Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: At_chr13
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: 91551117
ACGTcount: A:0.32, C:0.17, G:0.17, T:0.32
Warning! 2824764 characters in sequence are not A, C, G, or T
File 232 of 276
Found at i:76824977 original size:26 final size:26
Alignment explanation
Indices: 76824948--76824999 Score: 95
Period size: 26 Copynumber: 2.0 Consensus size: 26
76824938 ACCAACATAG
76824948 AAGTTAGGAACAAATCGAAACCCGAT
1 AAGTTAGGAACAAATCGAAACCCGAT
*
76824974 AAGTTAGGAACAAATCGAGACCCGAT
1 AAGTTAGGAACAAATCGAAACCCGAT
76825000 TAGAAATTCT
Statistics
Matches: 25, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
26 25 1.00
ACGTcount: A:0.44, C:0.19, G:0.21, T:0.15
Consensus pattern (26 bp):
AAGTTAGGAACAAATCGAAACCCGAT
Found at i:76829388 original size:20 final size:19
Alignment explanation
Indices: 76829338--76829388 Score: 52
Period size: 20 Copynumber: 2.6 Consensus size: 19
76829328 TCTTTTTTTT
76829338 TCCA-TTCTTTTCTCCTTC
1 TCCATTTCTTTTCTCCTTC
*
76829356 TCCCTCTAT-TTTTCTCTCTTC
1 TCCAT-T-TCTTTTCTC-CTTC
76829377 TCCATTTCTTTT
1 TCCATTTCTTTT
76829389 AACGTAGTTT
Statistics
Matches: 26, Mismatches: 2, Indels: 8
0.72 0.06 0.22
Matches are distributed among these distances:
18 3 0.12
19 1 0.04
20 13 0.50
21 9 0.35
ACGTcount: A:0.06, C:0.35, G:0.00, T:0.59
Consensus pattern (19 bp):
TCCATTTCTTTTCTCCTTC
Found at i:76829388 original size:21 final size:20
Alignment explanation
Indices: 76829345--76829388 Score: 52
Period size: 21 Copynumber: 2.1 Consensus size: 20
76829335 TTTTCCATTC
* * *
76829345 TTTTCTCCTTCTCCCTCTAT
1 TTTTCTCCTTCTCCATTTCT
76829365 TTTTCTCTCTTCTCCATTTCT
1 TTTTCTC-CTTCTCCATTTCT
76829386 TTT
1 TTT
76829389 AACGTAGTTT
Statistics
Matches: 20, Mismatches: 3, Indels: 1
0.83 0.12 0.04
Matches are distributed among these distances:
20 7 0.35
21 13 0.65
ACGTcount: A:0.05, C:0.34, G:0.00, T:0.61
Consensus pattern (20 bp):
TTTTCTCCTTCTCCATTTCT
Found at i:76831120 original size:7 final size:7
Alignment explanation
Indices: 76831108--76831138 Score: 62
Period size: 7 Copynumber: 4.4 Consensus size: 7
76831098 TTTTGTTAAT
76831108 TTTAAAA
1 TTTAAAA
76831115 TTTAAAA
1 TTTAAAA
76831122 TTTAAAA
1 TTTAAAA
76831129 TTTAAAA
1 TTTAAAA
76831136 TTT
1 TTT
76831139 GGATTTTGAA
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 24 1.00
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (7 bp):
TTTAAAA
Found at i:76846681 original size:41 final size:41
Alignment explanation
Indices: 76846636--76846716 Score: 110
Period size: 41 Copynumber: 2.0 Consensus size: 41
76846626 AAACATTCAA
* * * *
76846636 ATTGAATCCTT-AAATTAAAGTATAATTCTAATCAGAATATC
1 ATTGAAT-CTTCAAATTAAAATAAAACTCTAATCAAAATATC
76846677 ATTGAATCTTCAAATTAAAATAAAACTCTAATCAAAATAT
1 ATTGAATCTTCAAATTAAAATAAAACTCTAATCAAAATAT
76846717 TCCATTATCA
Statistics
Matches: 35, Mismatches: 4, Indels: 2
0.85 0.10 0.05
Matches are distributed among these distances:
40 3 0.09
41 32 0.91
ACGTcount: A:0.48, C:0.12, G:0.05, T:0.35
Consensus pattern (41 bp):
ATTGAATCTTCAAATTAAAATAAAACTCTAATCAAAATATC
Found at i:76847927 original size:41 final size:41
Alignment explanation
Indices: 76847882--76847962 Score: 110
Period size: 41 Copynumber: 2.0 Consensus size: 41
76847872 AAACATTCAA
* * * *
76847882 ATTGAATCCTT-AAATTAAAGTATAATTCTAATCAGAATATC
1 ATTGAAT-CTTCAAATTAAAATAAAACTCTAATCAAAATATC
76847923 ATTGAATCTTCAAATTAAAATAAAACTCTAATCAAAATAT
1 ATTGAATCTTCAAATTAAAATAAAACTCTAATCAAAATAT
76847963 TCCATTATCA
Statistics
Matches: 35, Mismatches: 4, Indels: 2
0.85 0.10 0.05
Matches are distributed among these distances:
40 3 0.09
41 32 0.91
ACGTcount: A:0.48, C:0.12, G:0.05, T:0.35
Consensus pattern (41 bp):
ATTGAATCTTCAAATTAAAATAAAACTCTAATCAAAATATC
Found at i:76849518 original size:20 final size:20
Alignment explanation
Indices: 76849495--76849542 Score: 71
Period size: 19 Copynumber: 2.5 Consensus size: 20
76849485 TAAATATTTA
*
76849495 ATATTAGAAAGGAATAAATT
1 ATATTAGAAACGAATAAATT
*
76849515 ATATTAG-AACTAATAAATT
1 ATATTAGAAACGAATAAATT
76849534 ATATTAGAA
1 ATATTAGAA
76849543 CCATCCTAAA
Statistics
Matches: 25, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
19 17 0.68
20 8 0.32
ACGTcount: A:0.54, C:0.02, G:0.10, T:0.33
Consensus pattern (20 bp):
ATATTAGAAACGAATAAATT
Found at i:76849531 original size:19 final size:19
Alignment explanation
Indices: 76849507--76849543 Score: 74
Period size: 19 Copynumber: 1.9 Consensus size: 19
76849497 ATTAGAAAGG
76849507 AATAAATTATATTAGAACT
1 AATAAATTATATTAGAACT
76849526 AATAAATTATATTAGAAC
1 AATAAATTATATTAGAAC
76849544 CATCCTAAAA
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
19 18 1.00
ACGTcount: A:0.54, C:0.05, G:0.05, T:0.35
Consensus pattern (19 bp):
AATAAATTATATTAGAACT
Found at i:76851103 original size:26 final size:25
Alignment explanation
Indices: 76851064--76851171 Score: 171
Period size: 26 Copynumber: 4.2 Consensus size: 25
76851054 TGATACAAAT
76851064 TGATAATAGGTTAGGTAAATGTTCCA
1 TGATAAT-GGTTAGGTAAATGTTCCA
*
76851090 TGATAATGGATTAGGTAAATATTCCA
1 TGATAATGG-TTAGGTAAATGTTCCA
76851116 TGATAATGGGTTAGGTAAATGTTCCA
1 TGATAAT-GGTTAGGTAAATGTTCCA
76851142 TGATAATGGTTTAGGTAAATGTTCCA
1 TGATAATGG-TTAGGTAAATGTTCCA
76851168 TGAT
1 TGAT
76851172 GGGAATTTCA
Statistics
Matches: 77, Mismatches: 2, Indels: 6
0.91 0.02 0.07
Matches are distributed among these distances:
25 4 0.05
26 71 0.92
27 2 0.03
ACGTcount: A:0.33, C:0.07, G:0.23, T:0.36
Consensus pattern (25 bp):
TGATAATGGTTAGGTAAATGTTCCA
Found at i:76851121 original size:52 final size:52
Alignment explanation
Indices: 76851064--76851171 Score: 189
Period size: 52 Copynumber: 2.1 Consensus size: 52
76851054 TGATACAAAT
76851064 TGATAATAGGTTAGGTAAATGTTCCATGATAATGGATTAGGTAAATATTCCA
1 TGATAATAGGTTAGGTAAATGTTCCATGATAATGGATTAGGTAAATATTCCA
* * *
76851116 TGATAATGGGTTAGGTAAATGTTCCATGATAATGGTTTAGGTAAATGTTCCA
1 TGATAATAGGTTAGGTAAATGTTCCATGATAATGGATTAGGTAAATATTCCA
76851168 TGAT
1 TGAT
76851172 GGGAATTTCA
Statistics
Matches: 53, Mismatches: 3, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
52 53 1.00
ACGTcount: A:0.33, C:0.07, G:0.23, T:0.36
Consensus pattern (52 bp):
TGATAATAGGTTAGGTAAATGTTCCATGATAATGGATTAGGTAAATATTCCA
Found at i:76857719 original size:26 final size:26
Alignment explanation
Indices: 76857690--76857797 Score: 189
Period size: 26 Copynumber: 4.2 Consensus size: 26
76857680 TGGTACAAAT
76857690 TGATAATGGGTTAGGTAAATGTTCCA
1 TGATAATGGGTTAGGTAAATGTTCCA
* *
76857716 TGATAATGGATTAGGTAAATATTCCA
1 TGATAATGGGTTAGGTAAATGTTCCA
76857742 TGATAATGGGTTAGGTAAATGTTCCA
1 TGATAATGGGTTAGGTAAATGTTCCA
*
76857768 TGATAATGGTTTAGGTAAATGTTCCA
1 TGATAATGGGTTAGGTAAATGTTCCA
76857794 TGAT
1 TGAT
76857798 GGGCATTTCA
Statistics
Matches: 77, Mismatches: 5, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
26 77 1.00
ACGTcount: A:0.32, C:0.07, G:0.24, T:0.36
Consensus pattern (26 bp):
TGATAATGGGTTAGGTAAATGTTCCA
Found at i:76863186 original size:24 final size:27
Alignment explanation
Indices: 76863132--76863195 Score: 66
Period size: 24 Copynumber: 2.5 Consensus size: 27
76863122 TTTCACTGAT
*
76863132 TTAAAAATAAAATATTTATTTTTATCA
1 TTAAAAATAAAATATTTATTTATATCA
*
76863159 -TAAAAATTAAA-A-TTATTTATAT-A
1 TTAAAAATAAAATATTTATTTATATCA
76863182 TTAAATAA-AAAATA
1 TTAAA-AATAAAATA
76863196 GAATTTTGTT
Statistics
Matches: 31, Mismatches: 3, Indels: 8
0.74 0.07 0.19
Matches are distributed among these distances:
23 1 0.03
24 16 0.52
25 4 0.13
26 10 0.32
ACGTcount: A:0.56, C:0.02, G:0.00, T:0.42
Consensus pattern (27 bp):
TTAAAAATAAAATATTTATTTATATCA
Found at i:76863189 original size:28 final size:26
Alignment explanation
Indices: 76863133--76863192 Score: 68
Period size: 28 Copynumber: 2.2 Consensus size: 26
76863123 TTCACTGATT
* *
76863133 TAAAAATAAAATATTTATTTTTATCA
1 TAAAAATAAAATATTTATTATTATAA
76863159 TAAAAATTAAAATTATTTATATATTA-AA
1 TAAAAA-TAAAA-TATTTAT-TATTATAA
76863187 TAAAAA
1 TAAAAA
76863193 ATAGAATTTT
Statistics
Matches: 29, Mismatches: 2, Indels: 4
0.83 0.06 0.11
Matches are distributed among these distances:
26 6 0.21
27 5 0.17
28 14 0.48
29 4 0.14
ACGTcount: A:0.57, C:0.02, G:0.00, T:0.42
Consensus pattern (26 bp):
TAAAAATAAAATATTTATTATTATAA
Found at i:76867417 original size:16 final size:17
Alignment explanation
Indices: 76867385--76867417 Score: 50
Period size: 17 Copynumber: 2.0 Consensus size: 17
76867375 TTTATAAGTA
*
76867385 TATATCAATCGTTTCAT
1 TATATCAATCATTTCAT
76867402 TATATCAAT-ATTTCAT
1 TATATCAATCATTTCAT
76867418 GTTCCATCAT
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
16 6 0.40
17 9 0.60
ACGTcount: A:0.33, C:0.15, G:0.03, T:0.48
Consensus pattern (17 bp):
TATATCAATCATTTCAT
Found at i:76879065 original size:2 final size:2
Alignment explanation
Indices: 76879058--76879091 Score: 68
Period size: 2 Copynumber: 17.0 Consensus size: 2
76879048 TATATCTATT
76879058 GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA
1 GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA
76879092 TGGGAGATAA
Statistics
Matches: 32, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 32 1.00
ACGTcount: A:0.50, C:0.00, G:0.50, T:0.00
Consensus pattern (2 bp):
GA
Found at i:76884230 original size:16 final size:15
Alignment explanation
Indices: 76884187--76884231 Score: 54
Period size: 15 Copynumber: 2.9 Consensus size: 15
76884177 ATAAAAGAAA
* *
76884187 TTCTTTTCTTTTCTT
1 TTCTTTTCTTTCCCT
*
76884202 TTCTTTTCCTTCCCT
1 TTCTTTTCTTTCCCT
76884217 TTCTTTTTCTTTCCC
1 TTC-TTTTCTTTCCC
76884232 ATCAACAATC
Statistics
Matches: 25, Mismatches: 4, Indels: 1
0.83 0.13 0.03
Matches are distributed among these distances:
15 15 0.60
16 10 0.40
ACGTcount: A:0.00, C:0.31, G:0.00, T:0.69
Consensus pattern (15 bp):
TTCTTTTCTTTCCCT
Found at i:76885654 original size:23 final size:22
Alignment explanation
Indices: 76885628--76885670 Score: 61
Period size: 23 Copynumber: 1.9 Consensus size: 22
76885618 AAACTCATAT
76885628 TATTATTTAA-AATTAATATTTTA
1 TATT-TTTAATAATTAA-ATTTTA
76885651 TATTTTTAATAATTAAATTT
1 TATTTTTAATAATTAAATTT
76885671 AACTAAAAAT
Statistics
Matches: 19, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
22 9 0.47
23 10 0.53
ACGTcount: A:0.42, C:0.00, G:0.00, T:0.58
Consensus pattern (22 bp):
TATTTTTAATAATTAAATTTTA
Found at i:76891800 original size:15 final size:15
Alignment explanation
Indices: 76891780--76891810 Score: 62
Period size: 15 Copynumber: 2.1 Consensus size: 15
76891770 GCAAAAGAAA
76891780 ACAAAAAGGAAAAGG
1 ACAAAAAGGAAAAGG
76891795 ACAAAAAGGAAAAGG
1 ACAAAAAGGAAAAGG
76891810 A
1 A
76891811 GATTTGAGAA
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 16 1.00
ACGTcount: A:0.68, C:0.06, G:0.26, T:0.00
Consensus pattern (15 bp):
ACAAAAAGGAAAAGG
Found at i:76892895 original size:15 final size:16
Alignment explanation
Indices: 76892865--76892903 Score: 53
Period size: 15 Copynumber: 2.4 Consensus size: 16
76892855 GAGTTAAAAT
76892865 ATAATTTTATTATTTTA
1 ATAA-TTTATTATTTTA
*
76892882 ATAATTTA-TATTTTT
1 ATAATTTATTATTTTA
76892897 ATAATTT
1 ATAATTT
76892904 TTTAAATGAT
Statistics
Matches: 21, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
15 13 0.62
16 4 0.19
17 4 0.19
ACGTcount: A:0.36, C:0.00, G:0.00, T:0.64
Consensus pattern (16 bp):
ATAATTTATTATTTTA
Found at i:76900893 original size:21 final size:21
Alignment explanation
Indices: 76900868--76900910 Score: 86
Period size: 21 Copynumber: 2.0 Consensus size: 21
76900858 CTAAATTTGA
76900868 AAAGTGTAAGAGCTAGAAATT
1 AAAGTGTAAGAGCTAGAAATT
76900889 AAAGTGTAAGAGCTAGAAATT
1 AAAGTGTAAGAGCTAGAAATT
76900910 A
1 A
76900911 TCAAATTGGT
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
21 22 1.00
ACGTcount: A:0.49, C:0.05, G:0.23, T:0.23
Consensus pattern (21 bp):
AAAGTGTAAGAGCTAGAAATT
Found at i:76901429 original size:11 final size:11
Alignment explanation
Indices: 76901386--76901432 Score: 51
Period size: 11 Copynumber: 4.2 Consensus size: 11
76901376 AGTTAATTCG
76901386 ATTTCATTAAATA
1 ATTT-ATTAAA-A
* *
76901399 AATTATTTAAA
1 ATTTATTAAAA
76901410 ATTTA-TAAAA
1 ATTTATTAAAA
76901420 ATTTATTAAAA
1 ATTTATTAAAA
76901431 AT
1 AT
76901433 AGAAAAAATG
Statistics
Matches: 29, Mismatches: 4, Indels: 4
0.78 0.11 0.11
Matches are distributed among these distances:
10 9 0.31
11 12 0.41
12 5 0.17
13 3 0.10
ACGTcount: A:0.53, C:0.02, G:0.00, T:0.45
Consensus pattern (11 bp):
ATTTATTAAAA
Found at i:76902241 original size:20 final size:19
Alignment explanation
Indices: 76902218--76902260 Score: 50
Period size: 20 Copynumber: 2.2 Consensus size: 19
76902208 TAAAAATGTA
76902218 ATATTATTATAAAAATATTT
1 ATATTATTATAAAAA-ATTT
* * *
76902238 ATATTTTTTTAAATAATTT
1 ATATTATTATAAAAAATTT
76902257 ATAT
1 ATAT
76902261 AAAATCATTA
Statistics
Matches: 20, Mismatches: 3, Indels: 1
0.83 0.12 0.04
Matches are distributed among these distances:
19 8 0.40
20 12 0.60
ACGTcount: A:0.44, C:0.00, G:0.00, T:0.56
Consensus pattern (19 bp):
ATATTATTATAAAAAATTT
Found at i:76912327 original size:39 final size:39
Alignment explanation
Indices: 76912279--76912682 Score: 682
Period size: 39 Copynumber: 10.4 Consensus size: 39
76912269 TTGTGTGAGA
*
76912279 GTTATATCCGGGCTAAGTCCCGAAGGCATTCGTGCTAGT
1 GTTATATCCGGGCTAAGTCCCGAAGGCATTCGTGCTGGT
*
76912318 GTTATATCCGGGCTAAGTCCCGAAGGCATTTGTGCTGGT
1 GTTATATCCGGGCTAAGTCCCGAAGGCATTCGTGCTGGT
76912357 GTTATATCCGGGCTAAGTCCCGAAGGCATTCGTGCTGGT
1 GTTATATCCGGGCTAAGTCCCGAAGGCATTCGTGCTGGT
76912396 GTTATATCCGGGCTAAGTCCCGAAGGCATTCGTGCTGGT
1 GTTATATCCGGGCTAAGTCCCGAAGGCATTCGTGCTGGT
76912435 GTTATATCCGGGCTAAGTCCCGAAGGCATTCGTGCTGGT
1 GTTATATCCGGGCTAAGTCCCGAAGGCATTCGTGCTGGT
76912474 GTTATATCCGGGCTAAGTCCCGAAGGCATTCGTGCTGGT
1 GTTATATCCGGGCTAAGTCCCGAAGGCATTCGTGCTGGT
* *
76912513 GTTATATCCGGGCTAAGTCTCGAAGGCATTCGTGCTAGT
1 GTTATATCCGGGCTAAGTCCCGAAGGCATTCGTGCTGGT
* * * *
76912552 GTTATATCCGGGCTAAGCCCCAAAGGTATTTGTGCTGGT
1 GTTATATCCGGGCTAAGTCCCGAAGGCATTCGTGCTGGT
* *
76912591 GTTATATCCGGGTTAAGCCCCGAAGGCATTCGTGCTGGT
1 GTTATATCCGGGCTAAGTCCCGAAGGCATTCGTGCTGGT
* *
76912630 GTTATATCCGGGCTAAGCCCCGAAGGAATTCGTGCTGGT
1 GTTATATCCGGGCTAAGTCCCGAAGGCATTCGTGCTGGT
* *
76912669 ATTATATTCGGGCT
1 GTTATATCCGGGCT
76912683 TAAAGTCCTG
Statistics
Matches: 346, Mismatches: 19, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
39 346 1.00
ACGTcount: A:0.19, C:0.22, G:0.30, T:0.29
Consensus pattern (39 bp):
GTTATATCCGGGCTAAGTCCCGAAGGCATTCGTGCTGGT
Found at i:76916118 original size:15 final size:15
Alignment explanation
Indices: 76916098--76916128 Score: 62
Period size: 15 Copynumber: 2.1 Consensus size: 15
76916088 CAATTATGAC
76916098 ATGCAATGTATCTAA
1 ATGCAATGTATCTAA
76916113 ATGCAATGTATCTAA
1 ATGCAATGTATCTAA
76916128 A
1 A
76916129 ACACGTAAAC
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 16 1.00
ACGTcount: A:0.42, C:0.13, G:0.13, T:0.32
Consensus pattern (15 bp):
ATGCAATGTATCTAA
Found at i:76916508 original size:35 final size:35
Alignment explanation
Indices: 76916462--76916531 Score: 140
Period size: 35 Copynumber: 2.0 Consensus size: 35
76916452 AAGTTTAAGA
76916462 ACATTTAGTGAAATTAACCCGATAATATGGTGCAT
1 ACATTTAGTGAAATTAACCCGATAATATGGTGCAT
76916497 ACATTTAGTGAAATTAACCCGATAATATGGTGCAT
1 ACATTTAGTGAAATTAACCCGATAATATGGTGCAT
76916532 TTTTAGTTTC
Statistics
Matches: 35, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
35 35 1.00
ACGTcount: A:0.37, C:0.14, G:0.17, T:0.31
Consensus pattern (35 bp):
ACATTTAGTGAAATTAACCCGATAATATGGTGCAT
Found at i:76919499 original size:32 final size:32
Alignment explanation
Indices: 76919460--76919619 Score: 257
Period size: 32 Copynumber: 5.0 Consensus size: 32
76919450 CATAAAAAAT
*
76919460 ATCATACATTAGGTTTACATATAAAAAAGTAG
1 ATCATACATTAGTTTTACATATAAAAAAGTAG
* *
76919492 ATCATACATTAGTTTTGCATATAAAAATGTAG
1 ATCATACATTAGTTTTACATATAAAAAAGTAG
* *
76919524 ATCATACATTAGGTTCACATATAAAAAAGTAG
1 ATCATACATTAGTTTTACATATAAAAAAGTAG
* *
76919556 ATCATACATTAGTTTTGCATATGAAAAAGTAG
1 ATCATACATTAGTTTTACATATAAAAAAGTAG
76919588 ATCATACATTAGTTTTACATATAAAAAAGTAG
1 ATCATACATTAGTTTTACATATAAAAAAGTAG
76919620 CATAGTTATA
Statistics
Matches: 115, Mismatches: 13, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
32 115 1.00
ACGTcount: A:0.44, C:0.10, G:0.12, T:0.33
Consensus pattern (32 bp):
ATCATACATTAGTTTTACATATAAAAAAGTAG
Found at i:76919533 original size:64 final size:64
Alignment explanation
Indices: 76919460--76919619 Score: 286
Period size: 64 Copynumber: 2.5 Consensus size: 64
76919450 CATAAAAAAT
76919460 ATCATACATTAGGTTTACATATAAAAAAGTAGATCATACATTAGTTTTGCATAT-AAAAATGTAG
1 ATCATACATTAGGTTTACATATAAAAAAGTAGATCATACATTAGTTTTGCATATGAAAAA-GTAG
*
76919524 ATCATACATTAGGTTCACATATAAAAAAGTAGATCATACATTAGTTTTGCATATGAAAAAGTAG
1 ATCATACATTAGGTTTACATATAAAAAAGTAGATCATACATTAGTTTTGCATATGAAAAAGTAG
*
76919588 ATCATACATTAGTTTTACATATAAAAAAGTAG
1 ATCATACATTAGGTTTACATATAAAAAAGTAG
76919620 CATAGTTATA
Statistics
Matches: 92, Mismatches: 3, Indels: 2
0.95 0.03 0.02
Matches are distributed among these distances:
64 87 0.95
65 5 0.05
ACGTcount: A:0.44, C:0.10, G:0.12, T:0.33
Consensus pattern (64 bp):
ATCATACATTAGGTTTACATATAAAAAAGTAGATCATACATTAGTTTTGCATATGAAAAAGTAG
Found at i:76921242 original size:24 final size:27
Alignment explanation
Indices: 76921211--76921272 Score: 78
Period size: 23 Copynumber: 2.4 Consensus size: 27
76921201 AACAATTTAA
76921211 AATAATTAAAAAGAAATTT-AA-TTT-
1 AATAATTAAAAAGAAATTTAAATTTTC
* *
76921235 AATGATT-AAAATAAATTTAAATTTTC
1 AATAATTAAAAAGAAATTTAAATTTTC
76921261 AATAATTAAAAA
1 AATAATTAAAAA
76921273 TATTTATTAT
Statistics
Matches: 31, Mismatches: 3, Indels: 5
0.79 0.08 0.13
Matches are distributed among these distances:
23 10 0.32
24 8 0.26
25 3 0.10
26 6 0.19
27 4 0.13
ACGTcount: A:0.58, C:0.02, G:0.03, T:0.37
Consensus pattern (27 bp):
AATAATTAAAAAGAAATTTAAATTTTC
Found at i:76924250 original size:25 final size:25
Alignment explanation
Indices: 76924173--76924237 Score: 130
Period size: 25 Copynumber: 2.6 Consensus size: 25
76924163 ATCCATTTAC
76924173 AAACAGAGAATATGGTAGCAAGAAG
1 AAACAGAGAATATGGTAGCAAGAAG
76924198 AAACAGAGAATATGGTAGCAAGAAG
1 AAACAGAGAATATGGTAGCAAGAAG
76924223 AAACAGAGAATATGG
1 AAACAGAGAATATGG
76924238 GAATGAAAAG
Statistics
Matches: 40, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
25 40 1.00
ACGTcount: A:0.52, C:0.08, G:0.28, T:0.12
Consensus pattern (25 bp):
AAACAGAGAATATGGTAGCAAGAAG
Found at i:76925497 original size:15 final size:15
Alignment explanation
Indices: 76925477--76925506 Score: 60
Period size: 15 Copynumber: 2.0 Consensus size: 15
76925467 AGTCTAACCA
76925477 CATGTTGTGAATGGT
1 CATGTTGTGAATGGT
76925492 CATGTTGTGAATGGT
1 CATGTTGTGAATGGT
76925507 TGCACGGCAT
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 15 1.00
ACGTcount: A:0.20, C:0.07, G:0.33, T:0.40
Consensus pattern (15 bp):
CATGTTGTGAATGGT
Found at i:76927910 original size:60 final size:60
Alignment explanation
Indices: 76927837--76927958 Score: 244
Period size: 60 Copynumber: 2.0 Consensus size: 60
76927827 TTACCTAGAG
76927837 TAGGAGAGGATTGAACGAATCACCCTTGTATTTCTACTAGAGTTGTCACCCTTTGAATGT
1 TAGGAGAGGATTGAACGAATCACCCTTGTATTTCTACTAGAGTTGTCACCCTTTGAATGT
76927897 TAGGAGAGGATTGAACGAATCACCCTTGTATTTCTACTAGAGTTGTCACCCTTTGAATGT
1 TAGGAGAGGATTGAACGAATCACCCTTGTATTTCTACTAGAGTTGTCACCCTTTGAATGT
76927957 TA
1 TA
76927959 TAATTAAGTT
Statistics
Matches: 62, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
60 62 1.00
ACGTcount: A:0.27, C:0.18, G:0.21, T:0.34
Consensus pattern (60 bp):
TAGGAGAGGATTGAACGAATCACCCTTGTATTTCTACTAGAGTTGTCACCCTTTGAATGT
Found at i:76940343 original size:23 final size:22
Alignment explanation
Indices: 76940308--76940361 Score: 56
Period size: 23 Copynumber: 2.4 Consensus size: 22
76940298 GAAATGTATA
**
76940308 TTTTAAACGTTTT-ATAACATTAT
1 TTTTAAAAATTTTAATAA-ATT-T
76940331 TTTTAAAAATTTTAAATAAATTT
1 TTTTAAAAATTTT-AATAAATTT
76940354 TTTTAAAA
1 TTTTAAAA
76940362 TTATTTTTTT
Statistics
Matches: 27, Mismatches: 2, Indels: 4
0.82 0.06 0.12
Matches are distributed among these distances:
23 20 0.74
24 3 0.11
25 4 0.15
ACGTcount: A:0.43, C:0.04, G:0.02, T:0.52
Consensus pattern (22 bp):
TTTTAAAAATTTTAATAAATTT
Found at i:76940377 original size:14 final size:14
Alignment explanation
Indices: 76940350--76940380 Score: 62
Period size: 14 Copynumber: 2.2 Consensus size: 14
76940340 TTTTAAATAA
76940350 ATTTTTTTAAAATT
1 ATTTTTTTAAAATT
76940364 ATTTTTTTAAAATT
1 ATTTTTTTAAAATT
76940378 ATT
1 ATT
76940381 CTTTAATTTT
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 17 1.00
ACGTcount: A:0.35, C:0.00, G:0.00, T:0.65
Consensus pattern (14 bp):
ATTTTTTTAAAATT
Found at i:76940392 original size:20 final size:19
Alignment explanation
Indices: 76940367--76940406 Score: 55
Period size: 20 Copynumber: 2.1 Consensus size: 19
76940357 TAAAATTATT
76940367 TTTTTAAA-ATTATTCTTTAA
1 TTTTTAAATA-TATT-TTTAA
76940387 TTTTTAAATATATTTTTAA
1 TTTTTAAATATATTTTTAA
76940406 T
1 T
76940407 AATATAAAAA
Statistics
Matches: 19, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
19 6 0.32
20 12 0.63
21 1 0.05
ACGTcount: A:0.35, C:0.03, G:0.00, T:0.62
Consensus pattern (19 bp):
TTTTTAAATATATTTTTAA
Found at i:76940395 original size:19 final size:20
Alignment explanation
Indices: 76940367--76940406 Score: 57
Period size: 19 Copynumber: 2.0 Consensus size: 20
76940357 TAAAATTATT
76940367 TTTTTAAAAT-TATTCTTTAA
1 TTTTTAAAATATATT-TTTAA
76940387 TTTTT-AAATATATTTTTAA
1 TTTTTAAAATATATTTTTAA
76940406 T
1 T
76940407 AATATAAAAA
Statistics
Matches: 19, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
19 10 0.53
20 9 0.47
ACGTcount: A:0.35, C:0.03, G:0.00, T:0.62
Consensus pattern (20 bp):
TTTTTAAAATATATTTTTAA
Found at i:76940829 original size:22 final size:21
Alignment explanation
Indices: 76940795--76940855 Score: 72
Period size: 22 Copynumber: 2.9 Consensus size: 21
76940785 TTTTAAATGT
*
76940795 TTTATAATATTAAAAAATTATA
1 TTTAAAAT-TTAAAAAATTATA
*
76940817 TTTAAAATTTTAAAAAATAATA
1 TTTAAAA-TTTAAAAAATTATA
76940839 TTT-AAA-TTAAAAAATTA
1 TTTAAAATTTAAAAAATTA
76940856 AAAAATATAT
Statistics
Matches: 35, Mismatches: 3, Indels: 5
0.81 0.07 0.12
Matches are distributed among these distances:
19 10 0.29
21 3 0.09
22 21 0.60
23 1 0.03
ACGTcount: A:0.57, C:0.00, G:0.00, T:0.43
Consensus pattern (21 bp):
TTTAAAATTTAAAAAATTATA
Found at i:76942952 original size:19 final size:19
Alignment explanation
Indices: 76942928--76942965 Score: 67
Period size: 19 Copynumber: 2.0 Consensus size: 19
76942918 TAGTCCCTAA
76942928 ACCGAGACTAAATTTTATT
1 ACCGAGACTAAATTTTATT
*
76942947 ACCGAGACTAATTTTTATT
1 ACCGAGACTAAATTTTATT
76942966 CTTCATACTT
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
19 18 1.00
ACGTcount: A:0.34, C:0.16, G:0.11, T:0.39
Consensus pattern (19 bp):
ACCGAGACTAAATTTTATT
Found at i:76946360 original size:52 final size:52
Alignment explanation
Indices: 76946295--76946448 Score: 200
Period size: 52 Copynumber: 2.9 Consensus size: 52
76946285 GACAGAAAAT
*
76946295 ATGTGATATGTGTTTCCGTATAAGACCATAGCTAGGCTATGGCATCGGTGCA
1 ATGTGATATGTGTTTCCGTATAAGACCATAGCTGGGCTATGGCATCGGTGCA
* * * * * **
76946347 ATGTGATACGTGTTCCCATATAAGACCATAGTTGGGCTATGACATCGGTGTG
1 ATGTGATATGTGTTTCCGTATAAGACCATAGCTGGGCTATGGCATCGGTGCA
* * *
76946399 ATGTGATAATGTGATTCCGTATAAGACCATATCTGGGATATGGCATCGGT
1 ATGTGAT-ATGTGTTTCCGTATAAGACCATAGCTGGGCTATGGCATCGGT
76946449 ATGATATGTG
Statistics
Matches: 85, Mismatches: 16, Indels: 1
0.83 0.16 0.01
Matches are distributed among these distances:
52 51 0.60
53 34 0.40
ACGTcount: A:0.26, C:0.16, G:0.27, T:0.31
Consensus pattern (52 bp):
ATGTGATATGTGTTTCCGTATAAGACCATAGCTGGGCTATGGCATCGGTGCA
Found at i:76947207 original size:28 final size:28
Alignment explanation
Indices: 76947145--76947209 Score: 103
Period size: 28 Copynumber: 2.3 Consensus size: 28
76947135 TGTGTGTCTA
*
76947145 GGCCGTGTGTGACACACGGTAAGCCCAT
1 GGCCGTGTGTGACACACGGTAAGCCCAC
*
76947173 GGCCGTGTGTGACACACGGTAAGCCTAC
1 GGCCGTGTGTGACACACGGTAAGCCCAC
*
76947201 GGGCGTGTG
1 GGCCGTGTG
76947210 ATATGGCTGT
Statistics
Matches: 34, Mismatches: 3, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
28 34 1.00
ACGTcount: A:0.18, C:0.26, G:0.37, T:0.18
Consensus pattern (28 bp):
GGCCGTGTGTGACACACGGTAAGCCCAC
Found at i:76952178 original size:21 final size:21
Alignment explanation
Indices: 76952141--76952184 Score: 54
Period size: 21 Copynumber: 2.1 Consensus size: 21
76952131 TTGGCTTTTT
* *
76952141 AAAATATTTTTCAATAATTAA
1 AAAATATGTTTCAATAAATAA
76952162 AAAATATGTTT-AGATAAATAA
1 AAAATATGTTTCA-ATAAATAA
76952183 AA
1 AA
76952185 GTAAAATTTT
Statistics
Matches: 20, Mismatches: 2, Indels: 2
0.83 0.08 0.08
Matches are distributed among these distances:
20 1 0.05
21 19 0.95
ACGTcount: A:0.57, C:0.02, G:0.05, T:0.36
Consensus pattern (21 bp):
AAAATATGTTTCAATAAATAA
Found at i:76952792 original size:12 final size:10
Alignment explanation
Indices: 76952768--76952811 Score: 56
Period size: 9 Copynumber: 4.6 Consensus size: 10
76952758 TTCACATCAT
76952768 TCTCTCAAAC
1 TCTCTCAAAC
76952778 TCTCTCAAAC
1 TCTCTCAAAC
* *
76952788 CCTCTC-AAG
1 TCTCTCAAAC
76952797 TCTCTC-AAC
1 TCTCTCAAAC
76952806 TCTCTC
1 TCTCTC
76952812 GTTTTAAAAT
Statistics
Matches: 30, Mismatches: 4, Indels: 1
0.86 0.11 0.03
Matches are distributed among these distances:
9 15 0.50
10 15 0.50
ACGTcount: A:0.23, C:0.43, G:0.02, T:0.32
Consensus pattern (10 bp):
TCTCTCAAAC
Found at i:76959184 original size:18 final size:18
Alignment explanation
Indices: 76959146--76959185 Score: 55
Period size: 18 Copynumber: 2.2 Consensus size: 18
76959136 TAATTATGAT
*
76959146 ATAATATAATATAATATA
1 ATAATATAATATAATAAA
76959164 ATAATATAATA-ACATAAA
1 ATAATATAATATA-ATAAA
76959182 ATAA
1 ATAA
76959186 AAGAAATAAA
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
17 1 0.05
18 19 0.95
ACGTcount: A:0.65, C:0.03, G:0.00, T:0.33
Consensus pattern (18 bp):
ATAATATAATATAATAAA
Found at i:76959216 original size:24 final size:25
Alignment explanation
Indices: 76959180--76959227 Score: 71
Period size: 24 Copynumber: 2.0 Consensus size: 25
76959170 TAATAACATA
*
76959180 AAATAAAAGAAATAAAACATGAAGT
1 AAATAAAAGAAATAAAACAAGAAGT
*
76959205 AAAT-AAATAAATAAAACAAGAAG
1 AAATAAAAGAAATAAAACAAGAAG
76959228 AATGAAAAAG
Statistics
Matches: 21, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
24 17 0.81
25 4 0.19
ACGTcount: A:0.71, C:0.04, G:0.10, T:0.15
Consensus pattern (25 bp):
AAATAAAAGAAATAAAACAAGAAGT
Found at i:76964191 original size:30 final size:30
Alignment explanation
Indices: 76964148--76964209 Score: 106
Period size: 30 Copynumber: 2.1 Consensus size: 30
76964138 CTTAATAAGT
76964148 AAATATCTCTAAAATAATAACAAAATTAAC
1 AAATATCTCTAAAATAATAACAAAATTAAC
* *
76964178 AAATGTCTTTAAAATAATAACAAAATTAAC
1 AAATATCTCTAAAATAATAACAAAATTAAC
76964208 AA
1 AA
76964210 TAAAATAAGT
Statistics
Matches: 30, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
30 30 1.00
ACGTcount: A:0.60, C:0.11, G:0.02, T:0.27
Consensus pattern (30 bp):
AAATATCTCTAAAATAATAACAAAATTAAC
Found at i:76974763 original size:32 final size:32
Alignment explanation
Indices: 76974727--76974825 Score: 96
Period size: 31 Copynumber: 3.2 Consensus size: 32
76974717 CATTAATGAT
*
76974727 AATTTTCAAAAGATTTAAGAGAATTTAATTAA
1 AATTTTCAAAAGATTTAAGAGAATATAATTAA
** * *
76974759 AATTTTCAAAAGAAATAAAAG-ATATAATGAA
1 AATTTTCAAAAGATTTAAGAGAATATAATTAA
* * **
76974790 ATTTTTCAAAA-ATTTGAG-GAACCTAATTAA
1 AATTTTCAAAAGATTTAAGAGAATATAATTAA
76974820 AATTTT
1 AATTTT
76974826 TTAAAAAGTT
Statistics
Matches: 52, Mismatches: 14, Indels: 4
0.74 0.20 0.06
Matches are distributed among these distances:
29 1 0.02
30 15 0.29
31 18 0.35
32 18 0.35
ACGTcount: A:0.51, C:0.05, G:0.09, T:0.35
Consensus pattern (32 bp):
AATTTTCAAAAGATTTAAGAGAATATAATTAA
Found at i:76974799 original size:31 final size:31
Alignment explanation
Indices: 76974720--76974800 Score: 83
Period size: 32 Copynumber: 2.5 Consensus size: 31
76974710 TTTTTAACAT
** * *
76974720 TAATGATAATTTTCAAAAGATTTAAGAGAATT
1 TAATGA-AATTTTCAAAAGAAATAAAAGAATA
*
76974752 TAATTAAAATTTTCAAAAGAAATAAAAG-ATA
1 TAA-TGAAATTTTCAAAAGAAATAAAAGAATA
76974783 TAATGAAATTTTTCAAAA
1 TAATGAAA-TTTTCAAAA
76974801 ATTTGAGGAA
Statistics
Matches: 41, Mismatches: 6, Indels: 5
0.79 0.12 0.10
Matches are distributed among these distances:
30 4 0.10
31 14 0.34
32 21 0.51
33 2 0.05
ACGTcount: A:0.53, C:0.04, G:0.09, T:0.35
Consensus pattern (31 bp):
TAATGAAATTTTCAAAAGAAATAAAAGAATA
Found at i:76976884 original size:26 final size:25
Alignment explanation
Indices: 76976837--76976889 Score: 63
Period size: 26 Copynumber: 2.1 Consensus size: 25
76976827 TCAGTGATAC
*
76976837 TTTTTATAATAATTAATATATTTTAA
1 TTTTTAAAATAATTAATATA-TTTAA
*
76976863 TTTTTAAAATTATGTAAT-TATTTAA
1 TTTTTAAAATAAT-TAATATATTTAA
76976888 TT
1 TT
76976890 ATAATTTATA
Statistics
Matches: 24, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
25 7 0.29
26 13 0.54
27 4 0.17
ACGTcount: A:0.40, C:0.00, G:0.02, T:0.58
Consensus pattern (25 bp):
TTTTTAAAATAATTAATATATTTAA
Found at i:76980234 original size:17 final size:17
Alignment explanation
Indices: 76980212--76980254 Score: 52
Period size: 18 Copynumber: 2.5 Consensus size: 17
76980202 ATGTAAATAA
76980212 ATTTAATTAAAACAAT-
1 ATTTAATTAAAACAATC
*
76980228 ATATTAAATCAAAACAATC
1 AT-TT-AATTAAAACAATC
76980247 ATTTAATT
1 ATTTAATT
76980255 TGGATGAAAT
Statistics
Matches: 22, Mismatches: 2, Indels: 5
0.76 0.07 0.17
Matches are distributed among these distances:
16 2 0.09
17 5 0.23
18 13 0.59
19 2 0.09
ACGTcount: A:0.53, C:0.09, G:0.00, T:0.37
Consensus pattern (17 bp):
ATTTAATTAAAACAATC
Found at i:76981815 original size:16 final size:17
Alignment explanation
Indices: 76981789--76981828 Score: 64
Period size: 16 Copynumber: 2.4 Consensus size: 17
76981779 ATTAGAACTA
76981789 AGTTAAGAAAATTAATTT
1 AGTT-AGAAAATTAATTT
76981807 A-TTAGAAAATTAATTT
1 AGTTAGAAAATTAATTT
76981823 AGTTAG
1 AGTTAG
76981829 TTTGATTAAT
Statistics
Matches: 21, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
16 14 0.67
17 6 0.29
18 1 0.05
ACGTcount: A:0.47, C:0.00, G:0.12, T:0.40
Consensus pattern (17 bp):
AGTTAGAAAATTAATTT
Found at i:76982697 original size:29 final size:30
Alignment explanation
Indices: 76982651--76982707 Score: 73
Period size: 29 Copynumber: 1.9 Consensus size: 30
76982641 AGATTTAAGT
*
76982651 TAATAAAATGATCAAATTGCATTTTAACTC
1 TAATAAAATGATCAAATTGAATTTTAACTC
*
76982681 TAATAAAAT-AT-ATAATTTAATTTTAAC
1 TAATAAAATGATCA-AATTGAATTTTAAC
76982708 CCCCAAATTT
Statistics
Matches: 24, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
28 1 0.04
29 14 0.58
30 9 0.38
ACGTcount: A:0.47, C:0.09, G:0.04, T:0.40
Consensus pattern (30 bp):
TAATAAAATGATCAAATTGAATTTTAACTC
Found at i:76984027 original size:9 final size:9
Alignment explanation
Indices: 76984000--76984092 Score: 53
Period size: 9 Copynumber: 10.1 Consensus size: 9
76983990 ATAAATAAAA
76984000 AATAACAATTT
1 AATAACAA--T
*
76984011 AATGACAAT
1 AATAACAAT
76984020 AATAACAAT
1 AATAACAAT
* *
76984029 AATTATAAT
1 AATAACAAT
* *
76984038 AGTAACTAT
1 AATAACAAT
* * *
76984047 TATAATATT
1 AATAACAAT
76984056 AATATA-AAT
1 AATA-ACAAT
*
76984065 AATAATAAT
1 AATAACAAT
*
76984074 AATAATAAT
1 AATAACAAT
*
76984083 AAGAACAAT
1 AATAACAAT
76984092 A
1 A
76984093 TATGTAGTAA
Statistics
Matches: 63, Mismatches: 17, Indels: 6
0.73 0.20 0.07
Matches are distributed among these distances:
8 1 0.02
9 54 0.86
10 1 0.02
11 7 0.11
ACGTcount: A:0.59, C:0.05, G:0.03, T:0.32
Consensus pattern (9 bp):
AATAACAAT
Found at i:76984070 original size:3 final size:3
Alignment explanation
Indices: 76984017--76984084 Score: 59
Period size: 3 Copynumber: 22.7 Consensus size: 3
76984007 ATTTAATGAC
* * * * *
76984017 AAT AAT AAC AAT AAT TAT AAT AGT AACT -AT TAT AAT ATT AAT -AT
1 AAT AAT AAT AAT AAT AAT AAT AAT AA-T AAT AAT AAT AAT AAT AAT
76984061 AAAT AAT AAT AAT AAT AAT AAT AA
1 -AAT AAT AAT AAT AAT AAT AAT AA
76984085 GAACAATATA
Statistics
Matches: 52, Mismatches: 9, Indels: 8
0.75 0.13 0.12
Matches are distributed among these distances:
2 3 0.06
3 46 0.88
4 3 0.06
ACGTcount: A:0.60, C:0.03, G:0.01, T:0.35
Consensus pattern (3 bp):
AAT
Found at i:76990882 original size:17 final size:17
Alignment explanation
Indices: 76990851--76990907 Score: 57
Period size: 17 Copynumber: 3.5 Consensus size: 17
76990841 TAACATATTT
*
76990851 AAAATATAATATATAATA
1 AAAATAT-ATTTATAATA
*
76990869 AAAATATATTTATAAGA
1 AAAATATATTTATAATA
*
76990886 ATAATA-A-TTAT-ATA
1 AAAATATATTTATAATA
76990900 AAAATATA
1 AAAATATA
76990908 AAATATATTG
Statistics
Matches: 33, Mismatches: 5, Indels: 5
0.77 0.12 0.12
Matches are distributed among these distances:
14 7 0.21
15 5 0.15
16 1 0.03
17 13 0.39
18 7 0.21
ACGTcount: A:0.63, C:0.00, G:0.02, T:0.35
Consensus pattern (17 bp):
AAAATATATTTATAATA
Found at i:76991241 original size:23 final size:22
Alignment explanation
Indices: 76991183--76991249 Score: 80
Period size: 23 Copynumber: 3.0 Consensus size: 22
76991173 TATAAAGGTA
76991183 TAAAATATAAAATAATTATAATT
1 TAAAATATAAAATAA-TATAATT
* * *
76991206 TATAATATGAAATAATATATTGT
1 TAAAATATAAAATAATATAAT-T
*
76991229 TAAAATGTAAAATAATATAAT
1 TAAAATATAAAATAATATAAT
76991250 AGTATAAAGA
Statistics
Matches: 36, Mismatches: 7, Indels: 2
0.80 0.16 0.04
Matches are distributed among these distances:
22 5 0.14
23 31 0.86
ACGTcount: A:0.57, C:0.00, G:0.04, T:0.39
Consensus pattern (22 bp):
TAAAATATAAAATAATATAATT
Found at i:76992262 original size:186 final size:187
Alignment explanation
Indices: 76991935--76992305 Score: 726
Period size: 186 Copynumber: 2.0 Consensus size: 187
76991925 TAAAAAAAAG
76991935 GCCTAAAACGCTCTGCAGAGGGGAAGAGAGAGGTCCCCGGCTCTGGCCTCCGGCTACAGTGCAAT
1 GCCTAAAACGCTCTGCAGAGGGGAAGAGAGAGGTCCCCGGCTCTGGCCTCCGGCTACAGTGCAAT
76992000 GCTTGCACACGCGCCTCACGCGCCACTGTACGCGTGTCTAAAGGTTCAAAACCTTCGTCCTTCCA
66 GCTTGCACACGCGCCTCACGCGCCACTGTACGCGTGTCTAAAGGTTCAAAACCTTCGTCCTTCCA
*
76992065 TAGGTAACCTCTTTTCTTTTAAACGTTACTGTTTTTTTAAAAACAAGAACGATTCTA
131 CAGGTAACCTCTTTTCTTTTAAACGTTACTGTTTTTTTAAAAACAAGAACGATTCTA
76992122 GCCTAAAACGCT-TGCAGAGGGGAAGAGAGAGGTCCCCGGCTCTGGCCTCCGGCTACAGTGCAAT
1 GCCTAAAACGCTCTGCAGAGGGGAAGAGAGAGGTCCCCGGCTCTGGCCTCCGGCTACAGTGCAAT
76992186 GCTTGCACACGCGCCTCACGCGCCACTGTACGCGTGTCTAAAGGTTCAAAACCTTCGTCCTTCCA
66 GCTTGCACACGCGCCTCACGCGCCACTGTACGCGTGTCTAAAGGTTCAAAACCTTCGTCCTTCCA
76992251 CAGGTAACCTCTTTTCTTTTAAACGTTACTGTTTTTTTAAAAACAAGAACGATTC
131 CAGGTAACCTCTTTTCTTTTAAACGTTACTGTTTTTTTAAAAACAAGAACGATTC
76992306 ATAAATTCGT
Statistics
Matches: 183, Mismatches: 1, Indels: 1
0.99 0.01 0.01
Matches are distributed among these distances:
186 171 0.93
187 12 0.07
ACGTcount: A:0.25, C:0.28, G:0.22, T:0.26
Consensus pattern (187 bp):
GCCTAAAACGCTCTGCAGAGGGGAAGAGAGAGGTCCCCGGCTCTGGCCTCCGGCTACAGTGCAAT
GCTTGCACACGCGCCTCACGCGCCACTGTACGCGTGTCTAAAGGTTCAAAACCTTCGTCCTTCCA
CAGGTAACCTCTTTTCTTTTAAACGTTACTGTTTTTTTAAAAACAAGAACGATTCTA
Found at i:76993400 original size:16 final size:16
Alignment explanation
Indices: 76993379--76993410 Score: 55
Period size: 16 Copynumber: 2.0 Consensus size: 16
76993369 GTATCTGCTC
*
76993379 CCCGTTGAAGTGGAGA
1 CCCGTTAAAGTGGAGA
76993395 CCCGTTAAAGTGGAGA
1 CCCGTTAAAGTGGAGA
76993411 TGCCAGACTT
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
16 15 1.00
ACGTcount: A:0.28, C:0.19, G:0.34, T:0.19
Consensus pattern (16 bp):
CCCGTTAAAGTGGAGA
Found at i:76998970 original size:49 final size:49
Alignment explanation
Indices: 76998898--76998996 Score: 198
Period size: 49 Copynumber: 2.0 Consensus size: 49
76998888 AAAGAGCGGA
76998898 AAGAACACTCAATAGCCTCTTCATTTGCCTTGACGTAAGGGGTCTTGCT
1 AAGAACACTCAATAGCCTCTTCATTTGCCTTGACGTAAGGGGTCTTGCT
76998947 AAGAACACTCAATAGCCTCTTCATTTGCCTTGACGTAAGGGGTCTTGCT
1 AAGAACACTCAATAGCCTCTTCATTTGCCTTGACGTAAGGGGTCTTGCT
76998996 A
1 A
76998997 GTGACTGTTG
Statistics
Matches: 50, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
49 50 1.00
ACGTcount: A:0.25, C:0.24, G:0.20, T:0.30
Consensus pattern (49 bp):
AAGAACACTCAATAGCCTCTTCATTTGCCTTGACGTAAGGGGTCTTGCT
Found at i:77005667 original size:17 final size:17
Alignment explanation
Indices: 77005636--77005712 Score: 65
Period size: 17 Copynumber: 4.7 Consensus size: 17
77005626 GTGATATTTA
*
77005636 ATAACATAT-TTAAAAT
1 ATAATATATATTAAAAT
77005652 ATAATATATATTAAAA-
1 ATAATATATATTAAAAT
*
77005668 AT-ATATTTA-TAAGAAT
1 ATAATATATATTAA-AAT
*
77005684 AATAAT-TATATAAAAAT
1 -ATAATATATATTAAAAT
*
77005701 ATAAAATATATT
1 ATAATATATATT
77005713 GTATATAAAA
Statistics
Matches: 48, Mismatches: 6, Indels: 13
0.72 0.09 0.19
Matches are distributed among these distances:
14 3 0.06
15 8 0.17
16 14 0.29
17 19 0.40
18 4 0.08
ACGTcount: A:0.58, C:0.01, G:0.01, T:0.39
Consensus pattern (17 bp):
ATAATATATATTAAAAT
Found at i:77006037 original size:23 final size:22
Alignment explanation
Indices: 77005979--77006045 Score: 80
Period size: 23 Copynumber: 3.0 Consensus size: 22
77005969 TATAAAGGTA
77005979 TAAAATATAAAATAATTATAATT
1 TAAAATATAAAATAA-TATAATT
* * *
77006002 TATAATATGAAATAATATATTGT
1 TAAAATATAAAATAATATAAT-T
*
77006025 TAAAATGTAAAATAATATAAT
1 TAAAATATAAAATAATATAAT
77006046 AGTATAAAGA
Statistics
Matches: 36, Mismatches: 7, Indels: 2
0.80 0.16 0.04
Matches are distributed among these distances:
22 5 0.14
23 31 0.86
ACGTcount: A:0.57, C:0.00, G:0.04, T:0.39
Consensus pattern (22 bp):
TAAAATATAAAATAATATAATT
Found at i:77008002 original size:18 final size:18
Alignment explanation
Indices: 77007975--77008021 Score: 69
Period size: 18 Copynumber: 2.6 Consensus size: 18
77007965 AAAACATTTC
77007975 AAATATTAAAAATTAG-AAA
1 AAATA-TAAAAA-TAGTAAA
77007994 AAATATAAAAATAGTAAA
1 AAATATAAAAATAGTAAA
77008012 AAATATAAAA
1 AAATATAAAA
77008022 TTTTATAACA
Statistics
Matches: 27, Mismatches: 0, Indels: 3
0.90 0.00 0.10
Matches are distributed among these distances:
17 3 0.11
18 19 0.70
19 5 0.19
ACGTcount: A:0.72, C:0.00, G:0.04, T:0.23
Consensus pattern (18 bp):
AAATATAAAAATAGTAAA
Found at i:77008003 original size:8 final size:8
Alignment explanation
Indices: 77007992--77008067 Score: 53
Period size: 8 Copynumber: 8.6 Consensus size: 8
77007982 AAAAATTAGA
77007992 AAAAATAT
1 AAAAATAT
77008000 AAAAATAGT
1 AAAAATA-T
77008009 AAAAAATAT
1 -AAAAATAT
*
77008018 AAAATTTTAT
1 AAAA--ATAT
* *
77008028 AACAATCGT
1 AAAAAT-AT
77008037 AAAAAATTAT
1 -AAAAA-TAT
77008047 AAAAATAT
1 AAAAATAT
*
77008055 AGAAATAT
1 AAAAATAT
77008063 AAAAA
1 AAAAA
77008068 AATTATAAAA
Statistics
Matches: 53, Mismatches: 8, Indels: 14
0.71 0.11 0.19
Matches are distributed among these distances:
8 26 0.49
9 8 0.15
10 18 0.34
11 1 0.02
ACGTcount: A:0.67, C:0.03, G:0.04, T:0.26
Consensus pattern (8 bp):
AAAAATAT
Found at i:77008004 original size:10 final size:9
Alignment explanation
Indices: 77007975--77008068 Score: 52
Period size: 8 Copynumber: 10.3 Consensus size: 9
77007965 AAAACATTTC
77007975 AAATATTAAA
1 AAATA-TAAA
* *
77007985 AATTAGAAA
1 AAATATAAA
77007994 AAATAT-AA
1 AAATATAAA
77008002 AAATAGTAAA
1 AAATA-TAAA
77008012 AAATAT-AA
1 AAATATAAA
* *
77008020 AATTTTATAA
1 AAATATA-AA
* *
77008030 CAATCGTAAA
1 AAAT-ATAAA
77008040 AAAT-TATAA
1 AAATATA-AA
*
77008049 AAATAT-AG
1 AAATATAAA
77008057 AAATATAAA
1 AAATATAAA
77008066 AAA
1 AAA
77008069 ATTATAAAAT
Statistics
Matches: 64, Mismatches: 12, Indels: 17
0.69 0.13 0.18
Matches are distributed among these distances:
8 22 0.34
9 19 0.30
10 21 0.33
11 2 0.03
ACGTcount: A:0.67, C:0.02, G:0.04, T:0.27
Consensus pattern (9 bp):
AAATATAAA
Found at i:77008021 original size:27 final size:27
Alignment explanation
Indices: 77007975--77008077 Score: 84
Period size: 27 Copynumber: 3.7 Consensus size: 27
77007965 AAAACATTTC
* * *
77007975 AAATATTAAAAATTAGAAAAAATATAA
1 AAATAGTAAAAAATATAAAAAATATAA
**
77008002 AAATAGTAAAAAATATAAAATTTTATAA
1 AAATAGTAAAAAATATAAAA-AATATAA
* * *
77008030 CAATCGTAAAAAAT-TATAAAAATATAG
1 AAATAGTAAAAAATATA-AAAAATATAA
77008057 AAATA-TAAAAAAATTATAAAA
1 AAATAGT-AAAAAA-TATAAAA
77008078 TTTTATAAAG
Statistics
Matches: 59, Mismatches: 12, Indels: 9
0.74 0.15 0.11
Matches are distributed among these distances:
26 1 0.02
27 32 0.54
28 24 0.41
29 2 0.03
ACGTcount: A:0.67, C:0.02, G:0.04, T:0.27
Consensus pattern (27 bp):
AAATAGTAAAAAATATAAAAAATATAA
Found at i:77009416 original size:57 final size:57
Alignment explanation
Indices: 77009333--77009562 Score: 460
Period size: 57 Copynumber: 4.0 Consensus size: 57
77009323 TTGTTACACA
77009333 AATTAATCTCTATGATTAACACTTAATTTTTAAACAATTGGGTGAAATGGCTAAATT
1 AATTAATCTCTATGATTAACACTTAATTTTTAAACAATTGGGTGAAATGGCTAAATT
77009390 AATTAATCTCTATGATTAACACTTAATTTTTAAACAATTGGGTGAAATGGCTAAATT
1 AATTAATCTCTATGATTAACACTTAATTTTTAAACAATTGGGTGAAATGGCTAAATT
77009447 AATTAATCTCTATGATTAACACTTAATTTTTAAACAATTGGGTGAAATGGCTAAATT
1 AATTAATCTCTATGATTAACACTTAATTTTTAAACAATTGGGTGAAATGGCTAAATT
77009504 AATTAATCTCTATGATTAACACTTAATTTTTAAACAATTGGGTGAAATGGCTAAATT
1 AATTAATCTCTATGATTAACACTTAATTTTTAAACAATTGGGTGAAATGGCTAAATT
77009561 AA
1 AA
77009563 GATATAATAC
Statistics
Matches: 173, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
57 173 1.00
ACGTcount: A:0.39, C:0.10, G:0.12, T:0.38
Consensus pattern (57 bp):
AATTAATCTCTATGATTAACACTTAATTTTTAAACAATTGGGTGAAATGGCTAAATT
Found at i:77016604 original size:21 final size:21
Alignment explanation
Indices: 77016579--77016618 Score: 64
Period size: 21 Copynumber: 1.9 Consensus size: 21
77016569 TTCTTTATAA
77016579 TTTTA-ATATATATATTTTATT
1 TTTTAGAT-TATATATTTTATT
77016600 TTTTAGATTATATATTTTA
1 TTTTAGATTATATATTTTA
77016619 AAATTTTAAA
Statistics
Matches: 18, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
21 16 0.89
22 2 0.11
ACGTcount: A:0.33, C:0.00, G:0.03, T:0.65
Consensus pattern (21 bp):
TTTTAGATTATATATTTTATT
Found at i:77022831 original size:23 final size:23
Alignment explanation
Indices: 77022805--77022849 Score: 65
Period size: 23 Copynumber: 2.0 Consensus size: 23
77022795 GAGGAACTGG
*
77022805 GGGAAGAGAAGAAAAA-AGAAAAA
1 GGGAAG-GAAAAAAAATAGAAAAA
77022828 GGGAAGGAAAAAAAATAGAAAA
1 GGGAAGGAAAAAAAATAGAAAA
77022850 GGAAAGAAAA
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
22 8 0.40
23 12 0.60
ACGTcount: A:0.69, C:0.00, G:0.29, T:0.02
Consensus pattern (23 bp):
GGGAAGGAAAAAAAATAGAAAAA
Found at i:77024021 original size:19 final size:20
Alignment explanation
Indices: 77023990--77024027 Score: 60
Period size: 19 Copynumber: 1.9 Consensus size: 20
77023980 TAAAATTAGC
*
77023990 TAATTGTTAATTAGTTAATT
1 TAATTGTTAATTAATTAATT
77024010 TAATTG-TAATTAATTAAT
1 TAATTGTTAATTAATTAAT
77024028 AAATAATTAA
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
19 11 0.65
20 6 0.35
ACGTcount: A:0.39, C:0.00, G:0.08, T:0.53
Consensus pattern (20 bp):
TAATTGTTAATTAATTAATT
Found at i:77025806 original size:23 final size:23
Alignment explanation
Indices: 77025780--77025827 Score: 96
Period size: 23 Copynumber: 2.1 Consensus size: 23
77025770 TGGTAGATAT
77025780 ATGCATATAGTTATACATGTTTA
1 ATGCATATAGTTATACATGTTTA
77025803 ATGCATATAGTTATACATGTTTA
1 ATGCATATAGTTATACATGTTTA
77025826 AT
1 AT
77025828 TAGTGTAAGT
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
23 25 1.00
ACGTcount: A:0.35, C:0.08, G:0.12, T:0.44
Consensus pattern (23 bp):
ATGCATATAGTTATACATGTTTA
Found at i:77026321 original size:16 final size:16
Alignment explanation
Indices: 77026300--77026330 Score: 53
Period size: 16 Copynumber: 1.9 Consensus size: 16
77026290 TTCACTATTA
*
77026300 TGTCTTTTTTATTTTT
1 TGTCTTTTATATTTTT
77026316 TGTCTTTTATATTTT
1 TGTCTTTTATATTTT
77026331 GCATGCATAG
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:0.10, C:0.06, G:0.06, T:0.77
Consensus pattern (16 bp):
TGTCTTTTATATTTTT
Found at i:77027963 original size:17 final size:17
Alignment explanation
Indices: 77027941--77028029 Score: 64
Period size: 17 Copynumber: 5.4 Consensus size: 17
77027931 ATTTTAATAG
77027941 TTTAATATTAAATTTAA
1 TTTAATATTAAATTTAA
*
77027958 TTTAATACTT--ATCT-A
1 TTTAATA-TTAAATTTAA
**
77027973 ---AATATTATTTTTAA
1 TTTAATATTAAATTTAA
*
77027987 TTTAATATTAAAGTGGTTAT
1 TTTAATATTAAA-T--TTAA
77028007 TTTAATATTAAATTTAA
1 TTTAATATTAAATTTAA
77028024 TTTAAT
1 TTTAAT
77028030 GTTTATCTAC
Statistics
Matches: 55, Mismatches: 7, Indels: 20
0.67 0.09 0.24
Matches are distributed among these distances:
11 2 0.04
12 4 0.07
13 2 0.04
14 1 0.02
15 1 0.02
16 3 0.05
17 23 0.42
18 3 0.05
19 1 0.02
20 15 0.27
ACGTcount: A:0.40, C:0.02, G:0.03, T:0.54
Consensus pattern (17 bp):
TTTAATATTAAATTTAA
Found at i:77028035 original size:29 final size:29
Alignment explanation
Indices: 77027941--77028035 Score: 73
Period size: 29 Copynumber: 3.0 Consensus size: 29
77027931 ATTTTAATAG
*
77027941 TTTAATATTAAATTTAATTTAATACTTAT
1 TTTAATATTAAATTTAATTTAATGCTTAT
* * *
77027970 CTAAATATTATTTTTAATTTAATATTAAAGTGGTTAT
1 TTTAATATTA-----AATTTAAT-TT-AA-TGCTTAT
*
77028007 TTTAATATTAAATTTAATTTAATGTTTAT
1 TTTAATATTAAATTTAATTTAATGCTTAT
77028036 CTACGAGATA
Statistics
Matches: 51, Mismatches: 7, Indels: 16
0.69 0.09 0.22
Matches are distributed among these distances:
29 14 0.27
30 2 0.04
31 2 0.04
32 8 0.16
34 8 0.16
35 2 0.04
36 2 0.04
37 13 0.25
ACGTcount: A:0.39, C:0.02, G:0.04, T:0.55
Consensus pattern (29 bp):
TTTAATATTAAATTTAATTTAATGCTTAT
Found at i:77028070 original size:24 final size:24
Alignment explanation
Indices: 77028043--77028090 Score: 96
Period size: 24 Copynumber: 2.0 Consensus size: 24
77028033 TATCTACGAG
77028043 ATAAAAATTCTGTTATTTTAATAA
1 ATAAAAATTCTGTTATTTTAATAA
77028067 ATAAAAATTCTGTTATTTTAATAA
1 ATAAAAATTCTGTTATTTTAATAA
77028091 GATTTAATAT
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
24 24 1.00
ACGTcount: A:0.46, C:0.04, G:0.04, T:0.46
Consensus pattern (24 bp):
ATAAAAATTCTGTTATTTTAATAA
Found at i:77047516 original size:17 final size:18
Alignment explanation
Indices: 77047483--77047517 Score: 54
Period size: 18 Copynumber: 2.0 Consensus size: 18
77047473 ATTTTATTCA
*
77047483 AAATTTTTTATAATTATT
1 AAATATTTTATAATTATT
77047501 AAATATTTTA-AATTATT
1 AAATATTTTATAATTATT
77047518 TAGGAGTTTT
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
17 7 0.44
18 9 0.56
ACGTcount: A:0.43, C:0.00, G:0.00, T:0.57
Consensus pattern (18 bp):
AAATATTTTATAATTATT
Found at i:77048339 original size:15 final size:16
Alignment explanation
Indices: 77048314--77048348 Score: 63
Period size: 15 Copynumber: 2.2 Consensus size: 16
77048304 AAGTGATGGA
77048314 AAAAGTACAAAAAAAT
1 AAAAGTACAAAAAAAT
77048330 AAAA-TACAAAAAAAT
1 AAAAGTACAAAAAAAT
77048345 AAAA
1 AAAA
77048349 AAAAATTTAT
Statistics
Matches: 19, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
15 15 0.79
16 4 0.21
ACGTcount: A:0.80, C:0.06, G:0.03, T:0.11
Consensus pattern (16 bp):
AAAAGTACAAAAAAAT
Found at i:77051257 original size:62 final size:62
Alignment explanation
Indices: 77051120--77051324 Score: 239
Period size: 62 Copynumber: 3.3 Consensus size: 62
77051110 ACCTCTTGTC
* * * * * * * *
77051120 ACACGGCTTGGGCACACACCTGTGTGCCTTGGCCGTGTGATCTTTAAGCACAAACAGTCAATT
1 ACACGGCTTGGGCACACGCCTGTGT-CCCTGGCCGAGTGGTTTTTAAGCACAAATAGTGAGTT
* * *
77051183 ATACGGCCTGGGCACACGCCTGTGTCCCTGGCCGAGTGGTTTTTAAGCGCAAATAGTGAGTT
1 ACACGGCTTGGGCACACGCCTGTGTCCCTGGCCGAGTGGTTTTTAAGCACAAATAGTGAGTT
* * * * * *
77051245 ACACGGCTTGGGCACATGCCCGGGCCCCTGGCTGCGTGGTTTTTAAGCACAAATAGTGAGTT
1 ACACGGCTTGGGCACACGCCTGTGTCCCTGGCCGAGTGGTTTTTAAGCACAAATAGTGAGTT
*
77051307 ACACGGCTTGGCCACACG
1 ACACGGCTTGGGCACACG
77051325 TTCGTGTCCC
Statistics
Matches: 120, Mismatches: 22, Indels: 1
0.84 0.15 0.01
Matches are distributed among these distances:
62 98 0.82
63 22 0.18
ACGTcount: A:0.21, C:0.27, G:0.28, T:0.24
Consensus pattern (62 bp):
ACACGGCTTGGGCACACGCCTGTGTCCCTGGCCGAGTGGTTTTTAAGCACAAATAGTGAGTT
Found at i:77056286 original size:62 final size:63
Alignment explanation
Indices: 77056215--77056355 Score: 178
Period size: 62 Copynumber: 2.3 Consensus size: 63
77056205 CACATGGGTT
* *
77056215 TGTGCCCAGGCCGTGTAACTCACTGTTTGTG-TTTAAAAACCACACGGCC-AGGGACACAGGTG
1 TGTGCCCAGGCCGTGTAACTCACTGTTTGTGCTTT-AAAACCACACGGCCAAGGCACACAGGCG
** * * * *
77056277 TGTGCCCAGGCTATGTAATTCACTGTTTGTGCTTTAAGATCACACGGCCAAGGCACACGGGCG
1 TGTGCCCAGGCCGTGTAACTCACTGTTTGTGCTTTAAAACCACACGGCCAAGGCACACAGGCG
*
77056340 TGTGCCCAAGCCGTGT
1 TGTGCCCAGGCCGTGT
77056356 GATAGGAGGT
Statistics
Matches: 66, Mismatches: 11, Indels: 3
0.82 0.14 0.04
Matches are distributed among these distances:
62 40 0.61
63 26 0.39
ACGTcount: A:0.22, C:0.26, G:0.28, T:0.24
Consensus pattern (63 bp):
TGTGCCCAGGCCGTGTAACTCACTGTTTGTGCTTTAAAACCACACGGCCAAGGCACACAGGCG
Found at i:77058642 original size:11 final size:11
Alignment explanation
Indices: 77058626--77058704 Score: 56
Period size: 11 Copynumber: 7.2 Consensus size: 11
77058616 ATAAAAGCTC
77058626 TTATTATTTTA
1 TTATTATTTTA
77058637 TTATTATTTTA
1 TTATTATTTTA
**
77058648 TTACAAATTTTTA
1 TTA-TTA-TTTTA
77058661 TTA-TATTTTA
1 TTATTATTTTA
* ** *
77058671 TTTATCA-GCTC
1 -TTATTATTTTA
77058682 TTATTATTTT-
1 TTATTATTTTA
77058692 TTATTATTTTA
1 TTATTATTTTA
77058703 TT
1 TT
77058705 CTAAATTTTT
Statistics
Matches: 52, Mismatches: 10, Indels: 12
0.70 0.14 0.16
Matches are distributed among these distances:
10 20 0.38
11 22 0.42
12 2 0.04
13 8 0.15
ACGTcount: A:0.27, C:0.05, G:0.01, T:0.67
Consensus pattern (11 bp):
TTATTATTTTA
Found at i:77058746 original size:18 final size:18
Alignment explanation
Indices: 77058723--77058757 Score: 52
Period size: 18 Copynumber: 1.9 Consensus size: 18
77058713 TTGATAATTA
77058723 TTAGGTATTTTAAGTTAT
1 TTAGGTATTTTAAGTTAT
* *
77058741 TTAGGTGTTTTATGTTA
1 TTAGGTATTTTAAGTTA
77058758 ACAGGAAAAT
Statistics
Matches: 15, Mismatches: 2, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
18 15 1.00
ACGTcount: A:0.23, C:0.00, G:0.20, T:0.57
Consensus pattern (18 bp):
TTAGGTATTTTAAGTTAT
Found at i:77065165 original size:27 final size:27
Alignment explanation
Indices: 77065127--77065181 Score: 110
Period size: 27 Copynumber: 2.0 Consensus size: 27
77065117 GATGCTGAAT
77065127 CGACATACAAATCAAATGATACTTAAC
1 CGACATACAAATCAAATGATACTTAAC
77065154 CGACATACAAATCAAATGATACTTAAC
1 CGACATACAAATCAAATGATACTTAAC
77065181 C
1 C
77065182 TGCGCATGAA
Statistics
Matches: 28, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
27 28 1.00
ACGTcount: A:0.47, C:0.24, G:0.07, T:0.22
Consensus pattern (27 bp):
CGACATACAAATCAAATGATACTTAAC
Found at i:77066697 original size:18 final size:19
Alignment explanation
Indices: 77066669--77066708 Score: 57
Period size: 18 Copynumber: 2.2 Consensus size: 19
77066659 ACGTAAAAGG
77066669 TAAAAAGTAAA-AGATGAAA
1 TAAAAAGTAAATA-ATGAAA
77066688 TAAAAA-TAAATAATGAAA
1 TAAAAAGTAAATAATGAAA
77066706 TAA
1 TAA
77066709 TTTAAAGGAA
Statistics
Matches: 20, Mismatches: 0, Indels: 3
0.87 0.00 0.13
Matches are distributed among these distances:
18 13 0.65
19 7 0.35
ACGTcount: A:0.70, C:0.00, G:0.10, T:0.20
Consensus pattern (19 bp):
TAAAAAGTAAATAATGAAA
Found at i:77067621 original size:16 final size:16
Alignment explanation
Indices: 77067591--77067638 Score: 57
Period size: 15 Copynumber: 3.1 Consensus size: 16
77067581 GAAAATTAAT
77067591 ATAAAATCT-AAAAT-A
1 ATAAAAT-TAAAAATAA
77067606 ATAATAATTAAAAATAA
1 ATAA-AATTAAAAATAA
77067623 ATAAAATT-AAAATAA
1 ATAAAATTAAAAATAA
77067638 A
1 A
77067639 CTTAAAATAG
Statistics
Matches: 30, Mismatches: 0, Indels: 6
0.83 0.00 0.17
Matches are distributed among these distances:
15 13 0.43
16 12 0.40
17 5 0.17
ACGTcount: A:0.71, C:0.02, G:0.00, T:0.27
Consensus pattern (16 bp):
ATAAAATTAAAAATAA
Found at i:77067637 original size:11 final size:11
Alignment explanation
Indices: 77067582--77067652 Score: 58
Period size: 11 Copynumber: 6.5 Consensus size: 11
77067572 ATAGCTTAAG
*
77067582 AAAATTAATAT
1 AAAATTAAAAT
77067593 AAAATCTAAAAT
1 AAAAT-TAAAAT
*
77067605 AATAA-T-AATT
1 AA-AATTAAAAT
*
77067615 AAAAAT-AAAT
1 AAAATTAAAAT
77067625 AAAATTAAAAT
1 AAAATTAAAAT
*
77067636 AAACTTAAAAT
1 AAAATTAAAAT
*
77067647 AGAATT
1 AAAATT
77067653 TCCTATTTTT
Statistics
Matches: 49, Mismatches: 7, Indels: 8
0.77 0.11 0.12
Matches are distributed among these distances:
9 2 0.04
10 14 0.29
11 24 0.49
12 7 0.14
13 2 0.04
ACGTcount: A:0.66, C:0.03, G:0.01, T:0.30
Consensus pattern (11 bp):
AAAATTAAAAT
Found at i:77069679 original size:38 final size:38
Alignment explanation
Indices: 77069635--77069707 Score: 146
Period size: 38 Copynumber: 1.9 Consensus size: 38
77069625 CAAATGCCTG
77069635 AAATGACAATTAATCTAAAGACATGTTAGCAATTACTT
1 AAATGACAATTAATCTAAAGACATGTTAGCAATTACTT
77069673 AAATGACAATTAATCTAAAGACATGTTAGCAATTA
1 AAATGACAATTAATCTAAAGACATGTTAGCAATTA
77069708 AAGCCATTTA
Statistics
Matches: 35, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
38 35 1.00
ACGTcount: A:0.47, C:0.12, G:0.11, T:0.30
Consensus pattern (38 bp):
AAATGACAATTAATCTAAAGACATGTTAGCAATTACTT
Found at i:77072281 original size:23 final size:22
Alignment explanation
Indices: 77072251--77072304 Score: 60
Period size: 23 Copynumber: 2.5 Consensus size: 22
77072241 TATTTATTTT
77072251 AATATA-TTAATACACTAATTTAA
1 AATATATTTAA-A-ACTAATTTAA
77072274 AATATATTTTAAAACTAATTT-A
1 AATATA-TTTAAAACTAATTTAA
77072296 AATAT-TTTA
1 AATATATTTA
77072305 TAATCAAACA
Statistics
Matches: 29, Mismatches: 0, Indels: 7
0.81 0.00 0.19
Matches are distributed among these distances:
20 4 0.14
22 6 0.21
23 14 0.48
24 1 0.03
25 4 0.14
ACGTcount: A:0.50, C:0.06, G:0.00, T:0.44
Consensus pattern (22 bp):
AATATATTTAAAACTAATTTAA
Found at i:77079683 original size:15 final size:15
Alignment explanation
Indices: 77079644--77079684 Score: 50
Period size: 15 Copynumber: 2.9 Consensus size: 15
77079634 ATAAACAGTT
*
77079644 AATTTTTTTA-TTGA
1 AATTATTTTATTTGA
*
77079658 AA-TACTTTATTTGA
1 AATTATTTTATTTGA
77079672 AATTATTTTATTT
1 AATTATTTTATTT
77079685 CCATCAACCA
Statistics
Matches: 22, Mismatches: 3, Indels: 3
0.79 0.11 0.11
Matches are distributed among these distances:
13 5 0.23
14 8 0.36
15 9 0.41
ACGTcount: A:0.32, C:0.02, G:0.05, T:0.61
Consensus pattern (15 bp):
AATTATTTTATTTGA
Found at i:77082197 original size:30 final size:31
Alignment explanation
Indices: 77082161--77082223 Score: 85
Period size: 30 Copynumber: 2.1 Consensus size: 31
77082151 GCTAATAAAA
77082161 ATATATAAATATAAGTAAA-CAAAT-ATTTAT
1 ATATATAAATA-AAGTAAATCAAATAATTTAT
* *
77082191 ATATATAAATAAATTAAATTAAATAATTTAT
1 ATATATAAATAAAGTAAATCAAATAATTTAT
77082222 AT
1 AT
77082224 TTAAATTATC
Statistics
Matches: 29, Mismatches: 2, Indels: 3
0.85 0.06 0.09
Matches are distributed among these distances:
29 6 0.21
30 15 0.52
31 8 0.28
ACGTcount: A:0.57, C:0.02, G:0.02, T:0.40
Consensus pattern (31 bp):
ATATATAAATAAAGTAAATCAAATAATTTAT
Found at i:77084143 original size:21 final size:21
Alignment explanation
Indices: 77084105--77084144 Score: 53
Period size: 21 Copynumber: 1.9 Consensus size: 21
77084095 TATTTTCACA
* *
77084105 CAAAATTTCTTAATAATTTAG
1 CAAAAATTCTTAACAATTTAG
*
77084126 CAAAAATTCTTTACAATTT
1 CAAAAATTCTTAACAATTT
77084145 CTCCCTAGGG
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:0.42, C:0.12, G:0.03, T:0.42
Consensus pattern (21 bp):
CAAAAATTCTTAACAATTTAG
Found at i:77085350 original size:7 final size:7
Alignment explanation
Indices: 77085338--77085362 Score: 50
Period size: 7 Copynumber: 3.6 Consensus size: 7
77085328 AGTCGTTTCA
77085338 TATTTAG
1 TATTTAG
77085345 TATTTAG
1 TATTTAG
77085352 TATTTAG
1 TATTTAG
77085359 TATT
1 TATT
77085363 ATGTATATAA
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 18 1.00
ACGTcount: A:0.28, C:0.00, G:0.12, T:0.60
Consensus pattern (7 bp):
TATTTAG
Found at i:77089161 original size:27 final size:27
Alignment explanation
Indices: 77089121--77089286 Score: 201
Period size: 27 Copynumber: 6.1 Consensus size: 27
77089111 AGGAAGCGTC
*
77089121 CTGGTGGCTATGCCACAATTATCTGAT
1 CTGGTGGCTCTGCCACAATTATCTGAT
* *
77089148 CTGGTGGCTCTGCCACAAATATTTGAT
1 CTGGTGGCTCTGCCACAATTATCTGAT
* *
77089175 CTGGTGGCTCTTCCACAAATATCTGAT
1 CTGGTGGCTCTGCCACAATTATCTGAT
*
77089202 CTGGTGGCTCTGCCAC-ATATATCTGTT
1 CTGGTGGCTCTGCCACAAT-TATCTGAT
* *
77089229 CTGGTGGCCCTGCCACGATTATCTGTAT
1 CTGGTGGCTCTGCCACAATTATCTG-AT
* * *
77089257 CTGGTGACTCTGTCAC-ATTATCTGTT
1 CTGGTGGCTCTGCCACAATTATCTGAT
77089283 CTGG
1 CTGG
77089287 CAGCCATGCT
Statistics
Matches: 122, Mismatches: 14, Indels: 7
0.85 0.10 0.05
Matches are distributed among these distances:
26 6 0.05
27 100 0.82
28 16 0.13
ACGTcount: A:0.18, C:0.25, G:0.22, T:0.35
Consensus pattern (27 bp):
CTGGTGGCTCTGCCACAATTATCTGAT
Found at i:77094711 original size:27 final size:27
Alignment explanation
Indices: 77094670--77094784 Score: 160
Period size: 27 Copynumber: 4.3 Consensus size: 27
77094660 GAGGAAGCGT
*
77094670 TCTGGTGGCTATGCCACAAATATCTGA
1 TCTGGTGGCTCTGCCACAAATATCTGA
*
77094697 TCTGGTGGCTCTGCCACAAATATCTAA
1 TCTGGTGGCTCTGCCACAAATATCTGA
* *
77094724 TCTGGTGGCTCTGCCACATATATCTGT
1 TCTGGTGGCTCTGCCACAAATATCTGA
* *
77094751 TCTGGTGGCTCTGCCA-GATTATCTGTA
1 TCTGGTGGCTCTGCCACAAATATCTG-A
77094778 TCTGGTG
1 TCTGGTG
77094785 ACTTTGTCAC
Statistics
Matches: 78, Mismatches: 9, Indels: 2
0.88 0.10 0.02
Matches are distributed among these distances:
26 6 0.08
27 72 0.92
ACGTcount: A:0.19, C:0.23, G:0.23, T:0.34
Consensus pattern (27 bp):
TCTGGTGGCTCTGCCACAAATATCTGA
Found at i:77094755 original size:54 final size:54
Alignment explanation
Indices: 77094670--77094806 Score: 170
Period size: 54 Copynumber: 2.6 Consensus size: 54
77094660 GAGGAAGCGT
* *
77094670 TCTGGTGGCTATGCCACAAATATCTGATCTGGTGGCTCTGCCACAAATATCT-AA
1 TCTGGTGGCTATGCCACATATATCTGTTCTGGTGGCTCTGCCA-AAATATCTGAA
* * * *
77094724 TCTGGTGGCTCTGCCACATATATCTGTTCTGGTGGCTCTGCCAGATTATCTGTA
1 TCTGGTGGCTATGCCACATATATCTGTTCTGGTGGCTCTGCCAAAATATCTGAA
* * *
77094778 TCTGGTGACTTTGTCACAT-TATCTGTTCT
1 TCTGGTGGCTATGCCACATATATCTGTTCT
77094807 AGCAGCCATG
Statistics
Matches: 73, Mismatches: 9, Indels: 3
0.86 0.11 0.04
Matches are distributed among these distances:
53 16 0.22
54 57 0.78
ACGTcount: A:0.19, C:0.23, G:0.21, T:0.36
Consensus pattern (54 bp):
TCTGGTGGCTATGCCACATATATCTGTTCTGGTGGCTCTGCCAAAATATCTGAA
Found at i:77094798 original size:27 final size:27
Alignment explanation
Indices: 77094670--77094803 Score: 148
Period size: 27 Copynumber: 5.0 Consensus size: 27
77094660 GAGGAAGCGT
* *
77094670 TCTGGTGGCTATGCCACAAATATCTG-A
1 TCTGGTGGCTCTGCCAC-ATTATCTGTA
* *
77094697 TCTGGTGGCTCTGCCACAAATATCT-AA
1 TCTGGTGGCTCTGCCAC-ATTATCTGTA
77094724 TCTGGTGGCTCTGCCACATATATCTGT-
1 TCTGGTGGCTCTGCCACAT-TATCTGTA
*
77094751 TCTGGTGGCTCTGCCAGATTATCTGTA
1 TCTGGTGGCTCTGCCACATTATCTGTA
* * *
77094778 TCTGGTGACTTTGTCACATTATCTGT
1 TCTGGTGGCTCTGCCACATTATCTGT
77094804 TCTAGCAGCC
Statistics
Matches: 95, Mismatches: 8, Indels: 8
0.86 0.07 0.07
Matches are distributed among these distances:
26 8 0.08
27 87 0.92
ACGTcount: A:0.19, C:0.23, G:0.22, T:0.36
Consensus pattern (27 bp):
TCTGGTGGCTCTGCCACATTATCTGTA
Found at i:77097815 original size:126 final size:126
Alignment explanation
Indices: 77097501--77098004 Score: 726
Period size: 126 Copynumber: 4.0 Consensus size: 126
77097491 GGCCAAGCTT
* *
77097501 GAACTACTGTAGAAAAAGAGCATCCACATGGGAGCTTTTTTCAGAAATTTTACTGACATTGCATC
1 GAACTACTGTAGAAAAAGAGCGTCCACGTGGGAGCTTTTTTCAGAAATTTTACTGACATTGCATC
* *
77097566 CTGCTTGAAGTGTTTTTGACATTATTTGTTCAGAAACGTCTTCTCAAAATTA-TTTTTCAG
66 CTGCTTGAAGCGTTTTTGACACTATTTGTTCAGAAACGTCTTCTCAAAATTATTTTTTCAG
* *
77097626 GAACTACTGTAGAAAAAGAACGTCCACGTGGGAGCTTTTTTCAGAAATTTTGCTGACATTGCATC
1 GAACTACTGTAGAAAAAGAGCGTCCACGTGGGAGCTTTTTTCAGAAATTTTACTGACATTGCATC
* * * *
77097691 TTACTTGAAGCGTTTTTGATACTATTTGTTCAGAAACGTCTTCTCAGAATTATTTTTTCAG
66 CTGCTTGAAGCGTTTTTGACACTATTTGTTCAGAAACGTCTTCTCAAAATTATTTTTTCAG
* * * * *
77097752 GAACTACTGTAGTAAAAGAGTGTCCACGTGGGAGCTTTTTTCTGTATTTTTACTGACATTGCATC
1 GAACTACTGTAGAAAAAGAGCGTCCACGTGGGAGCTTTTTTCAGAAATTTTACTGACATTGCATC
* *
77097817 CTGCTT-AATGCATTTTTGACACTATTTGTTCAGAAACGCCTTCTCAAAATTATTTTTTCAG
66 CTGCTTGAA-GCGTTTTTGACACTATTTGTTCAGAAACGTCTTCTCAAAATTATTTTTTCAG
* * * * * * * *
77097878 GAACTACTATAGCAAAAGAGCGTTCGCGTGGGAGCTTTTGTCTA-TATTTTTAATGACATTGCAT
1 GAACTACTGTAGAAAAAGAGCGTCCACGTGGGAGCTTTTTTC-AGAAATTTTACTGACATTGCAT
* *
77097942 CCTGCTTGAAGCGTTTTTAACACTATTTGTTCAGAAATGTCTTCTCAAAATTATTTTTTCAG
65 CCTGCTTGAAGCGTTTTTGACACTATTTGTTCAGAAACGTCTTCTCAAAATTATTTTTTCAG
77098004 G
1 G
77098005 GTAAAAATAG
Statistics
Matches: 340, Mismatches: 35, Indels: 7
0.89 0.09 0.02
Matches are distributed among these distances:
125 109 0.32
126 229 0.67
127 2 0.01
ACGTcount: A:0.27, C:0.17, G:0.17, T:0.38
Consensus pattern (126 bp):
GAACTACTGTAGAAAAAGAGCGTCCACGTGGGAGCTTTTTTCAGAAATTTTACTGACATTGCATC
CTGCTTGAAGCGTTTTTGACACTATTTGTTCAGAAACGTCTTCTCAAAATTATTTTTTCAG
Found at i:77098132 original size:29 final size:29
Alignment explanation
Indices: 77098057--77098138 Score: 87
Period size: 28 Copynumber: 2.8 Consensus size: 29
77098047 TTTAAAAAAA
* *
77098057 CTAAACCCTAATTTAATTAATTT-TAACC
1 CTAAACCCTAATTTAATTTATTTAAAACC
* * *
77098085 CTAATCTCTATTTTAATTTATTTAAAACC
1 CTAAACCCTAATTTAATTTATTTAAAACC
77098114 CTAGAACCCTAATTT-ATTTAATTTA
1 CTA-AACCCTAATTTAATTT-ATTTA
77098139 TTTAAAAAAC
Statistics
Matches: 43, Mismatches: 8, Indels: 4
0.78 0.15 0.07
Matches are distributed among these distances:
28 19 0.44
29 11 0.26
30 13 0.30
ACGTcount: A:0.37, C:0.18, G:0.01, T:0.44
Consensus pattern (29 bp):
CTAAACCCTAATTTAATTTATTTAAAACC
Found at i:77098160 original size:34 final size:34
Alignment explanation
Indices: 77098081--77098163 Score: 96
Period size: 34 Copynumber: 2.4 Consensus size: 34
77098071 AATTAATTTT
* *
77098081 AACCCTAATCTCTATTTTAATTTATTTAAAACCCTAG
1 AACCCTAAT-T-TA-TTTAATTTATTTAAAAACATAG
77098118 AACCCTAATTTATTTAATTTATTTAAAAAACATA-
1 AACCCTAATTTATTTAATTTATTT-AAAAACATAG
*
77098152 AACTCTAATTTA
1 AACCCTAATTTA
77098164 ATAAACCCTA
Statistics
Matches: 42, Mismatches: 3, Indels: 5
0.84 0.06 0.10
Matches are distributed among these distances:
34 23 0.55
35 9 0.21
36 1 0.02
37 9 0.21
ACGTcount: A:0.41, C:0.17, G:0.01, T:0.41
Consensus pattern (34 bp):
AACCCTAATTTATTTAATTTATTTAAAAACATAG
Found at i:77098197 original size:22 final size:21
Alignment explanation
Indices: 77098172--77098222 Score: 59
Period size: 22 Copynumber: 2.4 Consensus size: 21
77098162 TAATAAACCC
*
77098172 TAAAACCTAA-TGTAGTTTATTT
1 TAAAACCTAACT-TAATTTA-TT
*
77098194 TAAACCCTAACTTAATTTATT
1 TAAAACCTAACTTAATTTATT
77098215 TAAAACCT
1 TAAAACCT
77098223 TAGAACCCTA
Statistics
Matches: 25, Mismatches: 3, Indels: 3
0.81 0.10 0.10
Matches are distributed among these distances:
21 9 0.36
22 15 0.60
23 1 0.04
ACGTcount: A:0.39, C:0.16, G:0.04, T:0.41
Consensus pattern (21 bp):
TAAAACCTAACTTAATTTATT
Found at i:77098307 original size:22 final size:22
Alignment explanation
Indices: 77098282--77098334 Score: 88
Period size: 22 Copynumber: 2.4 Consensus size: 22
77098272 CCCTAAATCC
* *
77098282 AAAAACCTAATTTAATTTATTT
1 AAAACCCTAACTTAATTTATTT
77098304 AAAACCCTAACTTAATTTATTT
1 AAAACCCTAACTTAATTTATTT
77098326 AAAACCCTA
1 AAAACCCTA
77098335 GAACCCTAAT
Statistics
Matches: 29, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
22 29 1.00
ACGTcount: A:0.45, C:0.17, G:0.00, T:0.38
Consensus pattern (22 bp):
AAAACCCTAACTTAATTTATTT
Found at i:77098359 original size:34 final size:34
Alignment explanation
Indices: 77098313--77098381 Score: 95
Period size: 34 Copynumber: 2.0 Consensus size: 34
77098303 TAAAACCCTA
* *
77098313 ACTTAATTTATTT-AAAACCCTAGAACCCTAATTT
1 ACTTAATCTATTTAAAAACCATA-AACCCTAATTT
*
77098347 ACTTAATCTATTTAAAAAGCATAAACCCTAATTT
1 ACTTAATCTATTTAAAAACCATAAACCCTAATTT
77098381 A
1 A
77098382 ATAAACCCTA
Statistics
Matches: 31, Mismatches: 3, Indels: 2
0.86 0.08 0.06
Matches are distributed among these distances:
34 24 0.77
35 7 0.23
ACGTcount: A:0.42, C:0.19, G:0.03, T:0.36
Consensus pattern (34 bp):
ACTTAATCTATTTAAAAACCATAAACCCTAATTT
Found at i:77098423 original size:22 final size:22
Alignment explanation
Indices: 77098398--77098440 Score: 68
Period size: 22 Copynumber: 2.0 Consensus size: 22
77098388 CCTAAACCTA
* *
77098398 AAACCCTAATTTAATTTATTTT
1 AAACACTAACTTAATTTATTTT
77098420 AAACACTAACTTAATTTATTT
1 AAACACTAACTTAATTTATTT
77098441 AAAATTCTAG
Statistics
Matches: 19, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
22 19 1.00
ACGTcount: A:0.40, C:0.14, G:0.00, T:0.47
Consensus pattern (22 bp):
AAACACTAACTTAATTTATTTT
Found at i:77098441 original size:115 final size:114
Alignment explanation
Indices: 77098097--77098491 Score: 521
Period size: 110 Copynumber: 3.6 Consensus size: 114
77098087 AATCTCTATT
* * *
77098097 TTAATTTATTTAAAACCCTAGAACCCTAATTTATTTAATTTATTTAAAAAACATAAACTCTAATT
1 TTAATTTATTTAAAACCCTAGAACCCTAATTTACTTAATCTATTTAAAAAACATAAACCCTAATT
* *
77098162 TAATAAA--C----CCTAAAACCTAATGTAGTTTATTTTAAACCCTAAC
66 TAATAAACCCTAAACCTAAAACCTAATTTAATTTATTTTAAACCCTAAC
* *
77098205 TTAATTTATTTAAAACCTTAGAACCCTAATTTACTTAATCTATTTTAAAAAAACATAAGCCCTAA
1 TTAATTTATTTAAAACCCTAGAACCCTAATTTACTTAATCTA-TTT-AAAAAACATAAACCCTAA
* *
77098270 --T--T---CCCTAAATCCAAAAACCTAATTTAATTTATTTAAAACCCTAAC
64 TTTAATAAACCCTAAA-CCTAAAACCTAATTTAATTTATTTTAAACCCTAAC
*
77098315 TTAATTTATTTAAAACCCTAGAACCCTAATTTACTTAATCTATTTAAAAAGCATAAACCCTAATT
1 TTAATTTATTTAAAACCCTAGAACCCTAATTTACTTAATCTATTTAAAAAACATAAACCCTAATT
*
77098380 TAATAAACCCTAAACCTAAAACCCTAATTTAATTTATTTTAAACACTAAC
66 TAATAAACCCTAAACCTAAAA-CCTAATTTAATTTATTTTAAACCCTAAC
** * *
77098430 TTAATTTATTTAAAATTCTAGAACCCTAATTTACTTAATCTATTT-AAAACCATAAAACCTAA
1 TTAATTTATTTAAAACCCTAGAACCCTAATTTACTTAATCTATTTAAAAAACATAAACCCTAA
77098492 GCCCTAATTT
Statistics
Matches: 251, Mismatches: 19, Indels: 28
0.84 0.06 0.09
Matches are distributed among these distances:
105 1 0.00
106 1 0.00
108 56 0.22
109 6 0.02
110 89 0.35
112 1 0.00
114 21 0.08
115 76 0.30
ACGTcount: A:0.43, C:0.18, G:0.02, T:0.36
Consensus pattern (114 bp):
TTAATTTATTTAAAACCCTAGAACCCTAATTTACTTAATCTATTTAAAAAACATAAACCCTAATT
TAATAAACCCTAAACCTAAAACCTAATTTAATTTATTTTAAACCCTAAC
Found at i:77098680 original size:34 final size:35
Alignment explanation
Indices: 77098607--77098673 Score: 107
Period size: 35 Copynumber: 1.9 Consensus size: 35
77098597 TACTAAAACT
*
77098607 CTAAACCCTAACTTGTTTTAACAAAAACCTAAATA
1 CTAAACCCTAACTTATTTTAACAAAAACCTAAATA
* *
77098642 CTAAACCCTAACTTATTTTAGCAAAACCCTAA
1 CTAAACCCTAACTTATTTTAACAAAAACCTAA
77098674 TCCTAAAAAC
Statistics
Matches: 29, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
35 29 1.00
ACGTcount: A:0.43, C:0.25, G:0.03, T:0.28
Consensus pattern (35 bp):
CTAAACCCTAACTTATTTTAACAAAAACCTAAATA
Found at i:77103803 original size:12 final size:13
Alignment explanation
Indices: 77103749--77103803 Score: 51
Period size: 12 Copynumber: 4.2 Consensus size: 13
77103739 ATTTGTAAGA
77103749 AATGATAT-TAAT
1 AATGATATATAAT
*
77103761 AATGATATTTAAT
1 AATGATATATAAT
* *
77103774 AATAATAGTAGTAGT
1 AATGATA-TA-TAAT
77103789 AATGATA-ATAAT
1 AATGATATATAAT
77103801 AAT
1 AAT
77103804 TTGGACTCTT
Statistics
Matches: 35, Mismatches: 5, Indels: 6
0.76 0.11 0.13
Matches are distributed among these distances:
12 14 0.40
13 11 0.31
14 1 0.03
15 9 0.26
ACGTcount: A:0.51, C:0.00, G:0.11, T:0.38
Consensus pattern (13 bp):
AATGATATATAAT
Found at i:77104242 original size:42 final size:42
Alignment explanation
Indices: 77104195--77104492 Score: 367
Period size: 42 Copynumber: 7.3 Consensus size: 42
77104185 ATTCATATAC
* * *
77104195 AATGCAATGAAAAGTAAATGGACCTCCACACCTGGACCTTTA
1 AATGCAATGAAAAGTAAATGGACCTCCACACTTGGGCCTCTA
* * * * ** *
77104237 AATGCATTAAAAAGTAAATGGATCTCTATGCTTGGGCCTCAA
1 AATGCAATGAAAAGTAAATGGACCTCCACACTTGGGCCTCTA
77104279 AATGCAATGAAAAGTAAATGGACCTCCACACTTGGGCCTCT-
1 AATGCAATGAAAAGTAAATGGACCTCCACACTTGGGCCTCTA
* *
77104320 -ATGCAATGAAAAGTAAATGGATCTCCACACCT-GGCCT-T-
1 AATGCAATGAAAAGTAAATGGACCTCCACACTTGGGCCTCTA
*
77104358 TATGCAATGAAAAGTAAATGGACCT-C-CACTTGGGCCTCTA
1 AATGCAATGAAAAGTAAATGGACCTCCACACTTGGGCCTCTA
* * ** * *
77104398 AATGCAATAAAAAGTAAATGGACCTCTATGCCTGAGCCTCTA
1 AATGCAATGAAAAGTAAATGGACCTCCACACTTGGGCCTCTA
*
77104440 AATGCAATGAAAAATAAATGGACCTCCACACTTGGGCCTCTA
1 AATGCAATGAAAAGTAAATGGACCTCCACACTTGGGCCTCTA
77104482 AATGCAATGAA
1 AATGCAATGAA
77104493 TGCTTTCTTT
Statistics
Matches: 215, Mismatches: 35, Indels: 12
0.82 0.13 0.05
Matches are distributed among these distances:
37 4 0.02
38 7 0.03
39 29 0.13
40 53 0.25
42 122 0.57
ACGTcount: A:0.37, C:0.22, G:0.18, T:0.23
Consensus pattern (42 bp):
AATGCAATGAAAAGTAAATGGACCTCCACACTTGGGCCTCTA
Found at i:77104289 original size:84 final size:83
Alignment explanation
Indices: 77104195--77104489 Score: 404
Period size: 84 Copynumber: 3.6 Consensus size: 83
77104185 ATTCATATAC
* * * *
77104195 AATGCAATGAAAAGTAAATGGACCTCCACACCTGGACCTTTAAATGCATTAAAAAGTAAATGGAT
1 AATGCAATGAAAAGTAAATGGACCTCCACACTTGGGCCTCTAAATGCAATAAAAAGTAAATGGAT
*
77104260 CTCTATGCTTGGGCCTCAA
66 CTCTATGCCTGGGCCTC-A
*
77104279 AATGCAATGAAAAGTAAATGGACCTCCACACTTGGGCCTCT--ATGCAATGAAAAGTAAATGGAT
1 AATGCAATGAAAAGTAAATGGACCTCCACACTTGGGCCTCTAAATGCAATAAAAAGTAAATGGAT
* ** *
77104342 CTCCACACCT-GGCCT-T
66 CTCTATGCCTGGGCCTCA
* *
77104358 TATGCAATGAAAAGTAAATGGACCT-C-CACTTGGGCCTCTAAATGCAATAAAAAGTAAATGGAC
1 AATGCAATGAAAAGTAAATGGACCTCCACACTTGGGCCTCTAAATGCAATAAAAAGTAAATGGAT
*
77104421 CTCTATGCCTGAGCCTCTA
66 CTCTATGCCTGGGCCTC-A
*
77104440 AATGCAATGAAAAATAAATGGACCTCCACACTTGGGCCTCTAAATGCAAT
1 AATGCAATGAAAAGTAAATGGACCTCCACACTTGGGCCTCTAAATGCAAT
77104490 GAATGCTTTC
Statistics
Matches: 184, Mismatches: 20, Indels: 14
0.84 0.09 0.06
Matches are distributed among these distances:
77 13 0.07
78 1 0.01
79 51 0.28
80 4 0.02
81 5 0.03
82 49 0.27
83 1 0.01
84 60 0.33
ACGTcount: A:0.36, C:0.22, G:0.18, T:0.24
Consensus pattern (83 bp):
AATGCAATGAAAAGTAAATGGACCTCCACACTTGGGCCTCTAAATGCAATAAAAAGTAAATGGAT
CTCTATGCCTGGGCCTCA
Found at i:77104463 original size:161 final size:164
Alignment explanation
Indices: 77104196--77104492 Score: 483
Period size: 161 Copynumber: 1.8 Consensus size: 164
77104186 TTCATATACA
* * *
77104196 ATGCAATGAAAAGTAAATGGACCTCCACACCTGGACCTTTAAATGCATTAAAAAGTAAATGGATC
1 ATGCAATGAAAAGTAAATGGACCTCCACACCTGGACCTCTAAATGCAATAAAAAGTAAATGGACC
* * *
77104261 TCTATGCTTGGGCCTCAAAATGCAATGAAAAGTAAATGGACCTCCACACTTGGGCCTCT-ATGCA
66 TCTATGCCTGAGCCTCAAAATGCAATGAAAAATAAATGGACCTCCACACTTGGGCCTCTAATGCA
77104325 ATGAAAAGTAAATGGATCTCCACACCTGGCCTTT
131 ATGAAAAGTAAATGGATCTCCACACCTGGCCTTT
* *
77104359 ATGCAATGAAAAGTAAATGGACCT-C-CACTTGGGCCTCTAAATGCAATAAAAAGTAAATGGACC
1 ATGCAATGAAAAGTAAATGGACCTCCACACCTGGACCTCTAAATGCAATAAAAAGTAAATGGACC
*
77104422 TCTATGCCTGAGCCTCTAAATGCAATGAAAAATAAATGGACCTCCACACTTGGGCCTCTAAATGC
66 TCTATGCCTGAGCCTCAAAATGCAATGAAAAATAAATGGACCTCCACACTTGGGCCTCT-AATGC
77104487 AATGAA
130 AATGAA
77104493 TGCTTTCTTT
Statistics
Matches: 123, Mismatches: 9, Indels: 4
0.90 0.07 0.03
Matches are distributed among these distances:
161 88 0.72
162 1 0.01
163 34 0.28
ACGTcount: A:0.36, C:0.22, G:0.18, T:0.24
Consensus pattern (164 bp):
ATGCAATGAAAAGTAAATGGACCTCCACACCTGGACCTCTAAATGCAATAAAAAGTAAATGGACC
TCTATGCCTGAGCCTCAAAATGCAATGAAAAATAAATGGACCTCCACACTTGGGCCTCTAATGCA
ATGAAAAGTAAATGGATCTCCACACCTGGCCTTT
Found at i:77112669 original size:13 final size:13
Alignment explanation
Indices: 77112651--77112677 Score: 54
Period size: 13 Copynumber: 2.1 Consensus size: 13
77112641 ATTTCAAAAG
77112651 TTAGAAAATTATT
1 TTAGAAAATTATT
77112664 TTAGAAAATTATT
1 TTAGAAAATTATT
77112677 T
1 T
77112678 GGATTTGTCA
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 14 1.00
ACGTcount: A:0.44, C:0.00, G:0.07, T:0.48
Consensus pattern (13 bp):
TTAGAAAATTATT
Found at i:77117749 original size:39 final size:39
Alignment explanation
Indices: 77117695--77117781 Score: 138
Period size: 39 Copynumber: 2.2 Consensus size: 39
77117685 TTCAGTGATG
* *
77117695 TATATCCGGACTTAAGGTCCACAGGCTATGTGCTGGAAT
1 TATATCCGGACTTAAGGTCCACAGGCTACGTGCTGGAAA
*
77117734 TATATCCGGACTTAAGGTCCGCAGGCTACGTGCTGGAAA
1 TATATCCGGACTTAAGGTCCACAGGCTACGTGCTGGAAA
*
77117773 TATGTCCGG
1 TATATCCGG
77117782 GCTAAAGTCC
Statistics
Matches: 44, Mismatches: 4, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
39 44 1.00
ACGTcount: A:0.24, C:0.22, G:0.28, T:0.26
Consensus pattern (39 bp):
TATATCCGGACTTAAGGTCCACAGGCTACGTGCTGGAAA
Found at i:77117795 original size:39 final size:39
Alignment explanation
Indices: 77117695--77117808 Score: 131
Period size: 39 Copynumber: 2.9 Consensus size: 39
77117685 TTCAGTGATG
* * * *
77117695 TATATCCGGACTTAAGGTCCACAGGCTATGTGCTGGAAT
1 TATATCCGGACTTAAAGTCCGCAGGCTACGTGCTGGAAA
*
77117734 TATATCCGGACTTAAGGTCCGCAGGCTACGTGCTGGAAA
1 TATATCCGGACTTAAAGTCCGCAGGCTACGTGCTGGAAA
* * * *
77117773 TATGTCCGGGC-TAAAGTCCCGCAGGCTTCGAGCTGG
1 TATATCCGGACTTAAAGT-CCGCAGGCTACGTGCTGG
77117809 TATTATACCG
Statistics
Matches: 66, Mismatches: 8, Indels: 2
0.87 0.11 0.03
Matches are distributed among these distances:
38 5 0.08
39 61 0.92
ACGTcount: A:0.23, C:0.24, G:0.29, T:0.25
Consensus pattern (39 bp):
TATATCCGGACTTAAAGTCCGCAGGCTACGTGCTGGAAA
Found at i:77119730 original size:45 final size:45
Alignment explanation
Indices: 77119666--77119756 Score: 173
Period size: 45 Copynumber: 2.0 Consensus size: 45
77119656 TTAACTAATT
77119666 TCATGTCAACATTTATAGGGTGGAAAAAAGACCTAAAGTCCCCTC
1 TCATGTCAACATTTATAGGGTGGAAAAAAGACCTAAAGTCCCCTC
*
77119711 TCATGTCAACATTTATAGGGTGGAAAAATGACCTAAAGTCCCCTC
1 TCATGTCAACATTTATAGGGTGGAAAAAAGACCTAAAGTCCCCTC
77119756 T
1 T
77119757 TTTAAAATGA
Statistics
Matches: 45, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
45 45 1.00
ACGTcount: A:0.34, C:0.22, G:0.18, T:0.26
Consensus pattern (45 bp):
TCATGTCAACATTTATAGGGTGGAAAAAAGACCTAAAGTCCCCTC
Found at i:77120928 original size:149 final size:149
Alignment explanation
Indices: 77120641--77120928 Score: 456
Period size: 149 Copynumber: 1.9 Consensus size: 149
77120631 AAATTATTAT
* *
77120641 TTTTCTTAAAAATCAAAGCTTTATTTCGAAATAGTTGAAAAAGATTAAAACTTTGTTTTAAAAAA
1 TTTTCTTAAAAATCAAAGCTTTATTTCAAAATAGTTGAAAAAGATTAAAACTTTATTTTAAAAAA
***
77120706 TTTAAGCTTTTCCTTTAAAATGACTAAAAGACATATTTTTATTTTAAAAAATCTAAACTTTCTCT
66 TTTAAAAATTTCCTTTAAAATGACTAAAAGACATATTTTTATTTTAAAAAATCTAAACTTTCTCT
*
77120771 TTTTAAAAAAAAAACACTA
131 TTTAAAAAAAAAAACACTA
* *
77120790 TTTTCTTAAAAATCAAAGTTTTATTTCAAAATAGTTGAAAAAGATTAAAACTTTATTTT-AAAAT
1 TTTTCTTAAAAATCAAAGCTTTATTTCAAAATAGTTGAAAAAGATTAAAACTTTATTTTAAAAAA
* *
77120854 TTTAAAAATTTCCTTTAATATGACTATAAA-ATATATTTTTATTTT-AAAAATCTAAACTTTCTC
66 TTTAAAAATTTCCTTTAAAATGACTA-AAAGACATATTTTTATTTTAAAAAATCTAAACTTTCTC
77120917 TTTTAAAAAAAA
130 TTTTAAAAAAAA
77120929 TCAAATTTTT
Statistics
Matches: 128, Mismatches: 10, Indels: 4
0.90 0.07 0.03
Matches are distributed among these distances:
147 29 0.23
148 40 0.31
149 59 0.46
ACGTcount: A:0.44, C:0.09, G:0.05, T:0.42
Consensus pattern (149 bp):
TTTTCTTAAAAATCAAAGCTTTATTTCAAAATAGTTGAAAAAGATTAAAACTTTATTTTAAAAAA
TTTAAAAATTTCCTTTAAAATGACTAAAAGACATATTTTTATTTTAAAAAATCTAAACTTTCTCT
TTTAAAAAAAAAAACACTA
Found at i:77121326 original size:10 final size:11
Alignment explanation
Indices: 77121294--77121320 Score: 54
Period size: 11 Copynumber: 2.5 Consensus size: 11
77121284 TGACAGGCCC
77121294 AAAAAGAAAAT
1 AAAAAGAAAAT
77121305 AAAAAGAAAAT
1 AAAAAGAAAAT
77121316 AAAAA
1 AAAAA
77121321 CAAATACCTC
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 16 1.00
ACGTcount: A:0.85, C:0.00, G:0.07, T:0.07
Consensus pattern (11 bp):
AAAAAGAAAAT
Found at i:77121721 original size:26 final size:27
Alignment explanation
Indices: 77121673--77121729 Score: 73
Period size: 26 Copynumber: 2.1 Consensus size: 27
77121663 TCCCTTTTAC
*
77121673 TAAAAAATAAAATGAATTCTAAAAGAA
1 TAAAAAATAAAATGAAATCTAAAAGAA
*
77121700 TAAAACAATAAAA-GAAAT-TAAAAGGA
1 TAAAA-AATAAAATGAAATCTAAAAGAA
77121726 TAAA
1 TAAA
77121730 TTAAGTTACT
Statistics
Matches: 27, Mismatches: 2, Indels: 3
0.84 0.06 0.09
Matches are distributed among these distances:
26 11 0.41
27 9 0.33
28 7 0.26
ACGTcount: A:0.68, C:0.04, G:0.09, T:0.19
Consensus pattern (27 bp):
TAAAAAATAAAATGAAATCTAAAAGAA
Found at i:77125418 original size:24 final size:25
Alignment explanation
Indices: 77125382--77125432 Score: 68
Period size: 24 Copynumber: 2.1 Consensus size: 25
77125372 GGAACACACC
77125382 TAAAAAACAATCACCAAAACAATAT
1 TAAAAAACAATCACCAAAACAATAT
* * *
77125407 TAAAAAA-TATCACTAAAATAATAT
1 TAAAAAACAATCACCAAAACAATAT
77125431 TA
1 TA
77125433 TGGCTAGCCC
Statistics
Matches: 23, Mismatches: 3, Indels: 1
0.85 0.11 0.04
Matches are distributed among these distances:
24 16 0.70
25 7 0.30
ACGTcount: A:0.63, C:0.14, G:0.00, T:0.24
Consensus pattern (25 bp):
TAAAAAACAATCACCAAAACAATAT
Found at i:77125506 original size:18 final size:18
Alignment explanation
Indices: 77125483--77125575 Score: 59
Period size: 18 Copynumber: 5.4 Consensus size: 18
77125473 CACGCACGCA
77125483 CGCACGCACGCAAGCACG
1 CGCACGCACGCAAGCACG
* * *
77125501 CGCACGCACGTACGCAAG
1 CGCACGCACGCAAGCACG
** * * *
77125519 CAAACACATGCACGCACG
1 CGCACGCACGCAAGCACG
* *
77125537 CGCACACGCGC-A-CACG
1 CGCACGCACGCAAGCACG
*
77125553 CACACGCACGC--GCACG
1 CGCACGCACGCAAGCACG
77125569 CGCACGC
1 CGCACGC
77125576 GCACGCGCAC
Statistics
Matches: 56, Mismatches: 18, Indels: 4
0.72 0.23 0.05
Matches are distributed among these distances:
16 22 0.39
18 34 0.61
ACGTcount: A:0.28, C:0.45, G:0.25, T:0.02
Consensus pattern (18 bp):
CGCACGCACGCAAGCACG
Found at i:77125509 original size:30 final size:30
Alignment explanation
Indices: 77125473--77125631 Score: 79
Period size: 30 Copynumber: 5.5 Consensus size: 30
77125463 CACACACATA
77125473 CACGCACGCACGCACGCACGCAAGCACGCG
1 CACGCACGCACGCACGCACGCAAGCACGCG
* * * *
77125503 CACGCACGTACGCAAGCAAACACATGCA--CG
1 CACGCACGCACGCACGC--ACGCAAGCACGCG
* * * *
77125533 CACGCGCACACGCGCACACGCACACGCACGCG
1 CACGCACGCACGCACGCACGCA-A-GCACGCG
77125565 CACG--CGCACG--CGCACGC--GCACGCG
1 CACGCACGCACGCACGCACGCAAGCACGCG
* * * * *
77125589 CATGCACACGCACACGCACACACA-CACGCG
1 CACGCACGCACGCACGCACGCA-AGCACGCG
77125619 CACG--CGCACGCAC
1 CACGCACGCACGCAC
77125632 ACGCACACGC
Statistics
Matches: 93, Mismatches: 23, Indels: 28
0.65 0.16 0.19
Matches are distributed among these distances:
24 10 0.11
26 3 0.03
28 22 0.24
30 45 0.48
32 13 0.14
ACGTcount: A:0.28, C:0.47, G:0.24, T:0.02
Consensus pattern (30 bp):
CACGCACGCACGCACGCACGCAAGCACGCG
Found at i:77125536 original size:4 final size:4
Alignment explanation
Indices: 77125473--77125516 Score: 56
Period size: 4 Copynumber: 11.5 Consensus size: 4
77125463 CACACACATA
* *
77125473 CACG CACG CACG CACG CACG CAAG CACG --CG CACG CACG TACG CA
1 CACG CACG CACG CACG CACG CACG CACG CACG CACG CACG CACG CA
77125517 AGCAAACACA
Statistics
Matches: 34, Mismatches: 4, Indels: 4
0.81 0.10 0.10
Matches are distributed among these distances:
2 2 0.06
4 32 0.94
ACGTcount: A:0.27, C:0.45, G:0.25, T:0.02
Consensus pattern (4 bp):
CACG
Found at i:77125554 original size:6 final size:6
Alignment explanation
Indices: 77125529--77125681 Score: 157
Period size: 6 Copynumber: 25.5 Consensus size: 6
77125519 CAAACACATG
* * * *
77125529 CACGCA CGCGCA CACGCGCA CACGCA CACG-- CACGCG CACGCG CACGCG
1 CACGCA CACGCA CA--CGCA CACGCA CACGCA CACGCA CACGCA CACGCA
* * * * * *
77125577 CACGCG CACGCG CATGCA CACGCA CACGCA CACACA CACGCG CACGCG
1 CACGCA CACGCA CACGCA CACGCA CACGCA CACGCA CACGCA CACGCA
* *
77125625 CACGCA CACGCA CACGCA CACGCA CACGCA CACGCA CATGCA CACACA
1 CACGCA CACGCA CACGCA CACGCA CACGCA CACGCA CACGCA CACGCA
*
77125673 CACACA CAC
1 CACGCA CAC
77125682 CTAAAAAATA
Statistics
Matches: 131, Mismatches: 12, Indels: 8
0.87 0.08 0.05
Matches are distributed among these distances:
4 4 0.03
6 121 0.92
8 6 0.05
ACGTcount: A:0.29, C:0.49, G:0.20, T:0.01
Consensus pattern (6 bp):
CACGCA
Found at i:77125724 original size:28 final size:28
Alignment explanation
Indices: 77125683--77125737 Score: 83
Period size: 28 Copynumber: 2.0 Consensus size: 28
77125673 CACACACACC
*
77125683 TAAAAAATAGTCACTACATGCATATTAT
1 TAAAAAATAATCACTACATGCATATTAT
* *
77125711 TAAAAAATAATCACTGCATGCTTATTA
1 TAAAAAATAATCACTACATGCATATTA
77125738 AAAATAGTCA
Statistics
Matches: 24, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
28 24 1.00
ACGTcount: A:0.45, C:0.15, G:0.07, T:0.33
Consensus pattern (28 bp):
TAAAAAATAATCACTACATGCATATTAT
Found at i:77125932 original size:75 final size:75
Alignment explanation
Indices: 77125725--77125975 Score: 263
Period size: 75 Copynumber: 3.2 Consensus size: 75
77125715 AAATAATCAC
* * * * * *
77125725 TGCATGCTTATTAAAAATAGTCAACAACATGTGACCGTTCCCACCAACAATCACACACACACACA
1 TGCATGCATATTAAAAA-AGTCAACAACATATGACCATCCCCACCAACAATCATACACAGACA-A
*
77125790 TACCTAAAAAAAGTCAAT
64 -A--TTAAAAAA--C-AT
* * ** * *
77125808 T-CATGCGTATTAGAAATAGTCAACAGTATAAT-ACCATCCCCGCCAACAATCATACACAGATAA
1 TGCATGCATATTA-AAAAAGTCAACAACAT-ATGACCATCCCCACCAACAATCATACACAGACAA
77125871 ATTAAAAAACAT
64 ATTAAAAAACAT
* *
77125883 TGCATGCATATTAAAAAAGTCAACAACATATGACCAACCCCACCAACAATCATACACAGACATAT
1 TGCATGCATATTAAAAAAGTCAACAACATATGACCATCCCCACCAACAATCATACACAGACAAAT
77125948 TAAAAAACAT
66 TAAAAAACAT
77125958 TGCATGCATATTAAAAAA
1 TGCATGCATATTAAAAAA
77125976 CACTCACTAA
Statistics
Matches: 144, Mismatches: 20, Indels: 16
0.80 0.11 0.09
Matches are distributed among these distances:
74 2 0.01
75 73 0.51
76 11 0.08
78 7 0.05
80 1 0.01
81 1 0.01
82 44 0.31
83 5 0.03
ACGTcount: A:0.46, C:0.24, G:0.08, T:0.21
Consensus pattern (75 bp):
TGCATGCATATTAAAAAAGTCAACAACATATGACCATCCCCACCAACAATCATACACAGACAAAT
TAAAAAACAT
Found at i:77127581 original size:21 final size:21
Alignment explanation
Indices: 77127555--77127596 Score: 75
Period size: 21 Copynumber: 2.0 Consensus size: 21
77127545 ATCACTATCG
*
77127555 CACAGTTCACCTACTTCTGTA
1 CACAGTTCACCTACATCTGTA
77127576 CACAGTTCACCTACATCTGTA
1 CACAGTTCACCTACATCTGTA
77127597 TCATCCATGT
Statistics
Matches: 20, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
21 20 1.00
ACGTcount: A:0.26, C:0.33, G:0.10, T:0.31
Consensus pattern (21 bp):
CACAGTTCACCTACATCTGTA
Done.