACG-ACTCAAATTATGCCG-AATGAGTTCGTATCATTT
*
32712996 GGTATCAGAGCTAGTGAAATTGAAGTGAGTATTGATGTTCGTAGCATTACGAGATTATAAGAGAT
322 GGTATCAGAGCTAGTGAAATTGAAGTGAGTATTGACGTTCGTAGCATTACGAGATTATAAGAGAT
* * * *
32713061 AAGAAAAATTTAGTTTCTATTGAGTTCAAAAAGTGCGAAAATCAGCATTCGGGGTACTAATTCAT
387 AAAAAAAATTCAGTTTCTATTGAGCTCAAAAAGTGCGAAAATCAGCATTCGGGGTACAAATTCAT
*
32713126 GGATTAAAAAAACTAGTTTGGAAATTTCTTCTTGCTGCCCGAAGTCACTTATCCACCCTCCGACC
452 GGATTAAAAAAACTAGTTTGGAAATTGCTTCTTGCTGCCCGAAGTCACTTATCCACCCTCCGACC
* *
32713191 TTTCAGCCACACTTACATCTTTTTTCCTTTTTTTGTTTTCTAGCCTACCCTTCGTCCTAATAATA
517 TTTCAGCCACACTTACATCTTTTTTCCTTTGTTTGTTTTCTAGCCTACCCTTCGTCCTAACAATA
* * *
32713256 TTACCTACCCATAATCATTTTTGCAAGCTAACCCACATCACCTTCTGCTAAGTTAAAATAGTTCA
582 TTACATACCCATAATCATTTTTGCAAGCCAACCCACATCACCTTCCGCTAAGTTAAAATAGTTCA
32713321 TTGCGAACATAAAGAGGCAGATTGAGCAAAAAAGGACAAGAGAGTGGTAAGTCTATTCGAGTGAA
647 TTGCGAACATAAAGAGGCAGATTGAGCAAAAAAGGACAAGAGAGTGGTAAGTCTATTCGAGTGAA
* * *
32713386 CAAAAGCCAAGTGAGTGAATTTTCTTTGGAGAGAAATAGTGAGGTTTTTGTTTGTGTGAACTTAA
712 AAAAAGCCAAGTGAATGAATTTTCTTTGGAGAGAAATAGTGAGCTTTTTGTTTGTGTGAACTTAA
* *
32713451 GATGTTAAGAAGTCCGAAAAGAAACCCAAACGAGGGAAGTAGTTTTCAACATATAAGAAATGTTG
777 GATGTCAAGAAGTCCGAAAAGAAACCCAAACGAAGGAAGTAGTTTTCAACATATAAGAAATGTTG
32713516 GTAGAGACG
842 GTAGAGACG
*
32713525 AAACTTATCACCTTTTGCTGTGGCGTTCATATACCTTTGGTTCCTATCACTTTTGATAGTGGTTC
1 AAACTTATCACCTTTTGGTGTGGCGTTCATATACCTTTGGTTCCTATCACTTTTGATAGTGGTTC
* * *
32713590 AAGGTCCATGTTGTTTTCTTTAAACAGTAAATCACCTAAGAGCCATTTTTAGACTCGGGTCAACA
66 AAGGTCCTTGTTGTTTTCTTTAAATAGTAAATCACCTAAGAGCCATTTTGAGACTCGGGTCAACA
* * *
32713655 ATCCAATATTTTT-CTTCAATCTCGGTCTTAGCCAAATTATCCATTATTTACTTAACCATTTTTC
131 ATCCAATATTTTTGGTTCATTCTCGGTCTTAGCCAAATTATCCATTATTTACTTAACCATTTTAC
32713719 CTACTACCAGTT-TTTGAAGCCATTTATCCTATTTTGTTTCATTTAACTGAAACGAACTTATCCT
196 CTACTACCA-TTGTTTGAAGCCATTTATCCTATTTTGTTTCATTTAACTGAAACGAACTTATCCT
*
32713783 TACTCAATTCACGATCGGCAATCTAAATGACTCAAATTATGCCGAATCGAGTTCGTATCATTTGG
260 TACTCAATTCACGATCGGCAATCTAAACGACTCAAATTATGCCGAAT-GAGTTCGTATCATTTGG
* * *
32713848 TGTCAGAGCTAGTGAAATTGAAGTGAGTTTTGACGTTCGTAGCATTACGAGATTGTAAGAGATAA
324 TATCAGAGCTAGTGAAATTGAAGTGAGTATTGACGTTCGTAGCATTACGAGATTATAAGAGAT-A
* *
32713913 AAAAAAATTCAGTTTCTATTGAGCTCAAAAAGTGTGAAAATCAGCATTTGGGGTACAAAATTCAT
388 AAAAAAATTCAGTTTCTATTGAGCTCAAAAAGTGCGAAAATCAGCATTCGGGGTAC-AAATTCAT
* *
32713978 GGATTAAAAAAAAGCTAGTTTGGAAATTGCTTTTTGCTGCCCGAAGTCACTTATCCACCCTCCTA
452 GGATT-AAAAAAA-CTAGTTTGGAAATTGCTTCTTGCTGCCCGAAGTCACTTATCCACCCTCCGA
*
32714043 CCATTT-GGCCACACTTACATCTTTTTTCCTTTGTTTGTTTTCTAGCCTACCCTTCGTCCTAACA
515 CC-TTTCAGCCACACTTACATCTTTTTTCCTTTGTTTGTTTTCTAGCCTACCCTTCGTCCTAACA
* * *
32714107 ATATTACATACCCATAACTGAACATCATTTTTGCAAGCCGACCCATATCGCCTTCCGCTAAGTTA
579 ATATTACATACCC---A-T--A-ATCATTTTTGCAAGCCAACCCACATCACCTTCCGCTAAGTTA
* * *
32714172 AAATAG-TCTATTGCGAACATAGAGAGG-AGGATTGAGAGAAAAAAGG-CAAGAGAGTGGTGAGT
637 AAATAGTTC-ATTGCGAACATAAAGAGGCA-GATTGAG-CAAAAAAGGACAAGAGAGTGGTAAGT
* *
32714234 CTATTCGAGTGAAAAAAAGCCAAGTGAATGAATTTTCTTTGGAGATAAATAGTG-GCTTTTTTTT
699 CTATTCGAGTGAAAAAAAGCCAAGTGAATGAATTTTCTTTGGAGAGAAATAGTGAGCTTTTTGTT
* *
32714298 TGTGTGAACTTAAGATGTCAAGAAGTCCGAAAAGAAACCCAAACGAAGGAAGTGGTTTTCAACCT
764 TGTGTGAACTTAAGATGTCAAGAAGTCCGAAAAGAAACCCAAACGAAGGAAGTAGTTTTCAACAT
* * *
32714363 ATAAGGAATGTTGGTGGAGGCG
829 ATAAGAAATGTTGGTAGAGACG
*
32714385 AAACTTATCACCTTTTGGTGTGGCATTCATATACCTTTGGTTCCTATCACTTTTGATAGTGGTTC
1 AAACTTATCACCTTTTGGTGTGGCGTTCATATACCTTTGGTTCCTATCACTTTTGATAGTGGTTC
* *
32714450 AAGTTCCTTGTTGTTTTCTTTAAATAGTAAATCACCTAAGAGCCATTTTGAGACCCGGGTCAACA
66 AAGGTCCTTGTTGTTTTCTTTAAATAGTAAATCACCTAAGAGCCATTTTGAGACTCGGGTCAACA
* * * *
32714515 ATCCAATATTTTTGGTTCATTCTCGGTCTTAACCAAATCATCTATTATTTACTTAATCATTTTAC
131 ATCCAATATTTTTGGTTCATTCTCGGTCTTAGCCAAATTATCCATTATTTACTTAACCATTTTAC
*
32714580 CTACTACCATTGTTTGAAGCCATTTATCCTATTTTTTTTCATTTAA-TCGAAACGAACTTATCCT
196 CTACTACCATTGTTTGAAGCCATTTATCCTATTTTGTTTCATTTAACT-GAAACGAACTTATCCT
*
32714644 TACTCAATTCACGATCGGGCAATCTAAACAACTCAAATTATGCCGAAATGAGTTCGTATCA
260 TACTCAATTCACGATC-GGCAATCTAAACGACTCAAATTATGCCG-AATGAGTTCGTATCA
32714705 AATGTATTTC
Statistics
Matches: 1079, Mismatches: 77, Indels: 38
0.90 0.06 0.03
Matches are distributed among these distances:
849 4 0.00
850 98 0.09
851 172 0.16
852 145 0.13
853 7 0.01
854 117 0.11
855 3 0.00
857 1 0.00
858 1 0.00
860 231 0.21
861 251 0.23
862 46 0.04
863 3 0.00
ACGTcount: A:0.30, C:0.19, G:0.17, T:0.34
Consensus pattern (850 bp):
AAACTTATCACCTTTTGGTGTGGCGTTCATATACCTTTGGTTCCTATCACTTTTGATAGTGGTTC
AAGGTCCTTGTTGTTTTCTTTAAATAGTAAATCACCTAAGAGCCATTTTGAGACTCGGGTCAACA
ATCCAATATTTTTGGTTCATTCTCGGTCTTAGCCAAATTATCCATTATTTACTTAACCATTTTAC
CTACTACCATTGTTTGAAGCCATTTATCCTATTTTGTTTCATTTAACTGAAACGAACTTATCCTT
ACTCAATTCACGATCGGCAATCTAAACGACTCAAATTATGCCGAATGAGTTCGTATCATTTGGTA
TCAGAGCTAGTGAAATTGAAGTGAGTATTGACGTTCGTAGCATTACGAGATTATAAGAGATAAAA
AAAATTCAGTTTCTATTGAGCTCAAAAAGTGCGAAAATCAGCATTCGGGGTACAAATTCATGGAT
TAAAAAAACTAGTTTGGAAATTGCTTCTTGCTGCCCGAAGTCACTTATCCACCCTCCGACCTTTC
AGCCACACTTACATCTTTTTTCCTTTGTTTGTTTTCTAGCCTACCCTTCGTCCTAACAATATTAC
ATACCCATAATCATTTTTGCAAGCCAACCCACATCACCTTCCGCTAAGTTAAAATAGTTCATTGC
GAACATAAAGAGGCAGATTGAGCAAAAAAGGACAAGAGAGTGGTAAGTCTATTCGAGTGAAAAAA
AGCCAAGTGAATGAATTTTCTTTGGAGAGAAATAGTGAGCTTTTTGTTTGTGTGAACTTAAGATG
TCAAGAAGTCCGAAAAGAAACCCAAACGAAGGAAGTAGTTTTCAACATATAAGAAATGTTGGTAG
AGACG
Found at i:32720377 original size:17 final size:17
Alignment explanation
Indices: 32720342--32720373 Score: 57
Period size: 17 Copynumber: 1.9 Consensus size: 17
32720332 AATGAGATAC
32720342 AAATAAATAACGAAAAT
1 AAATAAATAACGAAAAT
32720359 AAATAAATAA-GAAAA
1 AAATAAATAACGAAAA
32720374 ATAATCAAAC
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
16 5 0.33
17 10 0.67
ACGTcount: A:0.75, C:0.03, G:0.06, T:0.16
Consensus pattern (17 bp):
AAATAAATAACGAAAAT
Found at i:32721499 original size:19 final size:21
Alignment explanation
Indices: 32721457--32721499 Score: 54
Period size: 19 Copynumber: 2.1 Consensus size: 21
32721447 ATTTAATCCT
*
32721457 AAATACTGAAAATGCAATATA
1 AAATACTGAAAATGCAATAGA
*
32721478 AAATACT-AAATTGC-ATAGA
1 AAATACTGAAAATGCAATAGA
32721497 AAA
1 AAA
32721500 CAAGCTCCTT
Statistics
Matches: 20, Mismatches: 2, Indels: 2
0.83 0.08 0.08
Matches are distributed among these distances:
19 7 0.35
20 6 0.30
21 7 0.35
ACGTcount: A:0.58, C:0.09, G:0.09, T:0.23
Consensus pattern (21 bp):
AAATACTGAAAATGCAATAGA
Found at i:32724433 original size:24 final size:23
Alignment explanation
Indices: 32724378--32724422 Score: 65
Period size: 23 Copynumber: 2.0 Consensus size: 23
32724368 GAATAGAGAT
* *
32724378 TTGTC-GCATTTTTCCTGGCAGA
1 TTGTCTGCATTTTTACTAGCAGA
32724400 TTGTCTGCATTTTTACTAGCAGA
1 TTGTCTGCATTTTTACTAGCAGA
32724423 ATTTTTTGCA
Statistics
Matches: 20, Mismatches: 2, Indels: 1
0.87 0.09 0.04
Matches are distributed among these distances:
22 5 0.25
23 15 0.75
ACGTcount: A:0.18, C:0.20, G:0.20, T:0.42
Consensus pattern (23 bp):
TTGTCTGCATTTTTACTAGCAGA
Found at i:32727118 original size:29 final size:30
Alignment explanation
Indices: 32727076--32727142 Score: 75
Period size: 29 Copynumber: 2.2 Consensus size: 30
32727066 AGATTTTAAA
32727076 TTTAGGGACTAAAT-TGTAAAAAATGTAAAAT
1 TTTAGGGAC-AAATATGTAAAAAATG-AAAAT
**
32727107 TTTAGGGA-AAATATGTAATTAATGAAAAT
1 TTTAGGGACAAATATGTAAAAAATGAAAAT
*
32727136 TTAAGGG
1 TTTAGGG
32727143 CCATATACAT
Statistics
Matches: 32, Mismatches: 3, Indels: 4
0.82 0.08 0.10
Matches are distributed among these distances:
29 15 0.47
30 9 0.28
31 8 0.25
ACGTcount: A:0.46, C:0.01, G:0.19, T:0.33
Consensus pattern (30 bp):
TTTAGGGACAAATATGTAAAAAATGAAAAT
Done.