Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: A11
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: 114316535
ACGTcount: A:0.31, C:0.16, G:0.16, T:0.31
Warning! 4920000 characters in sequence are not A, C, G, or T
File 328 of 356
Found at i:105717030 original size:21 final size:22
Alignment explanation
Indices: 105717004--105717050 Score: 78
Period size: 21 Copynumber: 2.2 Consensus size: 22
105716994 CTCTGCTCAA
*
105717004 ACTCCACCTGCTGCGGAGTAC-
1 ACTCCACCTGCTGCGAAGTACT
105717025 ACTCCACCTGCTGCGAAGTACT
1 ACTCCACCTGCTGCGAAGTACT
105717047 ACTC
1 ACTC
105717051 ACTCCTTCTG
Statistics
Matches: 24, Mismatches: 1, Indels: 1
0.92 0.04 0.04
Matches are distributed among these distances:
21 20 0.83
22 4 0.17
ACGTcount: A:0.21, C:0.38, G:0.19, T:0.21
Consensus pattern (22 bp):
ACTCCACCTGCTGCGAAGTACT
Found at i:105723364 original size:18 final size:17
Alignment explanation
Indices: 105723341--105723386 Score: 56
Period size: 18 Copynumber: 2.6 Consensus size: 17
105723331 TTCTTTCTAT
*
105723341 TATTTTATAATTATTATA
1 TATTTTAAAATT-TTATA
*
105723359 TATTTTAAAATTTTTTA
1 TATTTTAAAATTTTATA
105723376 TGATTTTAAAA
1 T-ATTTTAAAA
105723387 ATAAATTATT
Statistics
Matches: 25, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
17 5 0.20
18 20 0.80
ACGTcount: A:0.39, C:0.00, G:0.02, T:0.59
Consensus pattern (17 bp):
TATTTTAAAATTTTATA
Found at i:105724129 original size:42 final size:41
Alignment explanation
Indices: 105724082--105724168 Score: 111
Period size: 41 Copynumber: 2.1 Consensus size: 41
105724072 TATTTTTTCG
* *
105724082 AAGTTTCTGTTAATATTTAAAACCAAAATAATTATTAGTGTA
1 AAGTTTATGTTAATATTT-AAACCAAAATAATTAATAGTGTA
* * * *
105724124 AAGTTTATGTTAATATTTTAATCAATATAATTAATAGTGTC
1 AAGTTTATGTTAATATTTAAACCAAAATAATTAATAGTGTA
105724165 AAGT
1 AAGT
105724169 GATTGAACTA
Statistics
Matches: 39, Mismatches: 6, Indels: 1
0.85 0.13 0.02
Matches are distributed among these distances:
41 22 0.56
42 17 0.44
ACGTcount: A:0.41, C:0.06, G:0.10, T:0.43
Consensus pattern (41 bp):
AAGTTTATGTTAATATTTAAACCAAAATAATTAATAGTGTA
Found at i:105726184 original size:18 final size:18
Alignment explanation
Indices: 105726161--105726195 Score: 54
Period size: 18 Copynumber: 1.9 Consensus size: 18
105726151 TATTTAAAAA
105726161 AATATAA-AATTAAAATTT
1 AATATAATAA-TAAAATTT
105726179 AATATAATAATAAAATT
1 AATATAATAATAAAATT
105726196 AAATTTTAAT
Statistics
Matches: 16, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
18 14 0.88
19 2 0.12
ACGTcount: A:0.63, C:0.00, G:0.00, T:0.37
Consensus pattern (18 bp):
AATATAATAATAAAATTT
Found at i:105726187 original size:23 final size:24
Alignment explanation
Indices: 105726152--105726205 Score: 74
Period size: 24 Copynumber: 2.3 Consensus size: 24
105726142 AGATAAACTT
*
105726152 ATTTAAAAAAAT-ATAAAATTAAA
1 ATTTAATAAAATAATAAAATTAAA
*
105726175 ATTTAATATAATAATAAAATTAAA
1 ATTTAATAAAATAATAAAATTAAA
*
105726199 TTTTAAT
1 ATTTAAT
105726206 TTTCTAACAT
Statistics
Matches: 27, Mismatches: 3, Indels: 1
0.87 0.10 0.03
Matches are distributed among these distances:
23 10 0.37
24 17 0.63
ACGTcount: A:0.61, C:0.00, G:0.00, T:0.39
Consensus pattern (24 bp):
ATTTAATAAAATAATAAAATTAAA
Found at i:105728624 original size:25 final size:26
Alignment explanation
Indices: 105728577--105728625 Score: 73
Period size: 25 Copynumber: 1.9 Consensus size: 26
105728567 AGTCTTCAAC
105728577 CCAATTAAACTAAACTAAACCCAATA
1 CCAATTAAACTAAACTAAACCCAATA
* *
105728603 CCAATTAAAC-CAACTAAGCCCAA
1 CCAATTAAACTAAACTAAACCCAA
105728626 CCTACCTTAG
Statistics
Matches: 21, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
25 11 0.52
26 10 0.48
ACGTcount: A:0.51, C:0.31, G:0.02, T:0.16
Consensus pattern (26 bp):
CCAATTAAACTAAACTAAACCCAATA
Found at i:105730982 original size:22 final size:22
Alignment explanation
Indices: 105730948--105730996 Score: 55
Period size: 22 Copynumber: 2.2 Consensus size: 22
105730938 TTTTAGGAAT
105730948 TTTTTTATGTA-TTATTGTATTA
1 TTTTTTATGTATTTATTGTA-TA
* * *
105730970 TTTTTTCTTTATTTATTTTATA
1 TTTTTTATGTATTTATTGTATA
105730992 TTTTT
1 TTTTT
105730997 AATACATATC
Statistics
Matches: 23, Mismatches: 3, Indels: 2
0.82 0.11 0.07
Matches are distributed among these distances:
22 16 0.70
23 7 0.30
ACGTcount: A:0.18, C:0.02, G:0.04, T:0.76
Consensus pattern (22 bp):
TTTTTTATGTATTTATTGTATA
Found at i:105732576 original size:3 final size:3
Alignment explanation
Indices: 105732570--105732619 Score: 100
Period size: 3 Copynumber: 16.7 Consensus size: 3
105732560 GGTTTCGACA
105732570 ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT
1 ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT
105732618 AT
1 AT
105732620 CATCATATAT
Statistics
Matches: 47, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 47 1.00
ACGTcount: A:0.34, C:0.00, G:0.00, T:0.66
Consensus pattern (3 bp):
ATT
Found at i:105736561 original size:21 final size:22
Alignment explanation
Indices: 105736512--105736564 Score: 60
Period size: 21 Copynumber: 2.5 Consensus size: 22
105736502 AGTGAAATGG
*
105736512 TAGC-AAAATAGTAAAAAATAA
1 TAGCAAAAAAAGTAAAAAATAA
105736533 TA--ATAAAAAAGTAAAAAA-AA
1 TAGCA-AAAAAAGTAAAAAATAA
105736553 TAGCAAAAAAAG
1 TAGCAAAAAAAG
105736565 CCTTACCCAA
Statistics
Matches: 27, Mismatches: 1, Indels: 8
0.75 0.03 0.22
Matches are distributed among these distances:
20 4 0.15
21 22 0.81
22 1 0.04
ACGTcount: A:0.72, C:0.04, G:0.09, T:0.15
Consensus pattern (22 bp):
TAGCAAAAAAAGTAAAAAATAA
Found at i:105741183 original size:29 final size:29
Alignment explanation
Indices: 105741141--105741196 Score: 103
Period size: 29 Copynumber: 1.9 Consensus size: 29
105741131 TAAAAGAATG
105741141 ACATATGCTAAAATTTGAAATATCATATA
1 ACATATGCTAAAATTTGAAATATCATATA
*
105741170 ACATCTGCTAAAATTTGAAATATCATA
1 ACATATGCTAAAATTTGAAATATCATA
105741197 CATATGTAAA
Statistics
Matches: 26, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
29 26 1.00
ACGTcount: A:0.46, C:0.12, G:0.07, T:0.34
Consensus pattern (29 bp):
ACATATGCTAAAATTTGAAATATCATATA
Found at i:105742861 original size:18 final size:19
Alignment explanation
Indices: 105742838--105742873 Score: 56
Period size: 18 Copynumber: 1.9 Consensus size: 19
105742828 AAAAATAAAT
105742838 AAAAAAGA-AAACCAAAAG
1 AAAAAAGAGAAACCAAAAG
*
105742856 AAAAAAGAGAACCCAAAA
1 AAAAAAGAGAAACCAAAA
105742874 ATGAGATTTA
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
18 8 0.50
19 8 0.50
ACGTcount: A:0.75, C:0.14, G:0.11, T:0.00
Consensus pattern (19 bp):
AAAAAAGAGAAACCAAAAG
Found at i:105745152 original size:203 final size:203
Alignment explanation
Indices: 105744802--105745214 Score: 772
Period size: 203 Copynumber: 2.0 Consensus size: 203
105744792 TATTGCGCAT
105744802 TTGGAATGACACTTACTTGATTTGCCTTGAATCTTTCTTATTGCTTTGGCTTTTTCCAGACTAGT
1 TTGGAATGACACTTACTTGATTTGCCTTGAATCTTTCTTATTGCTTTGGCTTTTTCCAGACTAGT
* *
105744867 CTCATATCAGGTTGTCCCTTCCTTTGGAACTTTTGCCTCGATTTTTTTTGCCTCTTAGCTCGAAC
66 CTCATATCAGGTTGTCCCTTCCTTTGGAACTTTTGCCTCAATTTTTTTTGCCTCTTAACTCGAAC
*
105744932 CATCCCACTCATTGGTACATCTCACTGGCAAGAAGTCACAGCTCTCACTTGCCTACATTCTGACT
131 CATCCCACTCATTGGTACATCTCACTGGCAAGAAGTCACAGCTCTCACTTGCCCACATTCTGACT
105744997 CACTTAGA
196 CACTTAGA
105745005 TTGGAATGACACTTACTTGATTTGCCTTGAATCTTTCTTATTGCTTTGGCTTTTTCCAGACTAGT
1 TTGGAATGACACTTACTTGATTTGCCTTGAATCTTTCTTATTGCTTTGGCTTTTTCCAGACTAGT
105745070 CTCATATCAGGTTGTCCCTTCCTTTGGAACTTTTGCCTCAATTTTTTTTGCCTCTTAACTCGAAC
66 CTCATATCAGGTTGTCCCTTCCTTTGGAACTTTTGCCTCAATTTTTTTTGCCTCTTAACTCGAAC
* *
105745135 CATCCCGCTCGTTGGTACATCTCACTGGCAAGAAGTCACAGCTCTCACTTGCCCACATTCTGACT
131 CATCCCACTCATTGGTACATCTCACTGGCAAGAAGTCACAGCTCTCACTTGCCCACATTCTGACT
*
105745200 CACTTCGA
196 CACTTAGA
105745208 TTGGAAT
1 TTGGAAT
105745215 CCTCTTGATT
Statistics
Matches: 204, Mismatches: 6, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
203 204 1.00
ACGTcount: A:0.20, C:0.27, G:0.15, T:0.38
Consensus pattern (203 bp):
TTGGAATGACACTTACTTGATTTGCCTTGAATCTTTCTTATTGCTTTGGCTTTTTCCAGACTAGT
CTCATATCAGGTTGTCCCTTCCTTTGGAACTTTTGCCTCAATTTTTTTTGCCTCTTAACTCGAAC
CATCCCACTCATTGGTACATCTCACTGGCAAGAAGTCACAGCTCTCACTTGCCCACATTCTGACT
CACTTAGA
Found at i:105745705 original size:129 final size:129
Alignment explanation
Indices: 105745470--105745715 Score: 332
Period size: 129 Copynumber: 1.9 Consensus size: 129
105745460 TCAACAAAGA
* *
105745470 TGAGTCTCATTGATCCTAGCTTCAAAGTTTGCATCGCTACTTCGTCCTCTAAGTTTGATGCACAA
1 TGAGCCTCATTGATCCTAGCTTCAAAGTTTGCATCGCTACTTCGTCCTCTAAGTTCGATGCACAA
* * * *
105745535 CTCACCTTTTCCTTAGATGGAAGCTTAGTCAACGACTCAACAAGCTTCGTCGCTTCCATAGAAT
66 CTCACCTTTTCCTTAGATAGAAGCTCACTCAACGACTCAACAAGCTCCGTCGCTTCCATAGAAT
* * * * * *
105745599 TGAGCCTCATTGGTCTTAGCTTCAATGTTTGCATCGTTACTTCTTCTTCTAAGTTCGATGCACAA
1 TGAGCCTCATTGATCCTAGCTTCAAAGTTTGCATCGCTACTTCGTCCTCTAAGTTCGATGCACAA
* * * *
105745664 CTCACCTTTTCCTTAGGTAGAAGC-CCCTCTGATGACTCAACAAGCTCCGTCG
66 CTCACCTTTTCCTTAGATAGAAGCTCACTC-AACGACTCAACAAGCTCCGTCG
105745716 TTGCCTTTCT
Statistics
Matches: 100, Mismatches: 16, Indels: 2
0.85 0.14 0.02
Matches are distributed among these distances:
128 2 0.02
129 98 0.98
ACGTcount: A:0.23, C:0.27, G:0.17, T:0.33
Consensus pattern (129 bp):
TGAGCCTCATTGATCCTAGCTTCAAAGTTTGCATCGCTACTTCGTCCTCTAAGTTCGATGCACAA
CTCACCTTTTCCTTAGATAGAAGCTCACTCAACGACTCAACAAGCTCCGTCGCTTCCATAGAAT
Found at i:105747256 original size:49 final size:49
Alignment explanation
Indices: 105747198--105747379 Score: 274
Period size: 49 Copynumber: 3.7 Consensus size: 49
105747188 TCTGTATGCA
* *
105747198 TAGTAGCCTGCACTTAGTACTACACATGCGACCAATTATCCGGTACACG
1 TAGTAGCCTGCACTTAGTACTACACATGTGACCAATTATCAGGTACACG
* * * *
105747247 TAGTAGCCTGCACTTAGTACTACACACGTGATCAAAGTTATCAGGTACGCA
1 TAGTAGCCTGCACTTAGTACTACACATGTGA-CCAA-TTATCAGGTACACG
*
105747298 TAGTAGCCTGCACTTAGTACTACACATGTGACCAATTATCTGGTACACG
1 TAGTAGCCTGCACTTAGTACTACACATGTGACCAATTATCAGGTACACG
*
105747347 TAGTAGCCTGCACTTAGTACTACACACGTGACC
1 TAGTAGCCTGCACTTAGTACTACACATGTGACC
105747380 TCACAATAGC
Statistics
Matches: 119, Mismatches: 12, Indels: 4
0.88 0.09 0.03
Matches are distributed among these distances:
49 72 0.61
50 6 0.05
51 41 0.34
ACGTcount: A:0.29, C:0.26, G:0.19, T:0.26
Consensus pattern (49 bp):
TAGTAGCCTGCACTTAGTACTACACATGTGACCAATTATCAGGTACACG
Found at i:105747368 original size:100 final size:99
Alignment explanation
Indices: 105747182--105747377 Score: 347
Period size: 100 Copynumber: 2.0 Consensus size: 99
105747172 CTTGTAGCCG
* *
105747182 AAGTTATCTGTATGCATAGTAGCCTGCACTTAGTACTACACATGCGACCAATTATCCGGTACACG
1 AAGTTATCGGTACGCATAGTAGCCTGCACTTAGTACTACACATGCGACCAATTATCCGGTACACG
105747247 TAGTAGCCTGCACTTAGTACTACACACGTGATCA
66 TAGTAGCCTGCACTTAGTACTACACACGTGATCA
* *
105747281 AAGTTATCAGGTACGCATAGTAGCCTGCACTTAGTACTACACATGTGACCAATTATCTGGTACAC
1 AAGTTATC-GGTACGCATAGTAGCCTGCACTTAGTACTACACATGCGACCAATTATCCGGTACAC
105747346 GTAGTAGCCTGCACTTAGTACTACACACGTGA
65 GTAGTAGCCTGCACTTAGTACTACACACGTGA
105747378 CCTCACAATA
Statistics
Matches: 92, Mismatches: 4, Indels: 1
0.95 0.04 0.01
Matches are distributed among these distances:
99 8 0.09
100 84 0.91
ACGTcount: A:0.30, C:0.24, G:0.19, T:0.27
Consensus pattern (99 bp):
AAGTTATCGGTACGCATAGTAGCCTGCACTTAGTACTACACATGCGACCAATTATCCGGTACACG
TAGTAGCCTGCACTTAGTACTACACACGTGATCA
Found at i:105749981 original size:18 final size:18
Alignment explanation
Indices: 105749958--105749999 Score: 66
Period size: 18 Copynumber: 2.3 Consensus size: 18
105749948 TTAATTACAG
*
105749958 TAATTAATAAAATAAATA
1 TAATTAATAAAATAAAAA
*
105749976 TAATTAATGAAATAAAAA
1 TAATTAATAAAATAAAAA
105749994 TAATTA
1 TAATTA
105750000 GATGTACATT
Statistics
Matches: 22, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
18 22 1.00
ACGTcount: A:0.64, C:0.00, G:0.02, T:0.33
Consensus pattern (18 bp):
TAATTAATAAAATAAAAA
Found at i:105751082 original size:84 final size:84
Alignment explanation
Indices: 105750931--105751098 Score: 302
Period size: 84 Copynumber: 2.0 Consensus size: 84
105750921 TTCCATGCTC
*
105750931 GCTTTTGTCAATCTCAATGGAGTTTTGTTTAAGGATCAAATTTGTTGCTTGATTCAAAAGTGGTT
1 GCTTTTGTCAATCTCAATGGAGTTTTGTTTAAGGATCAAATTTGTTGCTTGATTCAAAAGTGCTT
*
105750996 TGAAGGTGACTCAATTCCT
66 TGAAGGTGACACAATTCCT
105751015 GCTTTTGTCAATCTCAATGGAGTTTTGTTTAAGGATCAAATTTGTTGCTTGATTCCAAAA-TGCT
1 GCTTTTGTCAATCTCAATGGAGTTTTGTTTAAGGATCAAATTTGTTGCTTGATT-CAAAAGTGCT
105751079 TTGAAGGTGACACAATTCCT
65 TTGAAGGTGACACAATTCCT
105751099 TTGGATTTGA
Statistics
Matches: 81, Mismatches: 2, Indels: 2
0.95 0.02 0.02
Matches are distributed among these distances:
84 76 0.94
85 5 0.06
ACGTcount: A:0.26, C:0.14, G:0.20, T:0.40
Consensus pattern (84 bp):
GCTTTTGTCAATCTCAATGGAGTTTTGTTTAAGGATCAAATTTGTTGCTTGATTCAAAAGTGCTT
TGAAGGTGACACAATTCCT
Found at i:105755290 original size:25 final size:25
Alignment explanation
Indices: 105755261--105755311 Score: 84
Period size: 25 Copynumber: 2.0 Consensus size: 25
105755251 CAAAGGAAAA
**
105755261 TCCTAATCTAATTCCTAATTTAAAG
1 TCCTAATAGAATTCCTAATTTAAAG
105755286 TCCTAATAGAATTCCTAATTTAAAG
1 TCCTAATAGAATTCCTAATTTAAAG
105755311 T
1 T
105755312 TTATAAGGAA
Statistics
Matches: 24, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
25 24 1.00
ACGTcount: A:0.37, C:0.18, G:0.06, T:0.39
Consensus pattern (25 bp):
TCCTAATAGAATTCCTAATTTAAAG
Found at i:105759963 original size:25 final size:25
Alignment explanation
Indices: 105759934--105759984 Score: 84
Period size: 25 Copynumber: 2.0 Consensus size: 25
105759924 CAAAGGAAAA
**
105759934 TCCTAATCTAATTCCTAATTTAAAG
1 TCCTAATAGAATTCCTAATTTAAAG
105759959 TCCTAATAGAATTCCTAATTTAAAG
1 TCCTAATAGAATTCCTAATTTAAAG
105759984 T
1 T
105759985 TTATAAGGAA
Statistics
Matches: 24, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
25 24 1.00
ACGTcount: A:0.37, C:0.18, G:0.06, T:0.39
Consensus pattern (25 bp):
TCCTAATAGAATTCCTAATTTAAAG
Found at i:105762710 original size:12 final size:12
Alignment explanation
Indices: 105762693--105762740 Score: 60
Period size: 12 Copynumber: 3.8 Consensus size: 12
105762683 TGTCATTAAC
105762693 ATATAAAACCAA
1 ATATAAAACCAA
*
105762705 ATATAAAACTTTAA
1 ATATAAAAC--CAA
105762719 CATATAAAACCAA
1 -ATATAAAACCAA
105762732 ATATAAAAC
1 ATATAAAAC
105762741 TTTACTCCCA
Statistics
Matches: 31, Mismatches: 2, Indels: 6
0.79 0.05 0.15
Matches are distributed among these distances:
12 18 0.58
13 2 0.06
14 2 0.06
15 9 0.29
ACGTcount: A:0.62, C:0.15, G:0.00, T:0.23
Consensus pattern (12 bp):
ATATAAAACCAA
Found at i:105762719 original size:27 final size:27
Alignment explanation
Indices: 105762688--105762744 Score: 114
Period size: 27 Copynumber: 2.1 Consensus size: 27
105762678 CAATATGTCA
105762688 TTAACATATAAAACCAAATATAAAACT
1 TTAACATATAAAACCAAATATAAAACT
105762715 TTAACATATAAAACCAAATATAAAACT
1 TTAACATATAAAACCAAATATAAAACT
105762742 TTA
1 TTA
105762745 CTCCCACTAA
Statistics
Matches: 30, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
27 30 1.00
ACGTcount: A:0.58, C:0.14, G:0.00, T:0.28
Consensus pattern (27 bp):
TTAACATATAAAACCAAATATAAAACT
Found at i:105783959 original size:12 final size:12
Alignment explanation
Indices: 105783942--105783970 Score: 58
Period size: 12 Copynumber: 2.4 Consensus size: 12
105783932 AGGTAAATAA
105783942 ATATACATATAT
1 ATATACATATAT
105783954 ATATACATATAT
1 ATATACATATAT
105783966 ATATA
1 ATATA
105783971 ATTAAAATAA
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:0.52, C:0.07, G:0.00, T:0.41
Consensus pattern (12 bp):
ATATACATATAT
Found at i:105785900 original size:27 final size:30
Alignment explanation
Indices: 105785857--105785914 Score: 95
Period size: 29 Copynumber: 2.0 Consensus size: 30
105785847 TTCGGTTACA
105785857 ACTTGTTTCAATA-TTTT-TTTCATTCTTC
1 ACTTGTTTCAATATTTTTCTTTCATTCTTC
105785885 ACTTG-TTCAATATTTTTCTTTCATTCTTC
1 ACTTGTTTCAATATTTTTCTTTCATTCTTC
105785914 A
1 A
105785915 TTTGCTTCTT
Statistics
Matches: 28, Mismatches: 0, Indels: 3
0.90 0.00 0.10
Matches are distributed among these distances:
27 7 0.25
28 9 0.32
29 12 0.43
ACGTcount: A:0.19, C:0.19, G:0.03, T:0.59
Consensus pattern (30 bp):
ACTTGTTTCAATATTTTTCTTTCATTCTTC
Found at i:105797870 original size:213 final size:213
Alignment explanation
Indices: 105797481--105798018 Score: 803
Period size: 213 Copynumber: 2.5 Consensus size: 213
105797471 TGGAACAACA
** * * *
105797481 GAGGGAACTTAATTTAAGCAAAACGACTTTGAAGGAATTACCATCAC-CAATTGGCAATCTTATT
1 GAGGGAACTTAATTTAAGCGGAACGGCTGTGAAGGAATTACCATC-CTCAATTGACAATCTTATT
* *
105797545 GGTCTTGAGAAATTGGTATTGAACAACTGTGAAAACCTTGTTTACCTTCCTAACAGCCTTTATAA
65 GGTCTTGAGAAATTGGTATTGAACAACTGTGAAAACCTTGTTTGCCTTCCTAACAACCTTTATAA
* * * * *
105797610 ATTGAAATCTCTTGAAAAATTTGACGTTGAAGGTTGCTTAAGATTGGAGGCTTTCCCAGAAATCT
130 ATTGAAATCTCTTGAAAAATTCGAAGTTAAAGGTTGCTCAAGATTGGAGGCTTTACCAGAAATCT
**
105797675 TGGACATCATGGAGTGGTT
195 TGGACATCATGGAGCAGTT
*
105797694 GAGGGAACTTAATTTAAGCGGAACGGCTGTGAAGGAATTACCATCCTCAAGTGACAATCTTATTT
1 GAGGGAACTTAATTTAAGCGGAACGGCTGTGAAGGAATTACCATCCTCAATTGACAATCTTA-TT
** * * * *
105797759 GGTCTTGAGAAATTGGTATTGAGTAATTGTGAAAACTTTGTTTGCCTTCCTACCAACTTTTATAA
65 GGTCTTGAGAAATTGGTATTGAACAACTGTGAAAACCTTGTTTGCCTTCCTAACAACCTTTATAA
105797824 ATTGAAATCTCTTG-AAAATTCGAAGTTAAAGGTTGCTCAAGATTGGAGGCTTTACCAGAAATCT
130 ATTGAAATCTCTTGAAAAATTCGAAGTTAAAGGTTGCTCAAGATTGGAGGCTTTACCAGAAATCT
105797888 TGGACATCATGGAGCAGTT
195 TGGACATCATGGAGCAGTT
* * *
105797907 GAGGGAACTTAATTTAAACGGAACGGATGTGAAGGAATTACCATCTTCAATTGACAATCTTATTG
1 GAGGGAACTTAATTTAAGCGGAACGGCTGTGAAGGAATTACCATCCTCAATTGACAATCTTATTG
* *
105797972 GTCTTGA-AATTTGGTATTGAACAACTGTGAAAACGTTGTTTGCCTTC
66 GTCTTGAGAAATTGGTATTGAACAACTGTGAAAACCTTGTTTGCCTTC
105798019 TTGATAGCTT
Statistics
Matches: 293, Mismatches: 30, Indels: 6
0.89 0.09 0.02
Matches are distributed among these distances:
211 35 0.12
212 11 0.04
213 174 0.59
214 73 0.25
ACGTcount: A:0.31, C:0.15, G:0.21, T:0.32
Consensus pattern (213 bp):
GAGGGAACTTAATTTAAGCGGAACGGCTGTGAAGGAATTACCATCCTCAATTGACAATCTTATTG
GTCTTGAGAAATTGGTATTGAACAACTGTGAAAACCTTGTTTGCCTTCCTAACAACCTTTATAAA
TTGAAATCTCTTGAAAAATTCGAAGTTAAAGGTTGCTCAAGATTGGAGGCTTTACCAGAAATCTT
GGACATCATGGAGCAGTT
Found at i:105799882 original size:17 final size:16
Alignment explanation
Indices: 105799847--105799904 Score: 62
Period size: 16 Copynumber: 3.4 Consensus size: 16
105799837 TACTTTTGTA
*
105799847 TTTTTCTTTTTTGTGAAT
1 TTTTTCTATTTT-T-AAT
105799865 TTTTTGCTATTTTTAAT
1 TTTTT-CTATTTTTAAT
*
105799882 TTTTTCTTTTTTTAAT
1 TTTTTCTATTTTTAAT
105799898 TTATTTC
1 TT-TTTC
105799905 AAGAAAATAT
Statistics
Matches: 36, Mismatches: 2, Indels: 5
0.84 0.05 0.12
Matches are distributed among these distances:
16 12 0.33
17 12 0.33
18 6 0.17
19 6 0.17
ACGTcount: A:0.14, C:0.07, G:0.05, T:0.74
Consensus pattern (16 bp):
TTTTTCTATTTTTAAT
Found at i:105814131 original size:12 final size:11
Alignment explanation
Indices: 105814101--105814169 Score: 63
Period size: 12 Copynumber: 6.3 Consensus size: 11
105814091 TTTACAAATA
*
105814101 AAATATAT-AC
1 AAATATATAAT
105814111 AAATCATATAAT
1 AAAT-ATATAAT
105814123 AAATAATATAA-
1 AAAT-ATATAAT
105814134 AAATATATAAT
1 AAATATATAAT
*
105814145 AAAATCTATAAT
1 -AAATATATAAT
*
105814157 ATATATAT-AT
1 AAATATATAAT
105814167 AAA
1 AAA
105814170 AGAAAGATAG
Statistics
Matches: 49, Mismatches: 6, Indels: 8
0.78 0.10 0.13
Matches are distributed among these distances:
10 14 0.29
11 14 0.29
12 21 0.43
ACGTcount: A:0.62, C:0.04, G:0.00, T:0.33
Consensus pattern (11 bp):
AAATATATAAT
Found at i:105814154 original size:22 final size:22
Alignment explanation
Indices: 105814097--105814170 Score: 80
Period size: 22 Copynumber: 3.3 Consensus size: 22
105814087 ATAATTTACA
*
105814097 AATAAAATATATACAAATCATAT
1 AATAAAATATATAAAAAT-ATAT
105814120 AAT-AAATAATATAAAAATATAT
1 AATAAAAT-ATATAAAAATATAT
* *
105814142 AATAAAATCTAT-AATATATAT
1 AATAAAATATATAAAAATATAT
105814163 ATATAAAA
1 A-ATAAAA
105814171 GAAAGATAGA
Statistics
Matches: 45, Mismatches: 3, Indels: 7
0.82 0.05 0.13
Matches are distributed among these distances:
21 9 0.20
22 20 0.44
23 16 0.36
ACGTcount: A:0.64, C:0.04, G:0.00, T:0.32
Consensus pattern (22 bp):
AATAAAATATATAAAAATATAT
Found at i:105822010 original size:213 final size:210
Alignment explanation
Indices: 105821632--105822670 Score: 1170
Period size: 213 Copynumber: 4.9 Consensus size: 210
105821622 TCAAGTATTC
* * ** * * * * *
105821632 ATAAACTGAAATCTCTCGAGTATTTCGATCTTCAAGGTTGTTCCAGATTGGAGATTTTCCCTGAA
1 ATAAATTGAAATCTCTTGAAAATTTCAATCTT-AAAGTTGCTCAAGATTGGAGATTTTCCCAGAA
* * ** * * **
105821697 ATCATGGACACTATGGAGAGGT-TAAGGGTTCTTGATTTAAGTGGAACGGCTTTGAAGGGCTTAC
65 ATCATGGACACCATGGAGAGGTGT-A-TGAACTTGATTTAAGCGGAACGGCTTTGAAAGAATTAC
* * * * *
105821761 CATCCTCAATTGATAATCTTGTTGGTCTTGAGGATTTGAGATTGAACTACTGTGAAGACCTTGTT
128 CATCCTCAATT-ACAATCTTATTGGTCTTAAGGATTTGAGATTGAACAACTGTGAAAACCTTGTT
*
105821826 TGCCTTCCTAAAAGCTTTT
192 TGCCTTCCTAACAGCTTTT
* * *
105821845 ATAAATTGGAATCTCTTGAAAATTTCAATCTTGGAAA-TTGCTCAATATTGGAGACTTTCCCAGA
1 ATAAATTGAAATCTCTTGAAAATTTCAATCTT--AAAGTTGCTCAAGATTGGAGATTTTCCCAGA
* * *
105821909 AATCTTGGACACCATGGAGGAGATGTATAAACTTGATTTAAGCGGAACGGCTTTGAAAGAATTAC
64 AATCATGGACACCATGGA-GAGGTGTATGAACTTGATTTAAGCGGAACGGCTTTGAAAGAATTAC
* * *
105821974 CATCTTCAATTACCAATCTTATTGGTCTTAAGGATTTGAGATTGAACAACTGTCAAAACCTTATT
128 CATCCTCAATTA-CAATCTTATTGGTCTTAAGGATTTGAGATTGAACAACTGTGAAAACCTTGTT
*
105822039 TGCCTTCCTAATAGCTTTT
192 TGCCTTCCTAACAGCTTTT
** * * *
105822058 ATAAATTGAAATCTCTTG-AGTTATTCAGTCTTGAAGGTTGCTCGAGATTGGAGATTTTCCCAGA
1 ATAAATTGAAATCTCTTGAAAAT-TTCAATCTT-AAAGTTGCTCAAGATTGGAGATTTTCCCAGA
* * * *
105822122 AATCATGGAAACCATGGAGAGGCTGTATGAACTTGATTTAAGCGGGACAGCTTTGAAGGAATTAC
64 AATCATGGACACCATGGAGAGG-TGTATGAACTTGATTTAAGCGGAACGGCTTTGAAAGAATTAC
* ** * *
105822187 CATCCTCAATTGCCAATCTTATTGGTCTTAAATATTTGGGATTGAACAACTGTGAAAATCTTGTT
128 CATCCTCAATT-ACAATCTTATTGGTCTTAAGGATTTGAGATTGAACAACTGTGAAAACCTTGTT
* *
105822252 TGCCTTCCTGACAGTTTTT
192 TGCCTTCCTAACAGCTTTT
* * * *
105822271 ATAAATTGAAATCTCTTGAGATTTTCAATGTTAAAGGTTGCTCGAGATTGGAGATTTTCCCAGAA
1 ATAAATTGAAATCTCTTGAAAATTTCAATCTTAAA-GTTGCTCAAGATTGGAGATTTTCCCAGAA
* **
105822336 ATTATGGACACCATGGAGAGGTTGTATGAACTTGATTTAATTGGAACGGCTTTGAAAGAATTACC
65 ATCATGGACACCATGGAGAGG-TGTATGAACTTGATTTAAGCGGAACGGCTTTGAAAGAATTACC
* * * *
105822401 ATCCTCAATTGGCAATCTTATTAGTCTTAAGGATTTCAGATTGAACAACTGTGAAAACCTTATTT
129 ATCCTCAATT-ACAATCTTATTGGTCTTAAGGATTTGAGATTGAACAACTGTGAAAACCTTGTTT
** *
105822466 ATCTTCCTAACAGTTTTT
193 GCCTTCCTAACAGCTTTT
* * *
105822484 ATAAATTGCAATCTCTAGAGAAA-TTCAATCTTAAAGGTTGCTCAAGATTGGAAATTTTCCCAGA
1 ATAAATTGAAATCTCTTGA-AAATTTCAATCTTAAA-GTTGCTCAAGATTGGAGATTTTCCCAGA
* * *
105822548 AATCATGGACAGCC---------TGTATGAACTTGATTTAAGCAGAACAG-TTTTAAAGGAATTA
64 AATCATGGACA-CCATGGAGAGGTGTATGAACTTGATTTAAGCGGAACGGCTTTGAAA-GAATTA
*
105822603 CCATCCTCAATTGATAATCTTATTGGTCTTAAGGATTTGAGATTGAACAACTGTGAAAACCTTGT
127 CCATCCTCAATT-ACAATCTTATTGGTCTTAAGGATTTGAGATTGAACAACTGTGAAAACCTTGT
105822668 TTG
191 TTG
105822671 TAGTAATTCA
Statistics
Matches: 711, Mismatches: 102, Indels: 35
0.84 0.12 0.04
Matches are distributed among these distances:
203 6 0.01
204 91 0.13
212 11 0.02
213 590 0.83
214 12 0.02
215 1 0.00
ACGTcount: A:0.31, C:0.16, G:0.19, T:0.34
Consensus pattern (210 bp):
ATAAATTGAAATCTCTTGAAAATTTCAATCTTAAAGTTGCTCAAGATTGGAGATTTTCCCAGAAA
TCATGGACACCATGGAGAGGTGTATGAACTTGATTTAAGCGGAACGGCTTTGAAAGAATTACCAT
CCTCAATTACAATCTTATTGGTCTTAAGGATTTGAGATTGAACAACTGTGAAAACCTTGTTTGCC
TTCCTAACAGCTTTT
Found at i:105822431 original size:426 final size:423
Alignment explanation
Indices: 105821632--105822670 Score: 1323
Period size: 426 Copynumber: 2.5 Consensus size: 423
105821622 TCAAGTATTC
* * * * * *
105821632 ATAAACTGAAATCTCTCGAGTATTTC-GATCTTCAAGGTTGTTCCAGATTGGAGATTTTCCCTGA
1 ATAAATTGAAATCTCTAGAGTA-TTCAG-TCTTAAAGGTTGCTCAAGATTGGAGATTTTCCCAGA
* * ** * * **
105821696 AATCATGGACACTATGGAGAGG-T-TAAGGGTTCTTGATTTAAGTGGAACGGCTTTGAAGGGCTT
64 AATCATGGA-ACCATGGAGAGGCTGT-A-TGAACTTGATTTAAGCGGAACAGCTTTGAAGGAATT
* * * *
105821759 ACCATCCTCAATTGATAATCTTGTTGGTCTTGAGGATTTGAGATTGAACTACTGTGAAGACCTTG
126 ACCATCCTCAATTGATAATCTTATTGGTCTTAAGGATTTGAGATTGAACAACTGTGAAAACCTTG
*
105821824 TTTGCCTTCCTAAAAGCTTTTATAAATTGGAATCTCTTGAAAATTTCAATCTTGGAAATTGCTCA
191 TTTGCCTTCCTAAAAGCTTTTATAAATTGAAATCTCTTGAAAATTTCAATCTT-GAAATTGCTCA
*
105821889 ATATTGGAGACTTTCCCAGAAATCTTGGACACCATGGAGGAGATGTATAAACTTGATTTAAGCGG
255 AGATTGGAGACTTTCCCAGAAATCTTGGACACCATGGAGGAGATGTATAAACTTGATTTAAGCGG
* * *
105821954 AACGGCTTTGAAAGAATTACCATCTTCAATTACCAATCTTATTGGTCTTAAGGATTTGAGATTGA
320 AACGGCTTTGAAAGAATTACCATCCTCAATTACCAATCTTATTAGTCTTAAGGATTTCAGATTGA
* *
105822019 ACAACTGTCAAAACCTTATTTGCCTTCCTAATAGCTTTT
385 ACAACTGTCAAAACCTTATTTACCTTCCTAACAGCTTTT
* * *
105822058 ATAAATTGAAATCTCTTGAGTTATTCAGTCTTGAAGGTTGCTCGAGATTGGAGATTTTCCCAGAA
1 ATAAATTGAAATCTCTAGAG-TATTCAGTCTTAAAGGTTGCTCAAGATTGGAGATTTTCCCAGAA
*
105822123 ATCATGGAAACCATGGAGAGGCTGTATGAACTTGATTTAAGCGGGACAGCTTTGAAGGAATTACC
65 ATCATGG-AACCATGGAGAGGCTGTATGAACTTGATTTAAGCGGAACAGCTTTGAAGGAATTACC
** ** * *
105822188 ATCCTCAATTGCCAATCTTATTGGTCTTAAATATTTGGGATTGAACAACTGTGAAAATCTTGTTT
129 ATCCTCAATTGATAATCTTATTGGTCTTAAGGATTTGAGATTGAACAACTGTGAAAACCTTGTTT
* * * * * * *
105822253 GCCTTCCTGACAGTTTTTATAAATTGAAATCTCTTGAGATTTTCAATGTT-AAAGGTTGCTCGAG
194 GCCTTCCTAAAAGCTTTTATAAATTGAAATCTCTTGAAAATTTCAATCTTGAAA--TTGCTCAAG
* * * **
105822317 ATTGGAGATTTTCCCAGAAAT-TATGGACACCATGGA-GAGGTTGTATGAACTTGATTTAATTGG
257 ATTGGAGACTTTCCCAGAAATCT-TGGACACCATGGAGGA-GATGTATAAACTTGATTTAAGCGG
**
105822380 AACGGCTTTGAAAGAATTACCATCCTCAATTGGCAATCTTATTAGTCTTAAGGATTTCAGATTGA
320 AACGGCTTTGAAAGAATTACCATCCTCAATTACCAATCTTATTAGTCTTAAGGATTTCAGATTGA
* * *
105822445 ACAACTGTGAAAACCTTATTTATCTTCCTAACAGTTTTT
385 ACAACTGTCAAAACCTTATTTACCTTCCTAACAGCTTTT
* * * *
105822484 ATAAATTGCAATCTCTAGAGAAATTCAATCTTAAAGGTTGCTCAAGATTGGAAATTTTCCCAGAA
1 ATAAATTGAAATCTCTAGAG-TATTCAGTCTTAAAGGTTGCTCAAGATTGGAGATTTTCCCAGAA
* * * *
105822549 ATCATGG-A-C------AGCCTGTATGAACTTGATTTAAGCAGAACAGTTTTAAAGGAATTACCA
65 ATCATGGAACCATGGAGAGGCTGTATGAACTTGATTTAAGCGGAACAGCTTTGAAGGAATTACCA
105822606 TCCTCAATTGATAATCTTATTGGTCTTAAGGATTTGAGATTGAACAACTGTGAAAACCTTGTTTG
130 TCCTCAATTGATAATCTTATTGGTCTTAAGGATTTGAGATTGAACAACTGTGAAAACCTTGTTTG
105822671 TAGTAATTCA
Statistics
Matches: 536, Mismatches: 68, Indels: 27
0.85 0.11 0.04
Matches are distributed among these distances:
417 102 0.19
423 1 0.00
424 4 0.01
425 3 0.01
426 419 0.78
427 6 0.01
428 1 0.00
ACGTcount: A:0.31, C:0.16, G:0.19, T:0.34
Consensus pattern (423 bp):
ATAAATTGAAATCTCTAGAGTATTCAGTCTTAAAGGTTGCTCAAGATTGGAGATTTTCCCAGAAA
TCATGGAACCATGGAGAGGCTGTATGAACTTGATTTAAGCGGAACAGCTTTGAAGGAATTACCAT
CCTCAATTGATAATCTTATTGGTCTTAAGGATTTGAGATTGAACAACTGTGAAAACCTTGTTTGC
CTTCCTAAAAGCTTTTATAAATTGAAATCTCTTGAAAATTTCAATCTTGAAATTGCTCAAGATTG
GAGACTTTCCCAGAAATCTTGGACACCATGGAGGAGATGTATAAACTTGATTTAAGCGGAACGGC
TTTGAAAGAATTACCATCCTCAATTACCAATCTTATTAGTCTTAAGGATTTCAGATTGAACAACT
GTCAAAACCTTATTTACCTTCCTAACAGCTTTT
Found at i:105824377 original size:17 final size:18
Alignment explanation
Indices: 105824349--105824383 Score: 54
Period size: 17 Copynumber: 2.0 Consensus size: 18
105824339 ACTTATAAAT
*
105824349 ATTTTTTATAAAGTTTTA
1 ATTTTTTATAAAATTTTA
105824367 ATTTTTT-TAAAATTTTA
1 ATTTTTTATAAAATTTTA
105824384 TAAATATGTA
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
17 9 0.56
18 7 0.44
ACGTcount: A:0.34, C:0.00, G:0.03, T:0.63
Consensus pattern (18 bp):
ATTTTTTATAAAATTTTA
Found at i:105824584 original size:18 final size:17
Alignment explanation
Indices: 105824558--105824591 Score: 50
Period size: 18 Copynumber: 1.9 Consensus size: 17
105824548 CAAGGTTTTT
*
105824558 TTTATAAATTATATAAAG
1 TTTAAAAATTAT-TAAAG
105824576 TTTAAAAATTATTAAA
1 TTTAAAAATTATTAAA
105824592 AATTAATTTG
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
17 4 0.27
18 11 0.73
ACGTcount: A:0.53, C:0.00, G:0.03, T:0.44
Consensus pattern (17 bp):
TTTAAAAATTATTAAAG
Found at i:105825534 original size:6 final size:6
Alignment explanation
Indices: 105825523--105825548 Score: 52
Period size: 6 Copynumber: 4.3 Consensus size: 6
105825513 CTTCTCTCTT
105825523 TTCCCC TTCCCC TTCCCC TTCCCC TT
1 TTCCCC TTCCCC TTCCCC TTCCCC TT
105825549 GGGTTGCAAA
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 20 1.00
ACGTcount: A:0.00, C:0.62, G:0.00, T:0.38
Consensus pattern (6 bp):
TTCCCC
Found at i:105825673 original size:25 final size:25
Alignment explanation
Indices: 105825645--105825695 Score: 93
Period size: 25 Copynumber: 2.0 Consensus size: 25
105825635 CAGGTAAGGC
*
105825645 TCCTTCTCCTTCTTCCGTTCTTCAT
1 TCCTTCTCCTTCTTCCGTTATTCAT
105825670 TCCTTCTCCTTCTTCCGTTATTCAT
1 TCCTTCTCCTTCTTCCGTTATTCAT
105825695 T
1 T
105825696 TTCTCTTCCA
Statistics
Matches: 25, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
25 25 1.00
ACGTcount: A:0.06, C:0.37, G:0.04, T:0.53
Consensus pattern (25 bp):
TCCTTCTCCTTCTTCCGTTATTCAT
Found at i:105831047 original size:14 final size:14
Alignment explanation
Indices: 105831028--105831054 Score: 54
Period size: 14 Copynumber: 1.9 Consensus size: 14
105831018 TTTTAAATTC
105831028 AAATCCTAATTCTA
1 AAATCCTAATTCTA
105831042 AAATCCTAATTCT
1 AAATCCTAATTCT
105831055 CAAGCGCTAC
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 13 1.00
ACGTcount: A:0.41, C:0.22, G:0.00, T:0.37
Consensus pattern (14 bp):
AAATCCTAATTCTA
Found at i:105850644 original size:26 final size:26
Alignment explanation
Indices: 105850608--105850717 Score: 184
Period size: 26 Copynumber: 4.2 Consensus size: 26
105850598 TGATACAAAT
105850608 TGATAATAGGTTAGGTAAATGTTCCA
1 TGATAATAGGTTAGGTAAATGTTCCA
105850634 TGATAATAGGTTAGGTAAATGTTCCA
1 TGATAATAGGTTAGGTAAATGTTCCA
* *
105850660 TGATAATGGGTTAGGTAAATGTTTCA
1 TGATAATAGGTTAGGTAAATGTTCCA
* *
105850686 TGATAATGGGTTAGGTAAATGTTTCA
1 TGATAATAGGTTAGGTAAATGTTCCA
105850712 TGATAA
1 TGATAA
105850718 GAATTTCATG
Statistics
Matches: 82, Mismatches: 2, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
26 82 1.00
ACGTcount: A:0.34, C:0.05, G:0.25, T:0.36
Consensus pattern (26 bp):
TGATAATAGGTTAGGTAAATGTTCCA
Found at i:105857912 original size:13 final size:13
Alignment explanation
Indices: 105857894--105857954 Score: 65
Period size: 13 Copynumber: 4.9 Consensus size: 13
105857884 TTTGGTAGTA
105857894 CTTTTGAAAAGTG
1 CTTTTGAAAAGTG
105857907 CTTTTGAAAAGTG
1 CTTTTGAAAAGTG
* *
105857920 C-TGTG--TAGTG
1 CTTTTGAAAAGTG
*
105857930 CTTTTGAGAAGTG
1 CTTTTGAAAAGTG
*
105857943 CTTTTAAAAAGT
1 CTTTTGAAAAGT
105857955 TTAGTTTAAA
Statistics
Matches: 39, Mismatches: 6, Indels: 6
0.76 0.12 0.12
Matches are distributed among these distances:
10 5 0.13
11 3 0.08
12 3 0.08
13 28 0.72
ACGTcount: A:0.28, C:0.08, G:0.25, T:0.39
Consensus pattern (13 bp):
CTTTTGAAAAGTG
Found at i:105858177 original size:31 final size:29
Alignment explanation
Indices: 105858129--105858257 Score: 74
Period size: 30 Copynumber: 4.4 Consensus size: 29
105858119 ACTTCTTGTT
105858129 AATATTTTAATATATAAAATATAAATTTTA
1 AATATTTTAATATAT-AAATATAAATTTTA
105858159 AATATTTTTAAGTA-ATAAATATTAATTATTTATA
1 AATA-TTTTAA-TATATAAATA-TAA--ATTT-TA
* *
105858193 AA-A-TTTAAT-TAGAATATATAAA--CTA
1 AATATTTTAATATATAA-ATATAAATTTTA
* * * *
105858218 TAT-TTTTAATATTTAAATATAACTATTA
1 AATATTTTAATATATAAATATAAATTTTA
105858246 AATATTTGTAAT
1 AATATTT-TAAT
105858258 TAGTATTTTT
Statistics
Matches: 76, Mismatches: 8, Indels: 30
0.67 0.07 0.26
Matches are distributed among these distances:
25 3 0.04
26 12 0.16
27 3 0.04
28 5 0.07
29 3 0.04
30 20 0.26
31 19 0.25
32 2 0.03
33 5 0.07
34 4 0.05
ACGTcount: A:0.49, C:0.02, G:0.02, T:0.47
Consensus pattern (29 bp):
AATATTTTAATATATAAATATAAATTTTA
Found at i:105867928 original size:3 final size:3
Alignment explanation
Indices: 105867885--105868136 Score: 93
Period size: 3 Copynumber: 82.0 Consensus size: 3
105867875 TTTTTTAACC
* *
105867885 TTA TTT TTA -TA TTA TATA TTA TAA TTA TT- TTA TTA TATA TTA TT-
1 TTA TTA TTA TTA TTA T-TA TTA TTA TTA TTA TTA TTA T-TA TTA TTA
* ** *
105867929 TATA TTA TTA TTA TTTA TTA TATA TTA TTT TTCA CAAA TTG TTA TTA
1 T-TA TTA TTA TTA -TTA TTA T-TA TTA TTA TT-A -TTA TTA TTA TTA
*
105867976 TT- TTA -CA TTA TTA TTTA TATA TTA TTA TTA -TA TTA -TA TGT- TTA
1 TTA TTA TTA TTA TTA -TTA T-TA TTA TTA TTA TTA TTA TTA T-TA TTA
*
105868019 TTAA TTA -TA TATA TTA TT- TTT TTA TATA TATA CTT- TTA -TA TTA
1 TT-A TTA TTA T-TA TTA TTA TTA TTA T-TA T-TA -TTA TTA TTA TTA
* *
105868062 TATA TTA TAA TTA TT- TTA -TA TTA TTA TGTCA TTT TTA -TA TTA TTA
1 T-TA TTA TTA TTA TTA TTA TTA TTA TTA T-T-A TTA TTA TTA TTA TTA
* * *
105868107 TACA TTT TTA TCTA TATA TTA TTA TCA TTA
1 T-TA TTA TTA T-TA T-TA TTA TTA TTA TTA
105868137 AAGGTTTTAA
Statistics
Matches: 189, Mismatches: 26, Indels: 68
0.67 0.09 0.24
Matches are distributed among these distances:
2 27 0.14
3 112 0.59
4 47 0.25
5 3 0.02
ACGTcount: A:0.34, C:0.03, G:0.01, T:0.62
Consensus pattern (3 bp):
TTA
Found at i:105867931 original size:19 final size:19
Alignment explanation
Indices: 105867885--105868129 Score: 82
Period size: 17 Copynumber: 13.3 Consensus size: 19
105867875 TTTTTTAACC
*
105867885 TTATTT-TTATATTATATA
1 TTATTTATTTTATTATATA
105867903 TTATAATTATTTTATTATATA
1 TTAT--TTATTTTATTATATA
105867924 TTATTTA---TATTAT-TA
1 TTATTTATTTTATTATATA
*
105867939 TTATTTATTATATATTAT-TT
1 TTATTTATT-T-TATTATATA
***
105867959 TTCACAAATTGTTATTAT-T-
1 TT-ATTTATT-TTATTATATA
* *
105867978 TTACATTATTAT-TTATATA
1 TTA-TTTATTTTATTATATA
* *
105867997 TTA-TTATTATATTATATG
1 TTATTTATTTTATTATATA
*
105868015 TT-TATTA-ATTA-TATATA
1 TTAT-TTATTTTATTATATA
105868032 TTATTT-TTTTA-TATATA
1 TTATTTATTTTATTATATA
* *
105868049 -TACTT-TTATATTATATA
1 TTATTTATTTTATTATATA
105868066 TTATAATTATTTTA-TAT-TA
1 TTAT--TTATTTTATTATATA
*
105868085 TTATGTCA-TTT-TTATATTA
1 TTAT-TTATTTTATTATA-TA
**
105868104 TTATACATTTTTATCTATATA
1 TTATTTA-TTTTAT-TATATA
105868125 TTATT
1 TTATT
105868130 ATCATTAAAG
Statistics
Matches: 175, Mismatches: 23, Indels: 55
0.69 0.09 0.22
Matches are distributed among these distances:
15 9 0.05
16 14 0.08
17 41 0.23
18 24 0.14
19 26 0.15
20 26 0.15
21 31 0.18
22 4 0.02
ACGTcount: A:0.33, C:0.03, G:0.01, T:0.62
Consensus pattern (19 bp):
TTATTTATTTTATTATATA
Found at i:105867950 original size:50 final size:50
Alignment explanation
Indices: 105867885--105868129 Score: 156
Period size: 52 Copynumber: 4.9 Consensus size: 50
105867875 TTTTTTAACC
* *
105867885 TTATTTTTATATTATATATTATAATTATTTTATTATATATTATTTATATTA
1 TTATTATT-TATTATATATTATAATTATTATATTATATATTATTTATATTA
** * * * *
105867936 TTATTATTTATTATATATTATTTTTCA-CAAATTGT-TATTATTT-TA-CA
1 TTATTATTTATTATATATTATAATT-ATTATATTATATATTATTTATATTA
* *
105867983 TTATTATTTA-TATATTATTATTA-TATTATATGT-T-TATTAATTATATATA
1 TTATTATTTATTATA-TATTATAATTATTATAT-TATATATTATTTATAT-TA
* *
105868032 TTATTTTTTTATATATATACTTTTATATTA-TATATTATA-ATTATTTTATATTA
1 TTA-TTATTTAT-TATATA-TTATA-ATTATTATATTATATATTA-TTTATATTA
105868085 TTATGTCATTT-TTATATTATTATACATT-TT-TATCTATATATTATT
1 TTAT-T-ATTTATTATA-TATTATA-ATTATTATAT-TATATATTATT
105868130 ATCATTAAAG
Statistics
Matches: 152, Mismatches: 20, Indels: 43
0.71 0.09 0.20
Matches are distributed among these distances:
45 1 0.01
46 16 0.11
47 21 0.14
48 2 0.01
49 12 0.08
50 25 0.16
51 13 0.09
52 27 0.18
53 24 0.16
54 11 0.07
ACGTcount: A:0.33, C:0.03, G:0.01, T:0.62
Consensus pattern (50 bp):
TTATTATTTATTATATATTATAATTATTATATTATATATTATTTATATTA
Found at i:105867960 original size:80 final size:78
Alignment explanation
Indices: 105867838--105868088 Score: 203
Period size: 80 Copynumber: 3.1 Consensus size: 78
105867828 CCCTATATAT
* * *
105867838 TTATTATTATATATATT-TTA-TATTGTTATT-TGTTTTATTTTTTAACCTTATTTTTATATTAT
1 TTATTATTATTTATATTATTATTA-T-TTATTATATATTA-TTTTTAA-CTTATTTTTATATTAT
105867900 ATATTATAATTATTTTA
62 ATATTATAATTATTTTA
* ** * * *
105867917 TTATATATTATTTATATTATTATTATTTATTATATATTATTTTTCACAAATTGTTATTATTTTAC
1 TTAT-TATTATTTATATTATTATTATTTATTATATATTATTTTTAACTTATTTTTA-TATTATAT
* *
105867982 ATTATTATT-TATATA
64 ATTATAATTAT-TTTA
*
105867997 TTATTATTATATTATATGT-TTATTAATTA-TATATATTATTTTTTTATA-TATATACTTTTATA
1 TTATTATTAT-TTATAT-TATTATTATTTATTATATATTA--TTTTTA-ACT-TAT--TTTTATA
105868059 TTATATATTATAATTATTTTA
58 TTATATATTATAATTATTTTA
105868080 -TATTATTAT
1 TTATTATTAT
105868089 GTCATTTTTA
Statistics
Matches: 137, Mismatches: 20, Indels: 27
0.74 0.11 0.15
Matches are distributed among these distances:
79 27 0.20
80 59 0.43
81 15 0.11
82 14 0.10
83 17 0.12
84 5 0.04
ACGTcount: A:0.33, C:0.02, G:0.02, T:0.63
Consensus pattern (78 bp):
TTATTATTATTTATATTATTATTATTTATTATATATTATTTTTAACTTATTTTTATATTATATAT
TATAATTATTTTA
Found at i:105868461 original size:26 final size:26
Alignment explanation
Indices: 105868413--105868462 Score: 64
Period size: 26 Copynumber: 1.9 Consensus size: 26
105868403 TTATAAATAT
* * * *
105868413 ATTTTTTATTATATATTATATTTTAA
1 ATTTATTATTAAATATCACATTTTAA
105868439 ATTTATTATTAAATATCACATTTT
1 ATTTATTATTAAATATCACATTTT
105868463 TTATTATTTG
Statistics
Matches: 20, Mismatches: 4, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
26 20 1.00
ACGTcount: A:0.36, C:0.04, G:0.00, T:0.60
Consensus pattern (26 bp):
ATTTATTATTAAATATCACATTTTAA
Found at i:105872209 original size:15 final size:15
Alignment explanation
Indices: 105872173--105872219 Score: 55
Period size: 15 Copynumber: 3.3 Consensus size: 15
105872163 CGATATCCTT
105872173 TTTGCAT-TCATGCA
1 TTTGCATCTCATGCA
105872187 TTTGCATCTCATAGCA
1 TTTGCATCTCAT-GCA
*
105872203 TTT-CATCACAT-CA
1 TTTGCATCTCATGCA
105872216 TTTG
1 TTTG
105872220 TATTCAAAGT
Statistics
Matches: 29, Mismatches: 1, Indels: 6
0.81 0.03 0.17
Matches are distributed among these distances:
13 5 0.17
14 7 0.24
15 11 0.38
16 6 0.21
ACGTcount: A:0.23, C:0.23, G:0.11, T:0.43
Consensus pattern (15 bp):
TTTGCATCTCATGCA
Found at i:105872955 original size:59 final size:59
Alignment explanation
Indices: 105872863--105872985 Score: 219
Period size: 59 Copynumber: 2.1 Consensus size: 59
105872853 GGTGCTTTCT
* * *
105872863 CATAAATTTAAGATTCCAGAGTTTGAAAAGTACAACGGGACTCCTTGCCCAGAGGCATA
1 CATAAATTTAAGATGCCAGAGTTTGAAAAGTACAACGGGACTACATGCCCAGAGGCATA
105872922 CATAAATTTAAGATGCCAGAGTTTGAAAAGTACAACGGGACTACATGCCCAGAGGCATA
1 CATAAATTTAAGATGCCAGAGTTTGAAAAGTACAACGGGACTACATGCCCAGAGGCATA
105872981 CATAA
1 CATAA
105872986 CAATGTTTTG
Statistics
Matches: 61, Mismatches: 3, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
59 61 1.00
ACGTcount: A:0.38, C:0.20, G:0.20, T:0.22
Consensus pattern (59 bp):
CATAAATTTAAGATGCCAGAGTTTGAAAAGTACAACGGGACTACATGCCCAGAGGCATA
Found at i:105880531 original size:44 final size:44
Alignment explanation
Indices: 105880477--105880655 Score: 161
Period size: 44 Copynumber: 4.1 Consensus size: 44
105880467 TCAGCATGGT
* *
105880477 ATCCCTGTGTTTATAGGGAACA-AGTTGAAGATAGCAGATTTGGC
1 ATCCTTGTGTTTATAGGGAACAGA-TCGAAGATAGCAGATTTGGC
* * *
105880521 ATCCTTGTGTTTATAGGGAACAGATCGAAGATAACAGATATGAC
1 ATCCTTGTGTTTATAGGGAACAGATCGAAGATAGCAGATTTGGC
* * * * * **
105880565 ATTCC-TATGCTTACAGCGAAGCAGATCGAGGATTTCAGCA--TGGC
1 A-TCCTTGTGTTTATAGGGAA-CAGATCGAAGATAGCAG-ATTTGGC
*
105880609 ATCCTTGTGTTTATAGGGAACA-AGTTGAAGATAGCAGATTTGGC
1 ATCCTTGTGTTTATAGGGAACAGA-TCGAAGATAGCAGATTTGGC
105880653 ATC
1 ATC
105880656 TCTGTATTGT
Statistics
Matches: 106, Mismatches: 21, Indels: 16
0.74 0.15 0.11
Matches are distributed among these distances:
42 2 0.02
43 14 0.13
44 71 0.67
45 18 0.17
46 1 0.01
ACGTcount: A:0.31, C:0.16, G:0.25, T:0.28
Consensus pattern (44 bp):
ATCCTTGTGTTTATAGGGAACAGATCGAAGATAGCAGATTTGGC
Found at i:105880681 original size:132 final size:132
Alignment explanation
Indices: 105880442--105880691 Score: 380
Period size: 132 Copynumber: 1.9 Consensus size: 132
105880432 GCAGATCTGA
*
105880442 CTTACAGCGAAGCAGATCGAAGATTTCAGCATGGTATCCCTGTGTTTATAGGGAACAAGTTGAAG
1 CTTACAGCGAAGCAGATCGAAGATTTCAGCATGGCATCCCTGTGTTTATAGGGAACAAGTTGAAG
* * *
105880507 ATAGCAGATTTGGCATCCTTGTGTTTATAGGGAACAGATCGAAGATAACAGATATGACATTCCTA
66 ATAGCAGATTTGGCATCCTTGTATTTACAGAGAACAGATCGAAGATAACAGATATGACATTCCTA
105880572 TG
131 TG
* *
105880574 CTTACAGCGAAGCAGATCGAGGATTTCAGCATGGCATCCTTGTGTTTATAGGGAACAAGTTGAAG
1 CTTACAGCGAAGCAGATCGAAGATTTCAGCATGGCATCCCTGTGTTTATAGGGAACAAGTTGAAG
* *
105880639 ATAGCAGATTTGGCAT-CTCTGTATTGT-CAGAGAGCATG-TCGAAGATACCAGAT
66 ATAGCAGATTTGGCATCCT-TGTATT-TACAGAGAACA-GATCGAAGATAACAGAT
105880692 TTGGCATCTC
Statistics
Matches: 107, Mismatches: 8, Indels: 6
0.88 0.07 0.05
Matches are distributed among these distances:
131 2 0.02
132 103 0.96
133 2 0.02
ACGTcount: A:0.31, C:0.16, G:0.25, T:0.28
Consensus pattern (132 bp):
CTTACAGCGAAGCAGATCGAAGATTTCAGCATGGCATCCCTGTGTTTATAGGGAACAAGTTGAAG
ATAGCAGATTTGGCATCCTTGTATTTACAGAGAACAGATCGAAGATAACAGATATGACATTCCTA
TG
Found at i:105880697 original size:88 final size:88
Alignment explanation
Indices: 105880503--105880699 Score: 192
Period size: 88 Copynumber: 2.2 Consensus size: 88
105880493 GGAACAAGTT
*
105880503 GAAGATAGCAGATTTGGCATCCTTGTGTTTATAGGGAACAGATCGAAGATAACAGATATGACATT
1 GAAGATACCAGATTTGGCATCCTTGTGTTTATAGGGAACAGATCGAAGATAACAGATATGACATT
*
105880568 CCTATGCTTACAGCGAAGCAGATC
66 CCTATGC-TACAGAGAAGCAGATC
* ** * * * *
105880592 GAGGATTTCAGCA--TGGCATCCTTGTGTTTATAGGGAACA-AGTTGAAGATAGCAGATTTGGCA
1 GAAGATACCAG-ATTTGGCATCCTTGTGTTTATAGGGAACAGA-TCGAAGATAACAGATATGACA
*
105880654 TCTCTGTATTG-T-CAGAG-AGCATG-TC
64 T-TC-CTA-TGCTACAGAGAAGCA-GATC
105880679 GAAGATACCAGATTTGGCATC
1 GAAGATACCAGATTTGGCATC
105880700 TCTGTATTGG
Statistics
Matches: 88, Mismatches: 12, Indels: 17
0.75 0.10 0.15
Matches are distributed among these distances:
86 1 0.01
87 15 0.17
88 56 0.64
89 11 0.12
90 3 0.03
91 2 0.02
ACGTcount: A:0.30, C:0.16, G:0.25, T:0.28
Consensus pattern (88 bp):
GAAGATACCAGATTTGGCATCCTTGTGTTTATAGGGAACAGATCGAAGATAACAGATATGACATT
CCTATGCTACAGAGAAGCAGATC
Found at i:105880725 original size:44 final size:44
Alignment explanation
Indices: 105880635--105880718 Score: 141
Period size: 44 Copynumber: 1.9 Consensus size: 44
105880625 GGAACAAGTT
* *
105880635 GAAGATAGCAGATTTGGCATCTCTGTATTGTCAGAGAGCATGTC
1 GAAGATACCAGATTTGGCATCTCTGTATTGGCAGAGAGCATGTC
*
105880679 GAAGATACCAGATTTGGCATCTCTGTATTGGCGGAGAGCA
1 GAAGATACCAGATTTGGCATCTCTGTATTGGCAGAGAGCA
105880719 GATCGAAAAC
Statistics
Matches: 37, Mismatches: 3, Indels: 0
0.93 0.08 0.00
Matches are distributed among these distances:
44 37 1.00
ACGTcount: A:0.27, C:0.17, G:0.29, T:0.27
Consensus pattern (44 bp):
GAAGATACCAGATTTGGCATCTCTGTATTGGCAGAGAGCATGTC
Found at i:105881053 original size:206 final size:207
Alignment explanation
Indices: 105880714--105881140 Score: 705
Period size: 206 Copynumber: 2.1 Consensus size: 207
105880704 TATTGGCGGA
* * * * * *
105880714 GAGCAGATCGAAAACATAGCTGATTTGGCTTTCACGTGTTTACGTTGAAGCAAATCTAAGATGAT
1 GAGCAAATCGAAGACATAGCTAATTTAGCTTTCACGTGCTTACGATGAAGCAAATCTAAGATGAT
* *
105880779 TTGGCATTCTCTGTGTTGTCAAAGAACAAATCGAAGTCTGGCATCTCCACTTCAATGGAGAGCAG
66 TTGGCAGTCTCTGTGTTGTCAAAGAACAAATCGAAGTCTGGCATCTCCACTTCAATGAAGAGCAG
*
105880844 ATACATAGCAGATCTCACCTTCAGACGATTAGACTGAAGCAAGATCCAAGATGATTTGGCATCCT
131 ATACATAGCAGATCTCACCTTCAGACGATTACACTGAAGCAAGATCCAAGATGATTTGGCATCCT
105880909 TGTGCTTACAAG
196 TGTGCTTACAAG
105880921 GAGCAAATCGAAGACATAGCTAATTTAGCTTTCACGTGCTTACGATGAAGCAAATCTAAGATGAT
1 GAGCAAATCGAAGACATAGCTAATTTAGCTTTCACGTGCTTACGATGAAGCAAATCTAAGATGAT
* *
105880986 TTGTC-GTCTCTGTAG-TGTCAGAGAACAAATCGAAGTCTGGCATCTCCACTTCAATGAAGAGCA
66 TTGGCAGTCTCTGT-GTTGTCAAAGAACAAATCGAAGTCTGGCATCTCCACTTCAATGAAGAGCA
* *
105881049 GATACATAGCAGATCTGACCTTCAGACGATTACACTGAAGCAAGATCCAAGATGATTTGGCATTC
130 GATACATAGCAGATCTCACCTTCAGACGATTACACTGAAGCAAGATCCAAGATGATTTGGCATCC
105881114 TTGTGCTTACAAG
195 TTGTGCTTACAAG
*
105881127 GAACAAATCGAAGA
1 GAGCAAATCGAAGA
105881141 GGCAAATTTG
Statistics
Matches: 205, Mismatches: 14, Indels: 3
0.92 0.06 0.01
Matches are distributed among these distances:
206 141 0.69
207 64 0.31
ACGTcount: A:0.33, C:0.20, G:0.21, T:0.26
Consensus pattern (207 bp):
GAGCAAATCGAAGACATAGCTAATTTAGCTTTCACGTGCTTACGATGAAGCAAATCTAAGATGAT
TTGGCAGTCTCTGTGTTGTCAAAGAACAAATCGAAGTCTGGCATCTCCACTTCAATGAAGAGCAG
ATACATAGCAGATCTCACCTTCAGACGATTACACTGAAGCAAGATCCAAGATGATTTGGCATCCT
TGTGCTTACAAG
Found at i:105882860 original size:16 final size:15
Alignment explanation
Indices: 105882839--105882886 Score: 69
Period size: 16 Copynumber: 3.1 Consensus size: 15
105882829 TTTTATACCA
105882839 TATTATATAATTACTT
1 TATTATAT-ATTACTT
*
105882855 TATTATATATTATTGT
1 TATTATATATTACT-T
105882871 TATTATATATTACTT
1 TATTATATATTACTT
105882886 T
1 T
105882887 TTCTTTTCTT
Statistics
Matches: 29, Mismatches: 2, Indels: 3
0.85 0.06 0.09
Matches are distributed among these distances:
15 7 0.24
16 22 0.76
ACGTcount: A:0.33, C:0.04, G:0.02, T:0.60
Consensus pattern (15 bp):
TATTATATATTACTT
Found at i:105883057 original size:15 final size:14
Alignment explanation
Indices: 105883009--105883057 Score: 53
Period size: 15 Copynumber: 3.2 Consensus size: 14
105882999 TTTCATATTA
*
105883009 TATATTATAATTATT
1 TATATTATTATT-TT
105883024 TATATTATGTCATTTT
1 TATATTAT-T-ATTTT
105883040 TATATTATTATGTTT
1 TATATTATTAT-TTT
105883055 TAT
1 TAT
105883058 CTATACATTA
Statistics
Matches: 30, Mismatches: 1, Indels: 6
0.81 0.03 0.16
Matches are distributed among these distances:
14 2 0.07
15 15 0.50
16 10 0.33
17 3 0.10
ACGTcount: A:0.31, C:0.02, G:0.04, T:0.63
Consensus pattern (14 bp):
TATATTATTATTTT
Found at i:105898274 original size:210 final size:209
Alignment explanation
Indices: 105897895--105898517 Score: 899
Period size: 210 Copynumber: 3.0 Consensus size: 209
105897885 AGTTCTTACG
* * * *
105897895 AGGCTTAAGCTTTTGAATTTAAGAGGCTGCAAAAGTCTGAGGAGTTTTCCAACCAAAATTGGAAT
1 AGGCTTAAG-TTTTGAATTTAAAAGACTGCAAAAGTCTTAGGAGTCTTCCAACCAAAATTGGAAT
*
105897960 GGAATCTCTTGAAATGTTAATTCTTTCAGGTTGCTCAAAAT-TTCAAAGCTTTCCAGAGATTGAT
65 GGAATCTCTTGAAAAGTTAATTCTTTCAGGTTGCTC-AAATCTTCAAAGCTTTCCAGAGATTGAT
* ** *
105898024 GGGAAAATGGAATGTTTGTTGGAGCTTTGTTTTTATGGGACAAAAATTAAAGAGCTACCTTCTTC
129 GGGAAAATGGAATGTTTGTTGGAGCTTTATTTAGATGGGACAAACATTAAAGAGCTACCTTCTTC
105898089 AATCGGAAATCTCAGA
194 AATCGGAAATCTCAGA
* *
105898105 AGGCTTGAAGTTTTGAATTTAAAAGACTGTAAAAGTTTTAGGAGTCTTCCAACCAAAATTGGAAT
1 AGGCTT-AAGTTTTGAATTTAAAAGACTGCAAAAGTCTTAGGAGTCTTCCAACCAAAATTGGAAT
* *
105898170 GGAATCTCTTGAAAAGTTAATTCTTTCAGGTTGCTCAAATCTTCAAAGCCTGCCAGAGATTGATG
65 GGAATCTCTTGAAAAGTTAATTCTTTCAGGTTGCTCAAATCTTCAAAGCTTTCCAGAGATTGATG
* *
105898235 GGAAAATGGAATGTTTATTGGAGCTTTATTTAGATGGGACAAACATTAAAGATCTACCTTCTTCA
130 GGAAAATGGAATGTTTGTTGGAGCTTTATTTAGATGGGACAAACATTAAAGAGCTACCTTCTTCA
*
105898300 ATCGAAAATCTCAGA
195 ATCGGAAATCTCAGA
* * *
105898315 AGACTTAAAGTTTTGAATCTAAAAGACTGCAAAAGTCTTAGGAGTCTTCCAATCAAAATTGGAAT
1 AGGCTT-AAGTTTTGAATTTAAAAGACTGCAAAAGTCTTAGGAGTCTTCCAACCAAAATTGGAAT
* * * *
105898380 GGAATCTCTTAAAAAGTTAATTCTTTCAGGTTGCTCCAATCTTAAAAGGTTTCCAGAGATTGATG
65 GGAATCTCTTGAAAAGTTAATTCTTTCAGGTTGCTCAAATCTTCAAAGCTTTCCAGAGATTGATG
* ** * * ***
105898445 GCAAAATGGAATGCCTGCTAGAGCTTTATTTAGATGGGACGGCCATTAAAGAGCTACCTAT-TTC
130 GGAAAATGGAATGTTTGTTGGAGCTTTATTTAGATGGGACAAACATTAAAGAGCTACCT-TCTTC
*
105898509 AATTGGAAA
194 AATCGGAAA
105898518 CCTGAGCAGT
Statistics
Matches: 370, Mismatches: 40, Indels: 6
0.89 0.10 0.01
Matches are distributed among these distances:
209 4 0.01
210 362 0.98
211 4 0.01
ACGTcount: A:0.34, C:0.14, G:0.20, T:0.32
Consensus pattern (209 bp):
AGGCTTAAGTTTTGAATTTAAAAGACTGCAAAAGTCTTAGGAGTCTTCCAACCAAAATTGGAATG
GAATCTCTTGAAAAGTTAATTCTTTCAGGTTGCTCAAATCTTCAAAGCTTTCCAGAGATTGATGG
GAAAATGGAATGTTTGTTGGAGCTTTATTTAGATGGGACAAACATTAAAGAGCTACCTTCTTCAA
TCGGAAATCTCAGA
Found at i:105900909 original size:6 final size:6
Alignment explanation
Indices: 105900898--105900930 Score: 52
Period size: 6 Copynumber: 5.8 Consensus size: 6
105900888 TTTTATATTC
105900898 TTTTAA TTTTAA TTTTAA -TTT-A TTTTAA TTTTA
1 TTTTAA TTTTAA TTTTAA TTTTAA TTTTAA TTTTA
105900931 TAGTTTTTGA
Statistics
Matches: 25, Mismatches: 0, Indels: 4
0.86 0.00 0.14
Matches are distributed among these distances:
4 1 0.04
5 6 0.24
6 18 0.72
ACGTcount: A:0.30, C:0.00, G:0.00, T:0.70
Consensus pattern (6 bp):
TTTTAA
Found at i:105901781 original size:146 final size:146
Alignment explanation
Indices: 105901498--105901781 Score: 317
Period size: 146 Copynumber: 1.9 Consensus size: 146
105901488 TTTAGTCACA
* * * * *
105901498 TTTTTTTAATACAAATGTTTAGAATTACTTATAGTCTCTCTTCAACCTTTAAATAGGAGGGTAAA
1 TTTTTTTAATACAAATGTCTAGAATTACTTACAGTCTCTCTCCAACCTTTAAATAAGAGGATAAA
** * * *
105901563 TAGGTTTCAACGCACTAGAAACCACAACCTCCTACATAAGCAACAATGTTGATACCAATCAAGTT
66 TAGGTTTCAACGCACTAGAAACCACAACCTCCTACATAAGCAACAATGTCAATACCAACCAACTA
105901628 AGAACTCAATCATAAT
131 AGAACTCAATCATAAT
*
105901644 TTTTTTTAATACAAATGTCTAGAATTA-TCTGCAGTCTCT-TCCCAA-CTGTTAAATAAGAGGAT
1 TTTTTTTAATACAAATGTCTAGAATTACT-TACAGTCTCTCT-CCAACCT-TTAAATAAGAGGAT
** * * ** * *
105901706 AAATTTGTTTCAACGCACTCG-AACTCACATCCTCCTGTATAGGCAACAATGTCAATATCAACCA
63 AAATAGGTTTCAACGCACTAGAAAC-CACAACCTCCTACATAAGCAACAATGTCAATACCAACC-
105901770 AACTAAG-ACTCA
126 AACTAAGAACTCA
105901782 GTCACAAATT
Statistics
Matches: 114, Mismatches: 19, Indels: 10
0.80 0.13 0.07
Matches are distributed among these distances:
145 7 0.06
146 102 0.89
147 5 0.04
ACGTcount: A:0.36, C:0.21, G:0.12, T:0.31
Consensus pattern (146 bp):
TTTTTTTAATACAAATGTCTAGAATTACTTACAGTCTCTCTCCAACCTTTAAATAAGAGGATAAA
TAGGTTTCAACGCACTAGAAACCACAACCTCCTACATAAGCAACAATGTCAATACCAACCAACTA
AGAACTCAATCATAAT
Found at i:105903148 original size:19 final size:19
Alignment explanation
Indices: 105903124--105903169 Score: 58
Period size: 19 Copynumber: 2.4 Consensus size: 19
105903114 GGGAAAGTCT
105903124 AATGCAAAT-AATGCAATG
1 AATGCAAATGAATGCAATG
* *
105903142 CAATGCAAATGCATGGAATG
1 -AATGCAAATGAATGCAATG
105903162 AATGCAAA
1 AATGCAAA
105903170 AGAAAGAGAG
Statistics
Matches: 24, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
19 17 0.71
20 7 0.29
ACGTcount: A:0.48, C:0.13, G:0.20, T:0.20
Consensus pattern (19 bp):
AATGCAAATGAATGCAATG
Found at i:105905500 original size:3 final size:3
Alignment explanation
Indices: 105905453--105905579 Score: 118
Period size: 3 Copynumber: 43.3 Consensus size: 3
105905443 AATATGTTAG
* * * * * *
105905453 TAA TAA T-A TAA T-A TAG TAA TAG TAG TAG TAA TAG TAA TAA AAA TAA
1 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA
* * * *
105905499 TAG TAA TAA -AA GTAG TAC TAA TAG TAA TAA TAA TAA TAA T-A TAA
1 TAA TAA TAA TAA -TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA
*
105905543 TAA TAG TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA T
1 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA T
105905580 GACACAAGAA
Statistics
Matches: 102, Mismatches: 17, Indels: 10
0.79 0.13 0.08
Matches are distributed among these distances:
2 8 0.08
3 93 0.91
4 1 0.01
ACGTcount: A:0.58, C:0.01, G:0.08, T:0.33
Consensus pattern (3 bp):
TAA
Found at i:105905673 original size:7 final size:7
Alignment explanation
Indices: 105905661--105905710 Score: 50
Period size: 7 Copynumber: 7.1 Consensus size: 7
105905651 TAATAAGGAT
105905661 AATAATA
1 AATAATA
105905668 AATAATA
1 AATAATA
105905675 AATAAT-
1 AATAATA
105905681 AATAAT-
1 AATAATA
* *
105905687 ACTAAATT
1 AAT-AATA
105905695 AATAATA
1 AATAATA
105905702 AAGTAATA
1 AA-TAATA
105905710 A
1 A
105905711 GCAAATAGAC
Statistics
Matches: 37, Mismatches: 3, Indels: 5
0.82 0.07 0.11
Matches are distributed among these distances:
6 8 0.22
7 21 0.57
8 8 0.22
ACGTcount: A:0.66, C:0.02, G:0.02, T:0.30
Consensus pattern (7 bp):
AATAATA
Found at i:105905697 original size:11 final size:11
Alignment explanation
Indices: 105905660--105905710 Score: 50
Period size: 11 Copynumber: 4.5 Consensus size: 11
105905650 TTAATAAGGA
105905660 TAATAATAAA-
1 TAATAATAAAG
*
105905670 TAATAAATAATAA
1 TAAT-AATAA-AG
* *
105905683 TAATACTAAAT
1 TAATAATAAAG
105905694 TAATAATAAAG
1 TAATAATAAAG
105905705 TAATAA
1 TAATAA
105905711 GCAAATAGAC
Statistics
Matches: 34, Mismatches: 4, Indels: 5
0.79 0.09 0.12
Matches are distributed among these distances:
10 4 0.12
11 21 0.62
12 5 0.15
13 4 0.12
ACGTcount: A:0.65, C:0.02, G:0.02, T:0.31
Consensus pattern (11 bp):
TAATAATAAAG
Found at i:105905698 original size:20 final size:17
Alignment explanation
Indices: 105905659--105905710 Score: 70
Period size: 17 Copynumber: 3.0 Consensus size: 17
105905649 GTTAATAAGG
105905659 ATAATAATAAATAATAA
1 ATAATAATAAATAATAA
*
105905676 ATAATAAT-AATACTAA
1 ATAATAATAAATAATAA
105905692 ATTAATAATAAAGTAATAA
1 A-TAATAATAAA-TAATAA
105905711 GCAAATAGAC
Statistics
Matches: 30, Mismatches: 2, Indels: 4
0.83 0.06 0.11
Matches are distributed among these distances:
16 8 0.27
17 15 0.50
18 2 0.07
19 5 0.17
ACGTcount: A:0.65, C:0.02, G:0.02, T:0.31
Consensus pattern (17 bp):
ATAATAATAAATAATAA
Found at i:105906131 original size:12 final size:11
Alignment explanation
Indices: 105906105--105906156 Score: 59
Period size: 12 Copynumber: 4.4 Consensus size: 11
105906095 GAAATAACAG
*
105906105 TAATAAAAACAA
1 TAATAATAA-AA
105906117 TAATAATAAATA
1 TAATAATAAA-A
105906129 TAATAATAGAAA
1 TAATAATA-AAA
105906141 TAATAATGAAAA
1 TAATAAT-AAAA
105906153 TAAT
1 TAAT
105906157 TAATTTGAGA
Statistics
Matches: 36, Mismatches: 1, Indels: 6
0.84 0.02 0.14
Matches are distributed among these distances:
11 1 0.03
12 32 0.89
13 3 0.08
ACGTcount: A:0.67, C:0.02, G:0.04, T:0.27
Consensus pattern (11 bp):
TAATAATAAAA
Found at i:105906146 original size:15 final size:15
Alignment explanation
Indices: 105906089--105906147 Score: 61
Period size: 15 Copynumber: 4.1 Consensus size: 15
105906079 GTCGATAAGG
*
105906089 ATAATAGAAATAACA
1 ATAATAGAAATAATA
* * *
105906104 GTAATAAAAACAATA
1 ATAATAGAAATAATA
105906119 ATAAT--AAAT-ATA
1 ATAATAGAAATAATA
105906131 ATAATAGAAATAATA
1 ATAATAGAAATAATA
105906146 AT
1 AT
105906148 GAAAATAATT
Statistics
Matches: 35, Mismatches: 6, Indels: 6
0.74 0.13 0.13
Matches are distributed among these distances:
12 8 0.23
13 3 0.09
14 4 0.11
15 20 0.57
ACGTcount: A:0.66, C:0.03, G:0.05, T:0.25
Consensus pattern (15 bp):
ATAATAGAAATAATA
Found at i:105908438 original size:12 final size:12
Alignment explanation
Indices: 105908421--105908447 Score: 54
Period size: 12 Copynumber: 2.2 Consensus size: 12
105908411 GAAAATAGGG
105908421 TTTTAGCGGCGT
1 TTTTAGCGGCGT
105908433 TTTTAGCGGCGT
1 TTTTAGCGGCGT
105908445 TTT
1 TTT
105908448 ATCAAAAAAT
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 15 1.00
ACGTcount: A:0.07, C:0.15, G:0.30, T:0.48
Consensus pattern (12 bp):
TTTTAGCGGCGT
Found at i:105908600 original size:41 final size:40
Alignment explanation
Indices: 105908493--105908738 Score: 393
Period size: 41 Copynumber: 6.1 Consensus size: 40
105908483 GTTTGACCAA
*
105908493 AAACGTCGCTAAAAACAGAGCAATAGCGGCGTTTTTGGTC
1 AAACGCCGCTAAAAACAGAGCAATAGCGGCGTTTTTGGTC
105908533 AAACGCCGCTAAAAACAGAGCAATAGCGGCGTTTTTGGTC
1 AAACGCCGCTAAAAACAGAGCAATAGCGGCGTTTTTGGTC
*
105908573 AAACACCGCTAAAAAACAGAGCAATAGCGGCGTTTTTGGTC
1 AAACGCCGCT-AAAAACAGAGCAATAGCGGCGTTTTTGGTC
* * *
105908614 AAACGCCACTAAAAACAGAGCAATAGCGGCATTTTTGGTG
1 AAACGCCGCTAAAAACAGAGCAATAGCGGCGTTTTTGGTC
*
105908654 AAACGCCGCTAAAAAATAGAGCAATAGCGGCGTTTTTGGTC
1 AAACGCCGCT-AAAAACAGAGCAATAGCGGCGTTTTTGGTC
* *
105908695 AAACGCCGCTAAAAAACTGAGCAATAGCGGCGTTTTTGCTC
1 AAACGCCGCT-AAAAACAGAGCAATAGCGGCGTTTTTGGTC
105908736 AAA
1 AAA
105908739 ACGTCGCAAA
Statistics
Matches: 191, Mismatches: 13, Indels: 3
0.92 0.06 0.01
Matches are distributed among these distances:
40 85 0.45
41 106 0.55
ACGTcount: A:0.35, C:0.21, G:0.23, T:0.21
Consensus pattern (40 bp):
AAACGCCGCTAAAAACAGAGCAATAGCGGCGTTTTTGGTC
Found at i:105908607 original size:81 final size:81
Alignment explanation
Indices: 105908499--105908738 Score: 401
Period size: 81 Copynumber: 3.0 Consensus size: 81
105908489 CCAAAAACGT
105908499 CGCT-AAAAACAGAGCAATAGCGGCGTTTTTGGTCAAACGCCGCTAAAAACAGAGCAATAGCGGC
1 CGCTAAAAAACAGAGCAATAGCGGCGTTTTTGGTCAAACGCCGCTAAAAACAGAGCAATAGCGGC
105908563 GTTTTTGGTCAAACAC
66 GTTTTTGGTCAAACAC
*
105908579 CGCTAAAAAACAGAGCAATAGCGGCGTTTTTGGTCAAACGCCACTAAAAACAGAGCAATAGCGGC
1 CGCTAAAAAACAGAGCAATAGCGGCGTTTTTGGTCAAACGCCGCTAAAAACAGAGCAATAGCGGC
* * *
105908644 ATTTTTGGTGAAACGC
66 GTTTTTGGTCAAACAC
* *
105908660 CGCTAAAAAATAGAGCAATAGCGGCGTTTTTGGTCAAACGCCGCTAAAAAACTGAGCAATAGCGG
1 CGCTAAAAAACAGAGCAATAGCGGCGTTTTTGGTCAAACGCCGCT-AAAAACAGAGCAATAGCGG
*
105908725 CGTTTTTGCTCAAA
65 CGTTTTTGGTCAAA
105908739 ACGTCGCAAA
Statistics
Matches: 148, Mismatches: 10, Indels: 2
0.93 0.06 0.01
Matches are distributed among these distances:
80 4 0.03
81 115 0.78
82 29 0.20
ACGTcount: A:0.35, C:0.21, G:0.23, T:0.21
Consensus pattern (81 bp):
CGCTAAAAAACAGAGCAATAGCGGCGTTTTTGGTCAAACGCCGCTAAAAACAGAGCAATAGCGGC
GTTTTTGGTCAAACAC
Found at i:105908810 original size:46 final size:46
Alignment explanation
Indices: 105908755--105908886 Score: 149
Period size: 48 Copynumber: 2.8 Consensus size: 46
105908745 CAAAAAGTCA
105908755 TATAACCCCTAAAATCCTAAACCCAAAAAAATCATAAACACTAATC
1 TATAACCCCTAAAATCCTAAACCCAAAAAAATCATAAACACTAATC
* * *
105908801 TGTAACCCCTAAAATCCCTAACCCCCTAAAAAA-CACTAAACACTAATC
1 TATAACCCCTAAAAT-CCTAA-ACCCAAAAAAATCA-TAAACACTAATC
*** *
105908849 TATAACTTTTAAAACCCTAAACCCCAAAAAACATCATA
1 TATAACCCCTAAAATCCTAAA-CCCAAAAAA-ATCATA
105908887 TGGATGTTGA
Statistics
Matches: 70, Mismatches: 10, Indels: 10
0.78 0.11 0.11
Matches are distributed among these distances:
46 14 0.20
47 20 0.29
48 34 0.49
49 2 0.03
ACGTcount: A:0.48, C:0.30, G:0.01, T:0.20
Consensus pattern (46 bp):
TATAACCCCTAAAATCCTAAACCCAAAAAAATCATAAACACTAATC
Found at i:105909039 original size:15 final size:15
Alignment explanation
Indices: 105909010--105909053 Score: 54
Period size: 15 Copynumber: 3.0 Consensus size: 15
105909000 ATATTTAATA
*
105909010 TTTAAGG-TCTATGG
1 TTTAAGGTTTTATGG
*
105909024 TTTAGGGTTTTATGG
1 TTTAAGGTTTTATGG
*
105909039 TTTAAGGTTTAATGG
1 TTTAAGGTTTTATGG
105909054 CCATGGGTAG
Statistics
Matches: 25, Mismatches: 4, Indels: 1
0.83 0.13 0.03
Matches are distributed among these distances:
14 6 0.24
15 19 0.76
ACGTcount: A:0.20, C:0.02, G:0.30, T:0.48
Consensus pattern (15 bp):
TTTAAGGTTTTATGG
Found at i:105909199 original size:37 final size:37
Alignment explanation
Indices: 105909145--105909312 Score: 255
Period size: 37 Copynumber: 4.5 Consensus size: 37
105909135 TTTTCGTTTG
*
105909145 TCGCCTTTGCCCCGTGCATCGCAACCCATCCCCTCCA
1 TCGCCTTCGCCCCGTGCATCGCAACCCATCCCCTCCA
* * *
105909182 TCGCCTTTGCCCTGTGCATCGTAACCCATCCCCTCCA
1 TCGCCTTCGCCCCGTGCATCGCAACCCATCCCCTCCA
*
105909219 TCGCCTTCGCCCCGTGCGTCGCAACCCATCCCCTCCA
1 TCGCCTTCGCCCCGTGCATCGCAACCCATCCCCTCCA
* * *
105909256 TCGCCTTCGCCCCGTGCGTCGCAACCTATCTCCTCCA
1 TCGCCTTCGCCCCGTGCATCGCAACCCATCCCCTCCA
*
105909293 TCGCCTTCGCCCTGTGCATC
1 TCGCCTTCGCCCCGTGCATC
105909313 TGCTGCATAG
Statistics
Matches: 121, Mismatches: 10, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
37 121 1.00
ACGTcount: A:0.11, C:0.49, G:0.15, T:0.24
Consensus pattern (37 bp):
TCGCCTTCGCCCCGTGCATCGCAACCCATCCCCTCCA
Found at i:105917122 original size:210 final size:209
Alignment explanation
Indices: 105916507--105917059 Score: 863
Period size: 210 Copynumber: 2.6 Consensus size: 209
105916497 AGGCTTAAGC
* * * * * *
105916507 TTTTGAATTTAAGAGGCTGCAAAAGTCTGAGGAGTTTTCCAACCGAAATTAGAATGGAATCTCTT
1 TTTTGAATTTAAAAGACTGCAAAAGTCTTAGGAGTCTTCCAACCAAAATTGGAATGGAATCTCTT
* * *
105916572 GAAATGTTAAGTCTTTCAGGTTGCTCAAAACTTCAAAGCTTTCCAGAGATTGATGGGAAAATGGA
66 GAAAAGTTAATTCTTTCAGGTTGCTCAAATCTTCAAAGCTTTCCAGAGATTGATGGGAAAATGGA
*
105916637 ATGTTTGTTGGAGCTTTGTTCTGATGGGACAAACATTAAAGAGCTATCTTCTTCAATCAGAAATC
131 ATGTTTGTTGGAGCTTTGTT-TGATGGGACAAACATTAAAGAGCTACCTTCTTCAATCAGAAATC
*
105916702 TCAGAAGACTTGAAG
195 TCAGAAGACTTAAAG
* *
105916717 TTTTGAATTTAAAAGACTGTAAAAGTCTTAGGAGTCTTCCAACCAAATTTGGAATGGAATCTCTT
1 TTTTGAATTTAAAAGACTGCAAAAGTCTTAGGAGTCTTCCAACCAAAATTGGAATGGAATCTCTT
*
105916782 GAAAAGTTAATTCTTTCAGGTTGCTCAAATCTTCAAAGCTTGCCAGAGATTGATGGGAAAATGGA
66 GAAAAGTTAATTCTTTCAGGTTGCTCAAATCTTCAAAGCTTTCCAGAGATTGATGGGAAAATGGA
*
105916847 ATGTTTATTGGAGCTTTGTTTTGATGGGACAAACATTAAAGAGCTACCTTCTTCAATCAGAAATC
131 ATGTTTGTTGGAGCTTTG-TTTGATGGGACAAACATTAAAGAGCTACCTTCTTCAATCAGAAATC
*
105916912 TTAGAAGACTTAAAG
195 TCAGAAGACTTAAAG
* * *
105916927 TTTTGAATCTAAAAGACTGCAAAAGTCTTAAGAGTCTTCCAATCAAAATTGGAATGGAATCTCTT
1 TTTTGAATTTAAAAGACTGCAAAAGTCTTAGGAGTCTTCCAACCAAAATTGGAATGGAATCTCTT
* * * * * *
105916992 AAAAAGTTAATTCTTTCAGGTTGCTCCAATCTTAAAAGGTTTCCAAAGATTGATGGCAAAATGGA
66 GAAAAGTTAATTCTTTCAGGTTGCTCAAATCTTCAAAGCTTTCCAGAGATTGATGGGAAAATGGA
105917057 ATG
131 ATG
105917060 CCTGCTAGAG
Statistics
Matches: 314, Mismatches: 28, Indels: 2
0.91 0.08 0.01
Matches are distributed among these distances:
210 312 0.99
211 2 0.01
ACGTcount: A:0.34, C:0.14, G:0.20, T:0.32
Consensus pattern (209 bp):
TTTTGAATTTAAAAGACTGCAAAAGTCTTAGGAGTCTTCCAACCAAAATTGGAATGGAATCTCTT
GAAAAGTTAATTCTTTCAGGTTGCTCAAATCTTCAAAGCTTTCCAGAGATTGATGGGAAAATGGA
ATGTTTGTTGGAGCTTTGTTTGATGGGACAAACATTAAAGAGCTACCTTCTTCAATCAGAAATCT
CAGAAGACTTAAAG
Found at i:105921752 original size:24 final size:24
Alignment explanation
Indices: 105921722--105921774 Score: 97
Period size: 24 Copynumber: 2.2 Consensus size: 24
105921712 CTATGTTATA
105921722 ATATTTGTAACTAAAATTAATATT
1 ATATTTGTAACTAAAATTAATATT
*
105921746 ATATTTGTATCTAAAATTAATATT
1 ATATTTGTAACTAAAATTAATATT
105921770 ATATT
1 ATATT
105921775 ATAAAACGTT
Statistics
Matches: 28, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
24 28 1.00
ACGTcount: A:0.43, C:0.04, G:0.04, T:0.49
Consensus pattern (24 bp):
ATATTTGTAACTAAAATTAATATT
Found at i:105922487 original size:14 final size:15
Alignment explanation
Indices: 105922447--105922488 Score: 50
Period size: 14 Copynumber: 2.9 Consensus size: 15
105922437 TAATTTGGAT
105922447 TAATTTATTTAAATA
1 TAATTTATTTAAATA
* *
105922462 TGATTTAATTAAA-A
1 TAATTTATTTAAATA
*
105922476 TAATTTTTTTAAA
1 TAATTTATTTAAA
105922489 GGGAAATAAT
Statistics
Matches: 22, Mismatches: 5, Indels: 1
0.79 0.18 0.04
Matches are distributed among these distances:
14 11 0.50
15 11 0.50
ACGTcount: A:0.45, C:0.00, G:0.02, T:0.52
Consensus pattern (15 bp):
TAATTTATTTAAATA
Found at i:105924810 original size:21 final size:21
Alignment explanation
Indices: 105924786--105924831 Score: 83
Period size: 21 Copynumber: 2.2 Consensus size: 21
105924776 TAGAGCAGAT
*
105924786 GCAGCAGCGAAGGAGGCAGCG
1 GCAGCAGCGAAGGAGGCAGCA
105924807 GCAGCAGCGAAGGAGGCAGCA
1 GCAGCAGCGAAGGAGGCAGCA
105924828 GCAG
1 GCAG
105924832 AGCAGAAAGT
Statistics
Matches: 24, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
21 24 1.00
ACGTcount: A:0.30, C:0.24, G:0.46, T:0.00
Consensus pattern (21 bp):
GCAGCAGCGAAGGAGGCAGCA
Found at i:105932236 original size:10 final size:10
Alignment explanation
Indices: 105932217--105932266 Score: 59
Period size: 10 Copynumber: 5.0 Consensus size: 10
105932207 TGAAATTCTA
105932217 AAAGATAAAT
1 AAAGATAAAT
105932227 ACAA-ATAAAT
1 A-AAGATAAAT
*
105932237 AAAGATAATT
1 AAAGATAAAT
105932247 AAAGATAAAT
1 AAAGATAAAT
105932257 GAAA-ATAAAT
1 -AAAGATAAAT
105932267 CCTAAAATTT
Statistics
Matches: 35, Mismatches: 2, Indels: 6
0.81 0.05 0.14
Matches are distributed among these distances:
9 2 0.06
10 28 0.80
11 5 0.14
ACGTcount: A:0.68, C:0.02, G:0.08, T:0.22
Consensus pattern (10 bp):
AAAGATAAAT
Found at i:105935706 original size:132 final size:132
Alignment explanation
Indices: 105935484--105935723 Score: 356
Period size: 132 Copynumber: 1.8 Consensus size: 132
105935474 AGAGGCGATA
* * * * *
105935484 TTCGATGTTTGGCAATTCGGGGAATCGTGCCCTACCGTGCTGGGTTGCAATTTCTCGTTTGCTCA
1 TTCGATGTTTAGCAATTCGGGGAATAGTGCCCTACCGTGCCGGGTTGCAATTCCTCATTTGCTCA
* * *
105935549 AAATAATCGAATGTCTCTTTAGAATTTCATTCATGTTTTCTAAAAACTTTTTAAAACGAAGGAAA
66 AAATAATCGAATATCCCTTCAGAATTTCATTCATGTTTTCTAAAAACTTTTTAAAACGAAGGAAA
105935614 TG
131 TG
* *
105935616 TTCGATGTTTAGCAATTCGGGGAATAGTGCCCTATCGTGCCGGGTTGCAATCTCCT-ATTTGTTC
1 TTCGATGTTTAGCAATTCGGGGAATAGTGCCCTACCGTGCCGGGTTGCAAT-TCCTCATTTGCTC
* *
105935680 AAAATAATCGAATATCCCTTCGGAATTTCATTCGTGTTTTCTAA
65 AAAATAATCGAATATCCCTTCAGAATTTCATTCATGTTTTCTAA
105935724 GGCGAGGCAA
Statistics
Matches: 95, Mismatches: 12, Indels: 2
0.87 0.11 0.02
Matches are distributed among these distances:
132 92 0.97
133 3 0.03
ACGTcount: A:0.25, C:0.19, G:0.20, T:0.37
Consensus pattern (132 bp):
TTCGATGTTTAGCAATTCGGGGAATAGTGCCCTACCGTGCCGGGTTGCAATTCCTCATTTGCTCA
AAATAATCGAATATCCCTTCAGAATTTCATTCATGTTTTCTAAAAACTTTTTAAAACGAAGGAAA
TG
Found at i:105950965 original size:72 final size:72
Alignment explanation
Indices: 105950848--105952405 Score: 2842
Period size: 72 Copynumber: 21.6 Consensus size: 72
105950838 NNNNNNNTCA
105950848 AAATGAGTTGAGCCTCAAGACACGTTGAGGTAATTTCAATTTCTGTTTTCAAAATTCAACTCATA
1 AAATGAGTTGAGCCTCAAGACACGTTGAGGTAATTTCAATTTCTGTTTTCAAAATTCAACTCATA
105950913 TTGCGAG
66 TTGCGAG
105950920 AAATGAGTTGAGCCTCAAGACACGTTGAGGTAATTTCAATTTCTGTTTTC-AAATTCAACTCATA
1 AAATGAGTTGAGCCTCAAGACACGTTGAGGTAATTTCAATTTCTGTTTTCAAAATTCAACTCATA
105950984 TTGCGAG
66 TTGCGAG
*
105950991 AAATGAGTTGAGCCTCAAGACACGTTGAGGTATTTTCAATTTCTG-TTTCAAAATTCAACTCATA
1 AAATGAGTTGAGCCTCAAGACACGTTGAGGTAATTTCAATTTCTGTTTTCAAAATTCAACTCATA
105951055 TTGCGAG
66 TTGCGAG
105951062 AAATGAGTTGAGCCTCAAGACACGTTGAGGT-ATTTCAATTTCTGCTTTTCAAAATTCAACTCAT
1 AAATGAGTTGAGCCTCAAGACACGTTGAGGTAATTTCAATTTCTG-TTTTCAAAATTCAACTCAT
105951126 ATTGCGAG
65 ATTGCGAG
105951134 AAATGAGTTGAGCCTCAAGACACGTTGAGGTAATTTCAATTTCTGTTTTCAAAATTCAACTCATA
1 AAATGAGTTGAGCCTCAAGACACGTTGAGGTAATTTCAATTTCTGTTTTCAAAATTCAACTCATA
105951199 TTGCGAG
66 TTGCGAG
105951206 AAATGAGTTGAGCCTCAAGACACGTTGAGGTAATTTCAATTTCTGTTTTCAAAATTCAACTCATA
1 AAATGAGTTGAGCCTCAAGACACGTTGAGGTAATTTCAATTTCTGTTTTCAAAATTCAACTCATA
105951271 TTGCGAG
66 TTGCGAG
*
105951278 AAATGAGTTGAGCCTCAAGACACGTTGAGGTATTTTCAATTTCTG-TTTCAAAATTCAACTCATA
1 AAATGAGTTGAGCCTCAAGACACGTTGAGGTAATTTCAATTTCTGTTTTCAAAATTCAACTCATA
105951342 TTGCGAG
66 TTGCGAG
105951349 AAATGAGTTGAGCCTCAAGACACGTTGAGGTAATTTCAATTTCTGTTTTCAAAATTCAACTCATA
1 AAATGAGTTGAGCCTCAAGACACGTTGAGGTAATTTCAATTTCTGTTTTCAAAATTCAACTCATA
105951414 TTGCGAG
66 TTGCGAG
105951421 AAATGAGTTGAGCCTCAAGACACGTTGAGGTAATTTCAATTTCTGTTTTCAAAATTCAACTCATA
1 AAATGAGTTGAGCCTCAAGACACGTTGAGGTAATTTCAATTTCTGTTTTCAAAATTCAACTCATA
105951486 TTGCGAG
66 TTGCGAG
* *
105951493 AAATGAGTTGAGCCTCAAGACACGTTGAGGTATTTTCAATTTCTGCTTCTCAAAATTCAACTCAT
1 AAATGAGTTGAGCCTCAAGACACGTTGAGGTAATTTCAATTTCTG-TTTTCAAAATTCAACTCAT
105951558 ATTGCGAG
65 ATTGCGAG
*
105951566 AAATGAGTTGAGCCTC-AGACACG-TGAGGTATTTTCAATTTCTGCTTTTCAAAATTCAACTCAT
1 AAATGAGTTGAGCCTCAAGACACGTTGAGGTAATTTCAATTTCTG-TTTTCAAAATTCAACTCAT
105951629 ATTGCGAG
65 ATTGCGAG
105951637 AAATGAGTTGAGCCTCAAGACACGTTGAGGTAATTTCAATTTCTGTTTTCAAAATTCAACTCATA
1 AAATGAGTTGAGCCTCAAGACACGTTGAGGTAATTTCAATTTCTGTTTTCAAAATTCAACTCATA
105951702 TTGCGAG
66 TTGCGAG
105951709 AAATGAGTTGAGCCTCAAGACACGTTGAGGTAATTTCAATTTCTGTTTTCAAAATTCAACTCATA
1 AAATGAGTTGAGCCTCAAGACACGTTGAGGTAATTTCAATTTCTGTTTTCAAAATTCAACTCATA
105951774 TTGCGAG
66 TTGCGAG
* *
105951781 AAATGAGTTGAGCCTCAAGACACGTTGAGGTATTTTCAATTTCTGCTTCTCAAAATTCAACTCAT
1 AAATGAGTTGAGCCTCAAGACACGTTGAGGTAATTTCAATTTCTG-TTTTCAAAATTCAACTCAT
105951846 ATTGCGAG
65 ATTGCGAG
105951854 AAATGAGTTGAGCCTCAAGACACGTTGAGGTAATTTCAATTTCTGTTTTCAAAATTCAACTCATA
1 AAATGAGTTGAGCCTCAAGACACGTTGAGGTAATTTCAATTTCTGTTTTCAAAATTCAACTCATA
105951919 TTGCGAG
66 TTGCGAG
105951926 AAATGAGTTGAGCCTCAAGACACGTTGAGGTAATTTCAATTTCTGTTTTCAAAATTCAACTCATA
1 AAATGAGTTGAGCCTCAAGACACGTTGAGGTAATTTCAATTTCTGTTTTCAAAATTCAACTCATA
105951991 TTGCGAG
66 TTGCGAG
* *
105951998 AAATGAGTTGAGCCTCAAGACACGTTGAGGTATTTTCAATTTCTGCTTCTCAAAATTCAACTCAT
1 AAATGAGTTGAGCCTCAAGACACGTTGAGGTAATTTCAATTTCTG-TTTTCAAAATTCAACTCAT
105952063 ATTGCGAG
65 ATTGCGAG
105952071 AAATGAGTTGAGCCTCAAGACACGTTGAGGTAATTTCAATTTCTGTTTTCAAAATTCAACTCATA
1 AAATGAGTTGAGCCTCAAGACACGTTGAGGTAATTTCAATTTCTGTTTTCAAAATTCAACTCATA
105952136 TTGCGAG
66 TTGCGAG
* *
105952143 AAATGAGTTGAGCCTCAAGACACGTTGAGGTATTTTCAATTTCTGCTTCTCAAAATTCAACTCAT
1 AAATGAGTTGAGCCTCAAGACACGTTGAGGTAATTTCAATTTCTG-TTTTCAAAATTCAACTCAT
105952208 ATTGCGAG
65 ATTGCGAG
105952216 AAATGAGTTGAGCCTCAAGACACGTTGAGGTAATTTCAATTTCTGTTTTCAAAATTCAACTCATA
1 AAATGAGTTGAGCCTCAAGACACGTTGAGGTAATTTCAATTTCTGTTTTCAAAATTCAACTCATA
105952281 TTGCGAG
66 TTGCGAG
* *
105952288 AAATGAGTTGAGCCTCAAGACACATTGAGGTATTTTCAATTTCTGCTTTTCAAAACTT-AACTCA
1 AAATGAGTTGAGCCTCAAGACACGTTGAGGTAATTTCAATTTCTG-TTTTCAAAA-TTCAACTCA
105952352 TATTGCGAG
64 TATTGCGAG
* * * *
105952361 AGATGAGTTGAGCCTCAAGGCACGCTGAGGTATTTTCAATTTCTG
1 AAATGAGTTGAGCCTCAAGACACGTTGAGGTAATTTCAATTTCTG
105952406 CTTTACTAAT
Statistics
Matches: 1447, Mismatches: 26, Indels: 25
0.97 0.02 0.02
Matches are distributed among these distances:
70 16 0.01
71 250 0.17
72 830 0.57
73 349 0.24
74 2 0.00
ACGTcount: A:0.31, C:0.17, G:0.18, T:0.33
Consensus pattern (72 bp):
AAATGAGTTGAGCCTCAAGACACGTTGAGGTAATTTCAATTTCTGTTTTCAAAATTCAACTCATA
TTGCGAG
Found at i:105951956 original size:217 final size:216
Alignment explanation
Indices: 105950848--105952405 Score: 2842
Period size: 217 Copynumber: 7.2 Consensus size: 216
105950838 NNNNNNNTCA
105950848 AAATGAGTTGAGCCTCAAGACACGTTGAGGTAATTTCAATTTCTGTTTTCAAAATTCAACTCATA
1 AAATGAGTTGAGCCTCAAGACACGTTGAGGTAATTTCAATTTCTGTTTTCAAAATTCAACTCATA
105950913 TTGCGAGAAATGAGTTGAGCCTCAAGACACGTTGAGGTAATTTCAATTTCTGTTTTC-AAATTCA
66 TTGCGAGAAATGAGTTGAGCCTCAAGACACGTTGAGGTAATTTCAATTTCTGTTTTCAAAATTCA
*
105950977 ACTCATATTGCGAGAAATGAGTTGAGCCTCAAGACACGTTGAGGTATTTTCAATTTCTG-TTTCA
131 ACTCATATTGCGAGAAATGAGTTGAGCCTCAAGACACGTTGAGGTAATTTCAATTTCTGTTTTCA
105951041 AAATTCAACTCATATTGCGAG
196 AAATTCAACTCATATTGCGAG
105951062 AAATGAGTTGAGCCTCAAGACACGTTGAGGT-ATTTCAATTTCTGCTTTTCAAAATTCAACTCAT
1 AAATGAGTTGAGCCTCAAGACACGTTGAGGTAATTTCAATTTCTG-TTTTCAAAATTCAACTCAT
105951126 ATTGCGAGAAATGAGTTGAGCCTCAAGACACGTTGAGGTAATTTCAATTTCTGTTTTCAAAATTC
65 ATTGCGAGAAATGAGTTGAGCCTCAAGACACGTTGAGGTAATTTCAATTTCTGTTTTCAAAATTC
105951191 AACTCATATTGCGAGAAATGAGTTGAGCCTCAAGACACGTTGAGGTAATTTCAATTTCTGTTTTC
130 AACTCATATTGCGAGAAATGAGTTGAGCCTCAAGACACGTTGAGGTAATTTCAATTTCTGTTTTC
105951256 AAAATTCAACTCATATTGCGAG
195 AAAATTCAACTCATATTGCGAG
*
105951278 AAATGAGTTGAGCCTCAAGACACGTTGAGGTATTTTCAATTTCTG-TTTCAAAATTCAACTCATA
1 AAATGAGTTGAGCCTCAAGACACGTTGAGGTAATTTCAATTTCTGTTTTCAAAATTCAACTCATA
105951342 TTGCGAGAAATGAGTTGAGCCTCAAGACACGTTGAGGTAATTTCAATTTCTGTTTTCAAAATTCA
66 TTGCGAGAAATGAGTTGAGCCTCAAGACACGTTGAGGTAATTTCAATTTCTGTTTTCAAAATTCA
105951407 ACTCATATTGCGAGAAATGAGTTGAGCCTCAAGACACGTTGAGGTAATTTCAATTTCTGTTTTCA
131 ACTCATATTGCGAGAAATGAGTTGAGCCTCAAGACACGTTGAGGTAATTTCAATTTCTGTTTTCA
105951472 AAATTCAACTCATATTGCGAG
196 AAATTCAACTCATATTGCGAG
* *
105951493 AAATGAGTTGAGCCTCAAGACACGTTGAGGTATTTTCAATTTCTGCTTCTCAAAATTCAACTCAT
1 AAATGAGTTGAGCCTCAAGACACGTTGAGGTAATTTCAATTTCTG-TTTTCAAAATTCAACTCAT
*
105951558 ATTGCGAGAAATGAGTTGAGCCTC-AGACACG-TGAGGTATTTTCAATTTCTGCTTTTCAAAATT
65 ATTGCGAGAAATGAGTTGAGCCTCAAGACACGTTGAGGTAATTTCAATTTCTG-TTTTCAAAATT
105951621 CAACTCATATTGCGAGAAATGAGTTGAGCCTCAAGACACGTTGAGGTAATTTCAATTTCTGTTTT
129 CAACTCATATTGCGAGAAATGAGTTGAGCCTCAAGACACGTTGAGGTAATTTCAATTTCTGTTTT
105951686 CAAAATTCAACTCATATTGCGAG
194 CAAAATTCAACTCATATTGCGAG
105951709 AAATGAGTTGAGCCTCAAGACACGTTGAGGTAATTTCAATTTCTGTTTTCAAAATTCAACTCATA
1 AAATGAGTTGAGCCTCAAGACACGTTGAGGTAATTTCAATTTCTGTTTTCAAAATTCAACTCATA
* *
105951774 TTGCGAGAAATGAGTTGAGCCTCAAGACACGTTGAGGTATTTTCAATTTCTGCTTCTCAAAATTC
66 TTGCGAGAAATGAGTTGAGCCTCAAGACACGTTGAGGTAATTTCAATTTCTG-TTTTCAAAATTC
105951839 AACTCATATTGCGAGAAATGAGTTGAGCCTCAAGACACGTTGAGGTAATTTCAATTTCTGTTTTC
130 AACTCATATTGCGAGAAATGAGTTGAGCCTCAAGACACGTTGAGGTAATTTCAATTTCTGTTTTC
105951904 AAAATTCAACTCATATTGCGAG
195 AAAATTCAACTCATATTGCGAG
105951926 AAATGAGTTGAGCCTCAAGACACGTTGAGGTAATTTCAATTTCTGTTTTCAAAATTCAACTCATA
1 AAATGAGTTGAGCCTCAAGACACGTTGAGGTAATTTCAATTTCTGTTTTCAAAATTCAACTCATA
* *
105951991 TTGCGAGAAATGAGTTGAGCCTCAAGACACGTTGAGGTATTTTCAATTTCTGCTTCTCAAAATTC
66 TTGCGAGAAATGAGTTGAGCCTCAAGACACGTTGAGGTAATTTCAATTTCTG-TTTTCAAAATTC
105952056 AACTCATATTGCGAGAAATGAGTTGAGCCTCAAGACACGTTGAGGTAATTTCAATTTCTGTTTTC
130 AACTCATATTGCGAGAAATGAGTTGAGCCTCAAGACACGTTGAGGTAATTTCAATTTCTGTTTTC
105952121 AAAATTCAACTCATATTGCGAG
195 AAAATTCAACTCATATTGCGAG
* *
105952143 AAATGAGTTGAGCCTCAAGACACGTTGAGGTATTTTCAATTTCTGCTTCTCAAAATTCAACTCAT
1 AAATGAGTTGAGCCTCAAGACACGTTGAGGTAATTTCAATTTCTG-TTTTCAAAATTCAACTCAT
105952208 ATTGCGAGAAATGAGTTGAGCCTCAAGACACGTTGAGGTAATTTCAATTTCTGTTTTCAAAATTC
65 ATTGCGAGAAATGAGTTGAGCCTCAAGACACGTTGAGGTAATTTCAATTTCTGTTTTCAAAATTC
* *
105952273 AACTCATATTGCGAGAAATGAGTTGAGCCTCAAGACACATTGAGGTATTTTCAATTTCTGCTTTT
130 AACTCATATTGCGAGAAATGAGTTGAGCCTCAAGACACGTTGAGGTAATTTCAATTTCTG-TTTT
105952338 CAAAACTT-AACTCATATTGCGAG
194 CAAAA-TTCAACTCATATTGCGAG
* * * *
105952361 AGATGAGTTGAGCCTCAAGGCACGCTGAGGTATTTTCAATTTCTG
1 AAATGAGTTGAGCCTCAAGACACGTTGAGGTAATTTCAATTTCTG
105952406 CTTTACTAAT
Statistics
Matches: 1316, Mismatches: 16, Indels: 20
0.97 0.01 0.01
Matches are distributed among these distances:
213 13 0.01
214 108 0.08
215 341 0.26
216 214 0.16
217 502 0.38
218 136 0.10
219 2 0.00
ACGTcount: A:0.31, C:0.17, G:0.18, T:0.33
Consensus pattern (216 bp):
AAATGAGTTGAGCCTCAAGACACGTTGAGGTAATTTCAATTTCTGTTTTCAAAATTCAACTCATA
TTGCGAGAAATGAGTTGAGCCTCAAGACACGTTGAGGTAATTTCAATTTCTGTTTTCAAAATTCA
ACTCATATTGCGAGAAATGAGTTGAGCCTCAAGACACGTTGAGGTAATTTCAATTTCTGTTTTCA
AAATTCAACTCATATTGCGAG
Found at i:105952417 original size:145 final size:144
Alignment explanation
Indices: 105950848--105952405 Score: 2851
Period size: 145 Copynumber: 10.8 Consensus size: 144
105950838 NNNNNNNTCA
*
105950848 AAATGAGTTGAGCCTCAAGACACGTTGAGGTAATTTCAATTTCTGTTTTCAAAATTCAACTCATA
1 AAATGAGTTGAGCCTCAAGACACGTTGAGGTATTTTCAATTTCTGTTTTCAAAATTCAACTCATA
105950913 TTGCGAGAAATGAGTTGAGCCTCAAGACACGTTGAGGTAATTTCAATTTCTGTTTTC-AAATTCA
66 TTGCGAGAAATGAGTTGAGCCTCAAGACACGTTGAGGTAATTTCAATTTCTGTTTTCAAAATTCA
105950977 ACTCATATTGCGAG
131 ACTCATATTGCGAG
105950991 AAATGAGTTGAGCCTCAAGACACGTTGAGGTATTTTCAATTTCTG-TTTCAAAATTCAACTCATA
1 AAATGAGTTGAGCCTCAAGACACGTTGAGGTATTTTCAATTTCTGTTTTCAAAATTCAACTCATA
105951055 TTGCGAGAAATGAGTTGAGCCTCAAGACACGTTGAGGT-ATTTCAATTTCTGCTTTTCAAAATTC
66 TTGCGAGAAATGAGTTGAGCCTCAAGACACGTTGAGGTAATTTCAATTTCTG-TTTTCAAAATTC
105951119 AACTCATATTGCGAG
130 AACTCATATTGCGAG
*
105951134 AAATGAGTTGAGCCTCAAGACACGTTGAGGTAATTTCAATTTCTGTTTTCAAAATTCAACTCATA
1 AAATGAGTTGAGCCTCAAGACACGTTGAGGTATTTTCAATTTCTGTTTTCAAAATTCAACTCATA
105951199 TTGCGAGAAATGAGTTGAGCCTCAAGACACGTTGAGGTAATTTCAATTTCTGTTTTCAAAATTCA
66 TTGCGAGAAATGAGTTGAGCCTCAAGACACGTTGAGGTAATTTCAATTTCTGTTTTCAAAATTCA
105951264 ACTCATATTGCGAG
131 ACTCATATTGCGAG
105951278 AAATGAGTTGAGCCTCAAGACACGTTGAGGTATTTTCAATTTCTG-TTTCAAAATTCAACTCATA
1 AAATGAGTTGAGCCTCAAGACACGTTGAGGTATTTTCAATTTCTGTTTTCAAAATTCAACTCATA
105951342 TTGCGAGAAATGAGTTGAGCCTCAAGACACGTTGAGGTAATTTCAATTTCTGTTTTCAAAATTCA
66 TTGCGAGAAATGAGTTGAGCCTCAAGACACGTTGAGGTAATTTCAATTTCTGTTTTCAAAATTCA
105951407 ACTCATATTGCGAG
131 ACTCATATTGCGAG
*
105951421 AAATGAGTTGAGCCTCAAGACACGTTGAGGTAATTTCAATTTCTGTTTTCAAAATTCAACTCATA
1 AAATGAGTTGAGCCTCAAGACACGTTGAGGTATTTTCAATTTCTGTTTTCAAAATTCAACTCATA
* *
105951486 TTGCGAGAAATGAGTTGAGCCTCAAGACACGTTGAGGTATTTTCAATTTCTGCTTCTCAAAATTC
66 TTGCGAGAAATGAGTTGAGCCTCAAGACACGTTGAGGTAATTTCAATTTCTG-TTTTCAAAATTC
105951551 AACTCATATTGCGAG
130 AACTCATATTGCGAG
105951566 AAATGAGTTGAGCCTC-AGACACG-TGAGGTATTTTCAATTTCTGCTTTTCAAAATTCAACTCAT
1 AAATGAGTTGAGCCTCAAGACACGTTGAGGTATTTTCAATTTCTG-TTTTCAAAATTCAACTCAT
105951629 ATTGCGAGAAATGAGTTGAGCCTCAAGACACGTTGAGGTAATTTCAATTTCTGTTTTCAAAATTC
65 ATTGCGAGAAATGAGTTGAGCCTCAAGACACGTTGAGGTAATTTCAATTTCTGTTTTCAAAATTC
105951694 AACTCATATTGCGAG
130 AACTCATATTGCGAG
*
105951709 AAATGAGTTGAGCCTCAAGACACGTTGAGGTAATTTCAATTTCTGTTTTCAAAATTCAACTCATA
1 AAATGAGTTGAGCCTCAAGACACGTTGAGGTATTTTCAATTTCTGTTTTCAAAATTCAACTCATA
* *
105951774 TTGCGAGAAATGAGTTGAGCCTCAAGACACGTTGAGGTATTTTCAATTTCTGCTTCTCAAAATTC
66 TTGCGAGAAATGAGTTGAGCCTCAAGACACGTTGAGGTAATTTCAATTTCTG-TTTTCAAAATTC
105951839 AACTCATATTGCGAG
130 AACTCATATTGCGAG
*
105951854 AAATGAGTTGAGCCTCAAGACACGTTGAGGTAATTTCAATTTCTGTTTTCAAAATTCAACTCATA
1 AAATGAGTTGAGCCTCAAGACACGTTGAGGTATTTTCAATTTCTGTTTTCAAAATTCAACTCATA
105951919 TTGCGAGAAATGAGTTGAGCCTCAAGACACGTTGAGGTAATTTCAATTTCTGTTTTCAAAATTCA
66 TTGCGAGAAATGAGTTGAGCCTCAAGACACGTTGAGGTAATTTCAATTTCTGTTTTCAAAATTCA
105951984 ACTCATATTGCGAG
131 ACTCATATTGCGAG
*
105951998 AAATGAGTTGAGCCTCAAGACACGTTGAGGTATTTTCAATTTCTGCTTCTCAAAATTCAACTCAT
1 AAATGAGTTGAGCCTCAAGACACGTTGAGGTATTTTCAATTTCTG-TTTTCAAAATTCAACTCAT
105952063 ATTGCGAGAAATGAGTTGAGCCTCAAGACACGTTGAGGTAATTTCAATTTCTGTTTTCAAAATTC
65 ATTGCGAGAAATGAGTTGAGCCTCAAGACACGTTGAGGTAATTTCAATTTCTGTTTTCAAAATTC
105952128 AACTCATATTGCGAG
130 AACTCATATTGCGAG
*
105952143 AAATGAGTTGAGCCTCAAGACACGTTGAGGTATTTTCAATTTCTGCTTCTCAAAATTCAACTCAT
1 AAATGAGTTGAGCCTCAAGACACGTTGAGGTATTTTCAATTTCTG-TTTTCAAAATTCAACTCAT
105952208 ATTGCGAGAAATGAGTTGAGCCTCAAGACACGTTGAGGTAATTTCAATTTCTGTTTTCAAAATTC
65 ATTGCGAGAAATGAGTTGAGCCTCAAGACACGTTGAGGTAATTTCAATTTCTGTTTTCAAAATTC
105952273 AACTCATATTGCGAG
130 AACTCATATTGCGAG
*
105952288 AAATGAGTTGAGCCTCAAGACACATTGAGGTATTTTCAATTTCTGCTTTTCAAAACTT-AACTCA
1 AAATGAGTTGAGCCTCAAGACACGTTGAGGTATTTTCAATTTCTG-TTTTCAAAA-TTCAACTCA
* * * *
105952352 TATTGCGAGAGATGAGTTGAGCCTCAAGGCACGCTGAGGTATTTTCAATTTCTG
64 TATTGCGAGAAATGAGTTGAGCCTCAAGACACGTTGAGGTAATTTCAATTTCTG
105952406 CTTTACTAAT
Statistics
Matches: 1381, Mismatches: 22, Indels: 22
0.97 0.02 0.02
Matches are distributed among these distances:
141 13 0.01
142 62 0.04
143 312 0.23
144 424 0.31
145 568 0.41
146 2 0.00
ACGTcount: A:0.31, C:0.17, G:0.18, T:0.33
Consensus pattern (144 bp):
AAATGAGTTGAGCCTCAAGACACGTTGAGGTATTTTCAATTTCTGTTTTCAAAATTCAACTCATA
TTGCGAGAAATGAGTTGAGCCTCAAGACACGTTGAGGTAATTTCAATTTCTGTTTTCAAAATTCA
ACTCATATTGCGAG
Found at i:105952511 original size:14 final size:14
Alignment explanation
Indices: 105952489--105952521 Score: 59
Period size: 14 Copynumber: 2.4 Consensus size: 14
105952479 TCTTTTCAAA
105952489 TTCTG-TTTTTAAT
1 TTCTGTTTTTTAAT
105952502 TTCTGTTTTTTAAT
1 TTCTGTTTTTTAAT
105952516 TTCTGT
1 TTCTGT
105952522 GTTTCAAAAA
Statistics
Matches: 19, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
13 5 0.26
14 14 0.74
ACGTcount: A:0.12, C:0.09, G:0.09, T:0.70
Consensus pattern (14 bp):
TTCTGTTTTTTAAT
Found at i:105952511 original size:86 final size:87
Alignment explanation
Indices: 105952320--105952511 Score: 214
Period size: 86 Copynumber: 2.2 Consensus size: 87
105952310 CATTGAGGTA
* * * *
105952320 TTTTCAATTTCTGCTTTTCAAAACTTAACTCATATTGCGAGAGATGAGTTGAGCCTCAAGGCACG
1 TTTTTAATTTCTGTTTTTCAAAACTCAACTCATATTGCAAGAGATGAGTTGAGCCTCAAGGCACG
*
105952385 CTGAGGTATTTTCAATTTCTGC
66 CTGAGGTATTTTCAAATTCTGC
* * * *
105952407 TTTACTAA-TTCTACTTTTTC-AAA-TCAACTCATATTGCAAGAGGTGAGTTGAGTCTC-AGGCC
1 TTT-TTAATTTCT-GTTTTTCAAAACTCAACTCATATTGCAAGAGATGAGTTGAGCCTCAAGG--
*
105952468 ACACGCTGAGGTCTTTTCAAATTCTG-
62 -CACGCTGAGGTATTTTCAAATTCTGC
105952494 TTTTTAATTTCTGTTTTT
1 TTTTTAATTTCTGTTTTT
105952512 TAATTTCTGT
Statistics
Matches: 87, Mismatches: 12, Indels: 13
0.78 0.11 0.12
Matches are distributed among these distances:
85 3 0.03
86 37 0.43
87 17 0.20
88 30 0.34
ACGTcount: A:0.24, C:0.19, G:0.17, T:0.40
Consensus pattern (87 bp):
TTTTTAATTTCTGTTTTTCAAAACTCAACTCATATTGCAAGAGATGAGTTGAGCCTCAAGGCACG
CTGAGGTATTTTCAAATTCTGC
Found at i:105952611 original size:53 final size:54
Alignment explanation
Indices: 105952533--105952837 Score: 462
Period size: 55 Copynumber: 5.7 Consensus size: 54
105952523 TTTCAAAAAA
*
105952533 AAAAATCAACTCATATTGCAAGAGGTGAGTTGAGCCTTTTAATTTCTGTTTTTC
1 AAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTTTTAATTTCTGTTTTTC
*
105952587 AAAAATCAA-TCATATTGCGAGAGGTGAGTTGAGCCTTTTAATTTCTATTTTTC
1 AAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTTTTAATTTCTGTTTTTC
* *
105952640 AAAAACCAACTCATATTGCGAGAGGTGAGTTGAGCC--TT--TTTCTATTTTTC
1 AAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTTTTAATTTCTGTTTTTC
*
105952690 AAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTTTTGCAAATTCTG-TTTTC
1 AAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTTTT--AATTTCTGTTTTTC
*
105952745 AAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTTTTGCAAATTCTG-TTTTC
1 AAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTTTT--AATTTCTGTTTTTC
*
105952800 AAAAATCAACTCATATTGCGAGAAGTGAGTTGAGCCTT
1 AAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTT
105952838 GGCTCACGTG
Statistics
Matches: 237, Mismatches: 7, Indels: 13
0.92 0.03 0.05
Matches are distributed among these distances:
50 47 0.20
52 4 0.02
53 50 0.21
54 35 0.15
55 97 0.41
56 4 0.02
ACGTcount: A:0.30, C:0.16, G:0.19, T:0.35
Consensus pattern (54 bp):
AAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTTTTAATTTCTGTTTTTC
Found at i:105953177 original size:30 final size:29
Alignment explanation
Indices: 105953114--105953230 Score: 119
Period size: 30 Copynumber: 3.9 Consensus size: 29
105953104 TAAAAAATAA
* *
105953114 AAATTGCATTTTGACACCTAAACTTT-TCCT
1 AAATTTCATTTTGAC-CCTAAACTTTCT-TT
105953144 AAATTTCATTTTGACCCTTAAACTTTCTTT
1 AAATTTCATTTTGACCC-TAAACTTTCTTT
* * *
105953174 AAATTTCACTTAGACCCCTAAACTTTCATT
1 AAATTTCATTTTGA-CCCTAAACTTTCTTT
* * *
105953204 AAATTTCATTTTAATCCTAAATTTTCT
1 AAATTTCATTTTGACCCTAAACTTTCT
105953231 AAAAATTACA
Statistics
Matches: 73, Mismatches: 11, Indels: 7
0.80 0.12 0.08
Matches are distributed among these distances:
29 12 0.16
30 57 0.78
31 4 0.05
ACGTcount: A:0.31, C:0.21, G:0.03, T:0.44
Consensus pattern (29 bp):
AAATTTCATTTTGACCCTAAACTTTCTTT
Found at i:105953494 original size:10 final size:10
Alignment explanation
Indices: 105953475--105953524 Score: 59
Period size: 10 Copynumber: 5.2 Consensus size: 10
105953465 TTTTTCGAAG
*
105953475 GAAAAAAGAA
1 GAAAAGAGAA
105953485 GAAAAGAGAA
1 GAAAAGAGAA
105953495 GAAAAGAGAA
1 GAAAAGAGAA
* *
105953505 -AGAGGAGAA
1 GAAAAGAGAA
105953514 GAAAAGA-AA
1 GAAAAGAGAA
105953523 GA
1 GA
105953525 GTACCGGCGT
Statistics
Matches: 34, Mismatches: 5, Indels: 3
0.81 0.12 0.07
Matches are distributed among these distances:
9 11 0.32
10 23 0.68
ACGTcount: A:0.70, C:0.00, G:0.30, T:0.00
Consensus pattern (10 bp):
GAAAAGAGAA
Found at i:105953525 original size:17 final size:19
Alignment explanation
Indices: 105953478--105953520 Score: 63
Period size: 19 Copynumber: 2.3 Consensus size: 19
105953468 TTCGAAGGAA
105953478 AAAAGAAGAAA-A-GAGAAG
1 AAAAG-AGAAAGAGGAGAAG
105953496 AAAAGAGAAAGAGGAGAAG
1 AAAAGAGAAAGAGGAGAAG
105953515 AAAAGA
1 AAAAGA
105953521 AAGAGTACCG
Statistics
Matches: 23, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
17 5 0.22
18 6 0.26
19 12 0.52
ACGTcount: A:0.70, C:0.00, G:0.30, T:0.00
Consensus pattern (19 bp):
AAAAGAGAAAGAGGAGAAG
Found at i:105953586 original size:3 final size:3
Alignment explanation
Indices: 105953580--105953625 Score: 58
Period size: 3 Copynumber: 15.0 Consensus size: 3
105953570 GCTAGACTTT
*
105953580 GAA GAA GAA GAA GGAA GAA GAA GGAA GAA GAA -AA GAG GAA GAA GAA
1 GAA GAA GAA GAA -GAA GAA GAA -GAA GAA GAA GAA GAA GAA GAA GAA
105953626 AGAAAGAAAA
Statistics
Matches: 38, Mismatches: 2, Indels: 6
0.83 0.04 0.13
Matches are distributed among these distances:
2 2 0.05
3 30 0.79
4 6 0.16
ACGTcount: A:0.63, C:0.00, G:0.37, T:0.00
Consensus pattern (3 bp):
GAA
Found at i:105953598 original size:10 final size:10
Alignment explanation
Indices: 105953583--105953611 Score: 58
Period size: 10 Copynumber: 2.9 Consensus size: 10
105953573 AGACTTTGAA
105953583 GAAGAAGAAG
1 GAAGAAGAAG
105953593 GAAGAAGAAG
1 GAAGAAGAAG
105953603 GAAGAAGAA
1 GAAGAAGAA
105953612 AAGAGGAAGA
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
10 19 1.00
ACGTcount: A:0.62, C:0.00, G:0.38, T:0.00
Consensus pattern (10 bp):
GAAGAAGAAG
Found at i:105953598 original size:13 final size:13
Alignment explanation
Indices: 105953580--105953625 Score: 62
Period size: 13 Copynumber: 3.7 Consensus size: 13
105953570 GCTAGACTTT
105953580 GAAGAAGAAGAAG
1 GAAGAAGAAGAAG
105953593 GAAGAAGAAGGAA-
1 GAAGAAGAA-GAAG
105953606 GAAGAA-AAG-AG
1 GAAGAAGAAGAAG
105953617 GAAGAAGAA
1 GAAGAAGAA
105953626 AGAAAGAAAA
Statistics
Matches: 30, Mismatches: 0, Indels: 7
0.81 0.00 0.19
Matches are distributed among these distances:
10 1 0.03
11 7 0.23
12 4 0.13
13 15 0.50
14 3 0.10
ACGTcount: A:0.63, C:0.00, G:0.37, T:0.00
Consensus pattern (13 bp):
GAAGAAGAAGAAG
Found at i:105953637 original size:24 final size:24
Alignment explanation
Indices: 105953580--105953638 Score: 73
Period size: 25 Copynumber: 2.3 Consensus size: 24
105953570 GCTAGACTTT
*
105953580 GAAGAAGAAGAAGGAAGAAGAAGGAA
1 GAAGAA-AAG-AGGAAGAAGAAGAAA
105953606 GAAGAAAAGAGGAAGAAGAAAGAAA
1 GAAGAAAAGAGGAAGAAG-AAGAAA
*
105953631 GAAAAAAA
1 GAAGAAAA
105953639 AAGAAATAAT
Statistics
Matches: 30, Mismatches: 2, Indels: 3
0.86 0.06 0.09
Matches are distributed among these distances:
24 9 0.30
25 15 0.50
26 6 0.20
ACGTcount: A:0.68, C:0.00, G:0.32, T:0.00
Consensus pattern (24 bp):
GAAGAAAAGAGGAAGAAGAAGAAA
Found at i:105953765 original size:17 final size:17
Alignment explanation
Indices: 105953745--105953777 Score: 57
Period size: 17 Copynumber: 1.9 Consensus size: 17
105953735 GAAACAAGCC
*
105953745 CAAAAAAAAAATCAAAG
1 CAAAAAAAAAAGCAAAG
105953762 CAAAAAAAAAAGCAAA
1 CAAAAAAAAAAGCAAA
105953778 AAAAAGAAGG
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:0.79, C:0.12, G:0.06, T:0.03
Consensus pattern (17 bp):
CAAAAAAAAAAGCAAAG
Found at i:105953778 original size:11 final size:12
Alignment explanation
Indices: 105953758--105953782 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
105953748 AAAAAAAATC
105953758 AAAGCAAAAAAA
1 AAAGCAAAAAAA
105953770 AAAGCAAAAAAA
1 AAAGCAAAAAAA
105953782 A
1 A
105953783 GAAGGGAAAG
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:0.84, C:0.08, G:0.08, T:0.00
Consensus pattern (12 bp):
AAAGCAAAAAAA
Found at i:105953938 original size:9 final size:9
Alignment explanation
Indices: 105953920--105953977 Score: 61
Period size: 9 Copynumber: 6.7 Consensus size: 9
105953910 CAGCAGAAAA
105953920 AAAAAGGAAG
1 AAAAA-GAAG
105953930 AAAAAGAAG
1 AAAAAGAAG
105953939 -AAAA-AAG
1 AAAAAGAAG
105953946 -AAAA-AAG
1 AAAAAGAAG
*
105953953 AAAAAAGAAA
1 -AAAAAGAAG
105953963 AAAAAGAAG
1 AAAAAGAAG
105953972 AAAAAG
1 AAAAAG
105953978 GGGGTTCAAT
Statistics
Matches: 43, Mismatches: 2, Indels: 7
0.83 0.04 0.13
Matches are distributed among these distances:
7 10 0.23
8 4 0.09
9 22 0.51
10 7 0.16
ACGTcount: A:0.81, C:0.00, G:0.19, T:0.00
Consensus pattern (9 bp):
AAAAAGAAG
Found at i:105953940 original size:23 final size:22
Alignment explanation
Indices: 105953914--105953977 Score: 80
Period size: 23 Copynumber: 3.0 Consensus size: 22
105953904 GCAGCCCAGC
105953914 AGAAAAAAAAAGGAAGAAAAAGA
1 AGAAAAAAAAA-GAAGAAAAAGA
*
105953937 AGAAAAAAGAAAAAAG-AAAA-A
1 AGAAAAAA-AAAGAAGAAAAAGA
105953958 AG-AAAAAAAAGAAGAAAAAG
1 AGAAAAAAAAAGAAGAAAAAG
105953978 GGGGTTCAAT
Statistics
Matches: 36, Mismatches: 2, Indels: 8
0.78 0.04 0.17
Matches are distributed among these distances:
19 6 0.17
20 9 0.25
21 3 0.08
22 4 0.11
23 11 0.31
24 3 0.08
ACGTcount: A:0.81, C:0.00, G:0.19, T:0.00
Consensus pattern (22 bp):
AGAAAAAAAAAGAAGAAAAAGA
Found at i:105953948 original size:7 final size:7
Alignment explanation
Indices: 105953931--105953965 Score: 61
Period size: 7 Copynumber: 4.9 Consensus size: 7
105953921 AAAAGGAAGA
105953931 AAAAGAAG
1 AAAA-AAG
105953939 AAAAAAG
1 AAAAAAG
105953946 AAAAAAG
1 AAAAAAG
105953953 AAAAAAG
1 AAAAAAG
105953960 AAAAAA
1 AAAAAA
105953966 AAGAAGAAAA
Statistics
Matches: 27, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
7 23 0.85
8 4 0.15
ACGTcount: A:0.86, C:0.00, G:0.14, T:0.00
Consensus pattern (7 bp):
AAAAAAG
Found at i:105954692 original size:16 final size:16
Alignment explanation
Indices: 105954641--105954694 Score: 56
Period size: 16 Copynumber: 3.2 Consensus size: 16
105954631 CGTGCTTTTA
105954641 AAAATTCTCA-TGTTTC
1 AAAATTCT-AGTGTTTC
* *
105954657 AAAAATCTTCGTGTTTTC
1 AAAATTC-TAGTG-TTTC
105954675 AAAATTCTAGTGTTTC
1 AAAATTCTAGTGTTTC
105954691 AAAA
1 AAAA
105954695 ATTTTCTTGT
Statistics
Matches: 31, Mismatches: 4, Indels: 6
0.76 0.10 0.15
Matches are distributed among these distances:
16 14 0.45
17 7 0.23
18 10 0.32
ACGTcount: A:0.35, C:0.15, G:0.09, T:0.41
Consensus pattern (16 bp):
AAAATTCTAGTGTTTC
Found at i:105954710 original size:18 final size:18
Alignment explanation
Indices: 105954517--105954950 Score: 160
Period size: 17 Copynumber: 24.5 Consensus size: 18
105954507 GAAATTTTCG
*
105954517 AATTTTCGCGTTTTCAAA
1 AATTTTCGTGTTTTCAAA
* **
105954535 AGTTTTCGTGTTTGAAAAAA
1 AATTTTCGTGTTT--TCAAA
* * *
105954555 AAATTTCGCG-TTTAAAA
1 AATTTTCGTGTTTTCAAA
*
105954572 AATTTCTCGT-ATTTCAAA
1 AATTT-TCGTGTTTTCAAA
* * *
105954590 AATTGTCGT-TTTTTATA
1 AATTTTCGTGTTTTCAAA
* * *
105954607 AATCTTCGTGCTTTCAAT
1 AATTTTCGTGTTTTCAAA
**
105954625 AATCCTCGTGCTTTT-AAA
1 AATTTTCGTG-TTTTCAAA
* *
105954643 AATTCTCATG-TTTCAAA
1 AATTTTCGTGTTTTCAAA
*
105954660 AATCTTCGTGTTTTC-AA
1 AATTTTCGTGTTTTCAAA
* *
105954677 AATTCTAGTG-TTTCAAA
1 AATTTTCGTGTTTTCAAA
*
105954694 AATTTTCTTGTTTTCAAAAA
1 AATTTTCGTGTTTTC--AAA
* *
105954714 AAATTTCGTGTTTTAAAAAA
1 AATTTTCGTGTTTT--CAAA
105954734 AATATTTCCGTGTTTT-AAA
1 AAT-TTT-CGTGTTTTCAAA
105954753 AATTTTCGTGTTTT-AAA
1 AATTTTCGTGTTTTCAAA
* *
105954770 AATTCTCGT-ATTT--AA
1 AATTTTCGTGTTTTCAAA
*
105954785 AATTTT--T-TTTTAAGAAA
1 AATTTTCGTGTTTT--CAAA
*
105954802 AAATTT--TG-TTTCAAAA
1 AATTTTCGTGTTTTC-AAA
* * *
105954818 AAATGTCTTGTTTT-AAA
1 AATTTTCGTGTTTTCAAA
**
105954835 AATTCCCGTG-TTTCAAAA
1 AATTTTCGTGTTTTC-AAA
*** *
105954853 AAAAGTCGTGTTTTAAGAA
1 AATTTTCGTGTTTTCA-AA
*
105954872 AATTTT-GTTTTTTTCCAAA
1 AATTTTCG-TGTTTT-CAAA
*
105954891 AATTTTCGTG-TTTCTAA
1 AATTTTCGTGTTTTCAAA
* *
105954908 AATATTCGTG-TTT-ACA
1 AATTTTCGTGTTTTCAAA
*
105954924 AATTCTCGTGTTTTCAAA
1 AATTTTCGTGTTTTCAAA
*
105954942 AATTCTCGT
1 AATTTTCGT
105954951 ATTTAAAAAA
Statistics
Matches: 314, Mismatches: 68, Indels: 68
0.70 0.15 0.15
Matches are distributed among these distances:
13 4 0.01
15 7 0.02
16 30 0.10
17 109 0.35
18 85 0.27
19 36 0.11
20 32 0.10
21 3 0.01
22 8 0.03
ACGTcount: A:0.32, C:0.12, G:0.11, T:0.45
Consensus pattern (18 bp):
AATTTTCGTGTTTTCAAA
Found at i:105954717 original size:21 final size:20
Alignment explanation
Indices: 105954691--105954771 Score: 98
Period size: 19 Copynumber: 4.1 Consensus size: 20
105954681 CTAGTGTTTC
*
105954691 AAAAATTTTCTTGTTTTCAAA
1 AAAAATTTTCGTGTTTT-AAA
105954712 AAAAA-TTTCGTGTTTTAAA
1 AAAAATTTTCGTGTTTTAAA
105954731 AAAAATATTTCCGTGTTTT---
1 AAAAAT-TTT-CGTGTTTTAAA
105954750 AAAAATTTTCGTGTTTTAAA
1 AAAAATTTTCGTGTTTTAAA
105954770 AA
1 AA
105954772 TTCTCGTATT
Statistics
Matches: 53, Mismatches: 1, Indels: 13
0.79 0.01 0.19
Matches are distributed among these distances:
17 8 0.15
18 3 0.06
19 14 0.26
20 12 0.23
21 8 0.15
22 8 0.15
ACGTcount: A:0.40, C:0.07, G:0.09, T:0.44
Consensus pattern (20 bp):
AAAAATTTTCGTGTTTTAAA
Found at i:105954720 original size:20 final size:19
Alignment explanation
Indices: 105954691--105954771 Score: 85
Period size: 20 Copynumber: 4.2 Consensus size: 19
105954681 CTAGTGTTTC
* *
105954691 AAAAATTTTCTTGTTTTCAA
1 AAAAAATTTCGTGTTTT-AA
105954711 AAAAAATTTCGTGTTTTAAA
1 AAAAAATTTCGTGTTTT-AA
105954731 AAAAATATTTCCGTGTTTT--
1 AAAAA-ATTT-CGTGTTTTAA
*
105954750 AAAAATTTTCGTGTTTTAA
1 AAAAAATTTCGTGTTTTAA
105954769 AAA
1 AAA
105954772 TTCTCGTATT
Statistics
Matches: 53, Mismatches: 4, Indels: 9
0.80 0.06 0.14
Matches are distributed among these distances:
17 8 0.15
18 3 0.06
19 8 0.15
20 22 0.42
21 4 0.08
22 8 0.15
ACGTcount: A:0.40, C:0.07, G:0.09, T:0.44
Consensus pattern (19 bp):
AAAAAATTTCGTGTTTTAA
Found at i:105954731 original size:17 final size:17
Alignment explanation
Indices: 105954552--105954960 Score: 118
Period size: 18 Copynumber: 23.4 Consensus size: 17
105954542 GTGTTTGAAA
*
105954552 AAAAAATTTCGCG-TTT
1 AAAAAATTTCGTGTTTT
105954568 AAAAAATTTC-TCGTATTT
1 AAAAAATTTCGT-GT-TTT
*
105954586 CAAAAATTGTCGT-TTTT
1 AAAAAATT-TCGTGTTTT
* * *
105954603 TATAAATCTTCGTGCTTT
1 AAAAAAT-TTCGTGTTTT
* * *
105954621 CAATAATCCTCGTGCTTTT
1 AAAAAAT-TTCGTG-TTTT
*
105954640 -AAAAATTCTCATG-TTT
1 AAAAAATT-TCGTGTTTT
*
105954656 CAAAAATCTTCGTGTTTT
1 AAAAAAT-TTCGTGTTTT
* * *
105954674 -CAAAATTCTAGTGTTTC
1 AAAAAATT-TCGTGTTTT
* *
105954691 AAAAATTTTCTTGTTTT
1 AAAAAATTTCGTGTTTT
105954708 CAAAAAAAATTTCGTGTTTT
1 ---AAAAAATTTCGTGTTTT
105954728 AAAAAAAATATTTCCGTGTTTT
1 ---AAAAA-ATTT-CGTGTTTT
*
105954750 AAAAATTTTCGTGTTTT
1 AAAAAATTTCGTGTTTT
*
105954767 -AAAAATTCTCGT-ATTT
1 AAAAAATT-TCGTGTTTT
*
105954783 --AAAATTT--TTTTTT
1 AAAAAATTTCGTGTTTT
*
105954796 AAGAAAAAATTT--TGTTTCA
1 ---AAAAAATTTCGTGTTT-T
* *
105954815 AAAAAATGTCTTGTTTT
1 AAAAAATTTCGTGTTTT
* *
105954832 -AAAAATTCCCGTGTTTCA
1 AAAAAATT-TCGTGTTT-T
**
105954850 AAAAAAAGTCGTGTTTT
1 AAAAAATTTCGTGTTTT
* *
105954867 AAGAAAATTTTGTTTTTTT
1 AA-AAAATTTCG-TGTTTT
*
105954886 CCAAAAATTTTCGTGTTTCT
1 --AAAAAATTTCGTGTTT-T
*
105954906 AAAATA-TTCGTG-TTT
1 AAAAAATTTCGTGTTTT
*
105954921 -ACAAATTCTCGTGTTTT
1 AAAAAATT-TCGTGTTTT
* *
105954938 CAAAAATTCTCGT-ATTT
1 AAAAAATT-TCGTGTTTT
105954955 AAAAAA
1 AAAAAA
105954961 AAAAACTTTC
Statistics
Matches: 297, Mismatches: 55, Indels: 81
0.69 0.13 0.19
Matches are distributed among these distances:
12 1 0.00
13 3 0.01
14 4 0.01
15 8 0.03
16 45 0.15
17 77 0.26
18 90 0.30
19 24 0.08
20 31 0.10
21 6 0.02
22 8 0.03
ACGTcount: A:0.34, C:0.12, G:0.10, T:0.44
Consensus pattern (17 bp):
AAAAAATTTCGTGTTTT
Found at i:105954734 original size:22 final size:22
Alignment explanation
Indices: 105954691--105954754 Score: 78
Period size: 21 Copynumber: 3.0 Consensus size: 22
105954681 CTAGTGTTTC
* * *
105954691 AAAAATTTTCTTGTTTT-CAAA
1 AAAAATTTCCGTGTTTTAAAAA
105954712 AAAAATTT-CGTGTTTTAAAAA
1 AAAAATTTCCGTGTTTTAAAAA
*
105954733 AAATATTTCCGTGTTTTAAAAA
1 AAAAATTTCCGTGTTTTAAAAA
105954755 TTTTCGTGTT
Statistics
Matches: 38, Mismatches: 3, Indels: 3
0.86 0.07 0.07
Matches are distributed among these distances:
20 7 0.18
21 18 0.47
22 13 0.34
ACGTcount: A:0.42, C:0.08, G:0.08, T:0.42
Consensus pattern (22 bp):
AAAAATTTCCGTGTTTTAAAAA
Found at i:105954932 original size:16 final size:16
Alignment explanation
Indices: 105954888--105954959 Score: 65
Period size: 17 Copynumber: 4.3 Consensus size: 16
105954878 GTTTTTTTCC
*
105954888 AAAAATTTTCGTGTTT
1 AAAAATTCTCGTGTTT
*
105954904 CTAAAATAT-TCGTGTTT
1 -AAAAAT-TCTCGTGTTT
*
105954921 ACAAATTCTCGTGTTTT
1 AAAAATTCTCGTG-TTT
*
105954938 CAAAAATTCTCGTATTT
1 -AAAAATTCTCGTGTTT
105954955 AAAAA
1 AAAAA
105954960 AAAAAACTTT
Statistics
Matches: 46, Mismatches: 5, Indels: 9
0.77 0.08 0.15
Matches are distributed among these distances:
15 1 0.02
16 14 0.30
17 19 0.41
18 12 0.26
ACGTcount: A:0.35, C:0.12, G:0.10, T:0.43
Consensus pattern (16 bp):
AAAAATTCTCGTGTTT
Found at i:105954976 original size:21 final size:22
Alignment explanation
Indices: 105954939--105954981 Score: 63
Period size: 21 Copynumber: 2.0 Consensus size: 22
105954929 TCGTGTTTTC
105954939 AAAAATTCTCGTATTTAAAAAA
1 AAAAATTCTCGTATTTAAAAAA
105954961 AAAAACTT-TCGT-TTTAAAAAA
1 AAAAA-TTCTCGTATTTAAAAAA
105954982 GAAATACTGC
Statistics
Matches: 20, Mismatches: 0, Indels: 3
0.87 0.00 0.13
Matches are distributed among these distances:
21 9 0.45
22 9 0.45
23 2 0.10
ACGTcount: A:0.53, C:0.09, G:0.05, T:0.33
Consensus pattern (22 bp):
AAAAATTCTCGTATTTAAAAAA
Found at i:105955665 original size:22 final size:22
Alignment explanation
Indices: 105955614--105955666 Score: 61
Period size: 22 Copynumber: 2.4 Consensus size: 22
105955604 TTTAATAGAT
* *
105955614 ATAATTAAATAATATAACTTTTA
1 ATAA-TAAAAAATATAACTTATA
*
105955637 ATAATAAAAAATATAACTTATC
1 ATAATAAAAAATATAACTTATA
*
105955659 ATTATAAA
1 ATAATAAA
105955667 TAGTAAAAAC
Statistics
Matches: 26, Mismatches: 4, Indels: 1
0.84 0.13 0.03
Matches are distributed among these distances:
22 22 0.85
23 4 0.15
ACGTcount: A:0.57, C:0.06, G:0.00, T:0.38
Consensus pattern (22 bp):
ATAATAAAAAATATAACTTATA
Found at i:105956044 original size:27 final size:26
Alignment explanation
Indices: 105955980--105956062 Score: 71
Period size: 27 Copynumber: 3.2 Consensus size: 26
105955970 TTGTTTTAAA
*
105955980 AAAACTAAAAAAATATAATCAAAATTTT
1 AAAACTAAAAAAA-AT-ATCAAAATTTG
* **
105956008 AAAA-TTAAAAAAATATTTAAATTATG
1 AAAACTAAAAAAAATATCAAAATT-TG
* *
105956034 AAAACTAAAAATAATAT-AAAACTTG
1 AAAACTAAAAAAAATATCAAAATTTG
105956059 AAAA
1 AAAA
105956063 TGCTATTAGG
Statistics
Matches: 45, Mismatches: 8, Indels: 7
0.75 0.13 0.12
Matches are distributed among these distances:
25 13 0.29
26 11 0.24
27 17 0.38
28 4 0.09
ACGTcount: A:0.65, C:0.05, G:0.02, T:0.28
Consensus pattern (26 bp):
AAAACTAAAAAAAATATCAAAATTTG
Found at i:105957736 original size:21 final size:20
Alignment explanation
Indices: 105957705--105957744 Score: 55
Period size: 19 Copynumber: 1.9 Consensus size: 20
105957695 AGAAACCCAA
105957705 CCATATCCAACCATATACACCC
1 CCATATCCAACC-T-TACACCC
105957727 CCATA-CCAACCTTACACC
1 CCATATCCAACCTTACACC
105957745 GTGTGGGGAG
Statistics
Matches: 18, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
19 6 0.33
20 1 0.06
21 6 0.33
22 5 0.28
ACGTcount: A:0.35, C:0.47, G:0.00, T:0.17
Consensus pattern (20 bp):
CCATATCCAACCTTACACCC
Found at i:105957843 original size:27 final size:28
Alignment explanation
Indices: 105957806--105957945 Score: 157
Period size: 27 Copynumber: 5.2 Consensus size: 28
105957796 AGCATGGCTG
* *
105957806 CCAGA-ACAGATA-ATGTGACAGAGTCA
1 CCAGATACAGATATATGTGGCAGAGCCA
*
105957832 CCAGATACAGATA-ATCGTGGTAGAGCCA
1 CCAGATACAGATATAT-GTGGCAGAGCCA
*
105957860 CCAGA-ACAAATATATGTGGCAGAGCCA
1 CCAGATACAGATATATGTGGCAGAGCCA
*
105957887 CCAGAT-CAGATATTTGTGGCAGAGCCA
1 CCAGATACAGATATATGTGGCAGAGCCA
* * *
105957914 CCAGAT-CAGATATTTGCGGCATAGCCA
1 CCAGATACAGATATATGTGGCAGAGCCA
105957941 CCAGA
1 CCAGA
105957946 ACGCTTCCTC
Statistics
Matches: 101, Mismatches: 9, Indels: 7
0.86 0.08 0.06
Matches are distributed among these distances:
26 5 0.05
27 80 0.79
28 16 0.16
ACGTcount: A:0.36, C:0.23, G:0.24, T:0.18
Consensus pattern (28 bp):
CCAGATACAGATATATGTGGCAGAGCCA
Found at i:105959602 original size:26 final size:25
Alignment explanation
Indices: 105959564--105959647 Score: 123
Period size: 26 Copynumber: 3.2 Consensus size: 25
105959554 CATGAAATTC
*
105959564 TTATCATGAAACATTTACCTAACCCA
1 TTATCATG-AACATTTACCTAACCTA
*
105959590 TTATCATAGAACATTTGCCTAACCTA
1 TTATCAT-GAACATTTACCTAACCTA
105959616 TTATCATGGAACATTTACCTAACCTA
1 TTATCAT-GAACATTTACCTAACCTA
105959642 TTATCA
1 TTATCA
105959648 ATTTGTATCA
Statistics
Matches: 53, Mismatches: 4, Indels: 2
0.90 0.07 0.03
Matches are distributed among these distances:
26 52 0.98
27 1 0.02
ACGTcount: A:0.36, C:0.24, G:0.06, T:0.35
Consensus pattern (25 bp):
TTATCATGAACATTTACCTAACCTA
Found at i:105961197 original size:10 final size:10
Alignment explanation
Indices: 105961184--105961211 Score: 56
Period size: 10 Copynumber: 2.8 Consensus size: 10
105961174 ATAAATAATG
105961184 AAAGATAAGT
1 AAAGATAAGT
105961194 AAAGATAAGT
1 AAAGATAAGT
105961204 AAAGATAA
1 AAAGATAA
105961212 ATGAAAATAA
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
10 18 1.00
ACGTcount: A:0.64, C:0.00, G:0.18, T:0.18
Consensus pattern (10 bp):
AAAGATAAGT
Found at i:105961215 original size:31 final size:30
Alignment explanation
Indices: 105961163--105961221 Score: 75
Period size: 31 Copynumber: 1.9 Consensus size: 30
105961153 TGAAATTCTA
105961163 AAAGATAAATAATAAATAATGAAAGATAAGT
1 AAAGATAAATAATAAATAATGAAA-ATAAGT
* *
105961194 AAAGATAAGTAA-AGATAAATGAAAATAA
1 AAAGATAAATAATAAAT-AATGAAAATAA
105961222 ATCCTAAAAT
Statistics
Matches: 25, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
30 7 0.28
31 18 0.72
ACGTcount: A:0.66, C:0.00, G:0.14, T:0.20
Consensus pattern (30 bp):
AAAGATAAATAATAAATAATGAAAATAAGT
Found at i:105961221 original size:20 final size:19
Alignment explanation
Indices: 105961163--105961221 Score: 57
Period size: 20 Copynumber: 2.9 Consensus size: 19
105961153 TGAAATTCTA
105961163 AAAGATAAATAATAAATAATG
1 AAAGATAAAT-A-AAATAATG
*
105961184 AAAGATAAGTAAAGATAA-G
1 AAAGATAAATAAA-ATAATG
105961203 TAAAGATAAATGAAAATAA
1 -AAAGATAAAT-AAAATAA
105961222 ATCCTAAAAT
Statistics
Matches: 33, Mismatches: 2, Indels: 7
0.79 0.05 0.17
Matches are distributed among these distances:
19 3 0.09
20 18 0.55
21 12 0.36
ACGTcount: A:0.66, C:0.00, G:0.14, T:0.20
Consensus pattern (19 bp):
AAAGATAAATAAAATAATG
Found at i:105962135 original size:18 final size:18
Alignment explanation
Indices: 105962112--105962214 Score: 107
Period size: 18 Copynumber: 5.4 Consensus size: 18
105962102 ACATCGTGAT
105962112 CTGAAGCCCAAAGGCTAA
1 CTGAAGCCCAAAGGCTAA
*
105962130 CTGAAGCACACAAGTGCTAAA
1 CTGAAGCCCA-AAG-GCT-AA
*
105962151 CAGAAGCCCAAAGGCTAA
1 CTGAAGCCCAAAGGCTAA
*
105962169 CTGAAGCACACAAGTGCTAAA
1 CTGAAGCCCA-AAG-GCT-AA
* *
105962190 CGGAAGCCCGAAGGCTAA
1 CTGAAGCCCAAAGGCTAA
105962208 CTGAAGC
1 CTGAAGC
105962215 TGATCAGAGC
Statistics
Matches: 70, Mismatches: 9, Indels: 12
0.77 0.10 0.13
Matches are distributed among these distances:
18 27 0.39
19 12 0.17
20 12 0.17
21 19 0.27
ACGTcount: A:0.40, C:0.26, G:0.23, T:0.11
Consensus pattern (18 bp):
CTGAAGCCCAAAGGCTAA
Found at i:105962157 original size:21 final size:21
Alignment explanation
Indices: 105962132--105962196 Score: 82
Period size: 21 Copynumber: 3.2 Consensus size: 21
105962122 AAGGCTAACT
105962132 GAAGCACACAAGTGCTAAACA
1 GAAGCACACAAGTGCTAAACA
* *
105962153 GAAGCCCA-AAG-GCT-AACT
1 GAAGCACACAAGTGCTAAACA
*
105962171 GAAGCACACAAGTGCTAAACG
1 GAAGCACACAAGTGCTAAACA
105962192 GAAGC
1 GAAGC
105962197 CCGAAGGCTA
Statistics
Matches: 37, Mismatches: 4, Indels: 6
0.79 0.09 0.13
Matches are distributed among these distances:
18 10 0.27
19 6 0.16
20 6 0.16
21 15 0.41
ACGTcount: A:0.43, C:0.25, G:0.23, T:0.09
Consensus pattern (21 bp):
GAAGCACACAAGTGCTAAACA
Found at i:105962168 original size:39 final size:39
Alignment explanation
Indices: 105962114--105962214 Score: 184
Period size: 39 Copynumber: 2.6 Consensus size: 39
105962104 ATCGTGATCT
105962114 GAAGCCCAAAGGCTAACTGAAGCACACAAGTGCTAAACA
1 GAAGCCCAAAGGCTAACTGAAGCACACAAGTGCTAAACA
*
105962153 GAAGCCCAAAGGCTAACTGAAGCACACAAGTGCTAAACG
1 GAAGCCCAAAGGCTAACTGAAGCACACAAGTGCTAAACA
*
105962192 GAAGCCCGAAGGCTAACTGAAGC
1 GAAGCCCAAAGGCTAACTGAAGC
105962215 TGATCAGAGC
Statistics
Matches: 60, Mismatches: 2, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
39 60 1.00
ACGTcount: A:0.41, C:0.26, G:0.24, T:0.10
Consensus pattern (39 bp):
GAAGCCCAAAGGCTAACTGAAGCACACAAGTGCTAAACA
Found at i:105963063 original size:15 final size:16
Alignment explanation
Indices: 105963019--105963065 Score: 51
Period size: 18 Copynumber: 2.8 Consensus size: 16
105963009 TTTTAATTAA
105963019 ATTTTTATTTGATAAATT
1 ATTTTTATTT-A-AAATT
105963037 ATTTTTGAATTTAAAATT
1 ATTTTT--ATTTAAAATT
105963055 -TTTTTATTTAA
1 ATTTTTATTTAA
105963066 TTTTAGAATA
Statistics
Matches: 27, Mismatches: 0, Indels: 7
0.79 0.00 0.21
Matches are distributed among these distances:
15 6 0.22
17 5 0.19
18 11 0.41
19 1 0.04
20 4 0.15
ACGTcount: A:0.34, C:0.00, G:0.04, T:0.62
Consensus pattern (16 bp):
ATTTTTATTTAAAATT
Found at i:105978424 original size:25 final size:25
Alignment explanation
Indices: 105978394--105978443 Score: 100
Period size: 25 Copynumber: 2.0 Consensus size: 25
105978384 AGTTATGGAG
105978394 CATTACCGGAGTTACCGATTTATTT
1 CATTACCGGAGTTACCGATTTATTT
105978419 CATTACCGGAGTTACCGATTTATTT
1 CATTACCGGAGTTACCGATTTATTT
105978444 ATCAGATATT
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
25 25 1.00
ACGTcount: A:0.24, C:0.20, G:0.16, T:0.40
Consensus pattern (25 bp):
CATTACCGGAGTTACCGATTTATTT
Found at i:105980218 original size:27 final size:26
Alignment explanation
Indices: 105980165--105980220 Score: 78
Period size: 27 Copynumber: 2.1 Consensus size: 26
105980155 ATTAGTTTTT
105980165 TTTAATATGTATATATTATGTAAATA
1 TTTAATATGTATATATTATGTAAATA
*
105980191 TTTAATAT-TATATTATATATGTATATA
1 TTTAATATGTATA-TAT-TATGTAAATA
105980218 TTT
1 TTT
105980221 TCCTCTTTTT
Statistics
Matches: 27, Mismatches: 1, Indels: 3
0.87 0.03 0.10
Matches are distributed among these distances:
25 4 0.15
26 11 0.41
27 12 0.44
ACGTcount: A:0.39, C:0.00, G:0.05, T:0.55
Consensus pattern (26 bp):
TTTAATATGTATATATTATGTAAATA
Found at i:105985329 original size:14 final size:15
Alignment explanation
Indices: 105985310--105985342 Score: 59
Period size: 14 Copynumber: 2.3 Consensus size: 15
105985300 TCAAAAGCAA
105985310 AAAAAGAAAG-AAAG
1 AAAAAGAAAGAAAAG
105985324 AAAAAGAAAGAAAAG
1 AAAAAGAAAGAAAAG
105985339 AAAA
1 AAAA
105985343 TGGAGAGGTC
Statistics
Matches: 18, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
14 10 0.56
15 8 0.44
ACGTcount: A:0.82, C:0.00, G:0.18, T:0.00
Consensus pattern (15 bp):
AAAAAGAAAGAAAAG
Found at i:105986983 original size:73 final size:72
Alignment explanation
Indices: 105986863--105987341 Score: 532
Period size: 73 Copynumber: 6.4 Consensus size: 72
105986853 TTTTGGTACT
*
105986863 CTGAGGTATCTTT-AATTCATGTTTTCAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTC
1 CTGAGGTAT-TTTCAATTTATGTTTTCAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTC
105986927 AGGTCACACG
65 AGG--ACACG
* ** **
105986937 CTGAGGTATTTTCAGTTTATG-TTTCAAAAATTGACTCATATTGCGAGAGGTGAGTCAAGCCTCA
1 CTGAGGTATTTTCAATTTATGTTTTCAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCA
*
105987001 GGTCACG
66 GGACACG
*
105987008 CTGAGGTATTCTT-AATTTCTGTTGTTTCAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCC
1 CTGAGGTATT-TTCAATTTATG-T-TTTCAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCC
105987072 TCAGGACACG
63 TCAGGACACG
* *
105987082 CTGAGGTAATTTCAATTTCTAGTTTTCAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTC
1 CTGAGGTATTTTCAATTTAT-GTTTTCAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTC
* *
105987147 GGGGCACG
65 AGGACACG
* * *
105987155 CCGAGGTATTTTCAATTTCTACTTTTCAAAAAAATCAACTCATATTGCGAGATTGCGAGAGGTGA
1 CTGAGGTATTTTCAATTTAT-GTTTTC--AAAAATCAACTC--A-T-----ATTGCGAGAGGTGA
* *
105987220 GTTGAGCCTCGGGGCACG
55 GTTGAGCCTCAGGACACG
* * *
105987238 CCGAGGTACTTTCAATTTATGCTTTTCAAAAAAATCAATTCATATTGCGAGAGGTGAGTTGAGCC
1 CTGAGGTATTTTCAATTTATG-TTTTC--AAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCC
* *
105987303 ACAGGACACA
63 TCAGGACACG
*
105987313 CTGAGGTATTTTCAAATTATGCTTTTCAA
1 CTGAGGTATTTTCAATTTATG-TTTTCAA
105987342 TTTCTGTTCT
Statistics
Matches: 356, Mismatches: 31, Indels: 37
0.84 0.07 0.09
Matches are distributed among these distances:
71 20 0.06
72 2 0.01
73 120 0.34
74 77 0.22
75 65 0.18
77 1 0.00
78 1 0.00
80 1 0.00
81 1 0.00
83 68 0.19
ACGTcount: A:0.28, C:0.18, G:0.22, T:0.31
Consensus pattern (72 bp):
CTGAGGTATTTTCAATTTATGTTTTCAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCA
GGACACG
Found at i:105987128 original size:147 final size:145
Alignment explanation
Indices: 105986884--105987341 Score: 533
Period size: 147 Copynumber: 3.0 Consensus size: 145
105986874 TTAATTCATG
*
105986884 TTTTCAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGTCACACGCTGAGGTATTTT
1 TTTTCAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGG--ACACGCTGAGGTAATTT
* ** ** *
105986949 CAGTTTATG-TTTCAAAAATTGACTCATATTGCGAGAGGTGAGTCAAGCCTCAGGTCACGCTGAG
64 CAATTTATGTTTTCAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGACACGCTGAG
**
105987013 GTATTCTT-AATTTCTGT
129 GTATT-TTCAATTTCTAC
105987030 TGTTTCAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGACACGCTGAGGTAATTTC
1 T-TTTCAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGACACGCTGAGGTAATTTC
* * * *
105987095 AATTTCTAGTTTTCAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCGGGGCACGCCGAG
65 AATTTAT-GTTTTCAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGACACGCTGAG
105987160 GTATTTTCAATTTCTAC
129 GTATTTTCAATTTCTAC
* * *
105987177 TTTTCAAAAAAATCAACTCATATTGCGAGATTGCGAGAGGTGAGTTGAGCCTCGGGGCACGCCGA
1 TTTTC--AAAAATCAACTC--A-T-----ATTGCGAGAGGTGAGTTGAGCCTCAGGACACGCTGA
* * *
105987242 GGTACTTTCAATTTATGCTTTTCAAAAAAATCAATTCATATTGCGAGAGGTGAGTTGAGCCACAG
56 GGTAATTTCAATTTATG-TTTTC--AAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAG
* * * *
105987307 GACACACTGAGGTATTTTCAAATTATGC
118 GACACGCTGAGGTATTTTCAATTTCTAC
105987335 TTTTCAA
1 TTTTCAA
105987342 TTTCTGTTCT
Statistics
Matches: 269, Mismatches: 26, Indels: 24
0.84 0.08 0.08
Matches are distributed among these distances:
145 22 0.08
146 8 0.03
147 106 0.39
148 12 0.04
150 1 0.00
151 1 0.00
155 1 0.00
156 54 0.20
158 64 0.24
ACGTcount: A:0.29, C:0.18, G:0.22, T:0.31
Consensus pattern (145 bp):
TTTTCAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGACACGCTGAGGTAATTTCA
ATTTATGTTTTCAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGACACGCTGAGGT
ATTTTCAATTTCTAC
Found at i:105987263 original size:83 final size:83
Alignment explanation
Indices: 105987123--105987289 Score: 298
Period size: 83 Copynumber: 2.0 Consensus size: 83
105987113 ATCAACTCAT
* *
105987123 ATTGCGAGAGGTGAGTTGAGCCTCGGGGCACGCCGAGGTATTTTCAATTTCTACTTTTCAAAAAA
1 ATTGCGAGAGGTGAGTTGAGCCTCGGGGCACGCCGAGGTACTTTCAATTTATACTTTTCAAAAAA
105987188 ATCAACTCATATTGCGAG
66 ATCAACTCATATTGCGAG
*
105987206 ATTGCGAGAGGTGAGTTGAGCCTCGGGGCACGCCGAGGTACTTTCAATTTATGCTTTTCAAAAAA
1 ATTGCGAGAGGTGAGTTGAGCCTCGGGGCACGCCGAGGTACTTTCAATTTATACTTTTCAAAAAA
*
105987271 ATCAATTCATATTGCGAG
66 ATCAACTCATATTGCGAG
105987289 A
1 A
105987290 GGTGAGTTGA
Statistics
Matches: 80, Mismatches: 4, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
83 80 1.00
ACGTcount: A:0.28, C:0.19, G:0.25, T:0.29
Consensus pattern (83 bp):
ATTGCGAGAGGTGAGTTGAGCCTCGGGGCACGCCGAGGTACTTTCAATTTATACTTTTCAAAAAA
ATCAACTCATATTGCGAG
Found at i:105987680 original size:54 final size:56
Alignment explanation
Indices: 105987588--105987699 Score: 165
Period size: 54 Copynumber: 2.0 Consensus size: 56
105987578 TCAATTTCTG
** *
105987588 TTTTCAATTTATGTTTTTCAAAAAAATCAACTCATATTGTGAGAGGTGAGTTGAGCC
1 TTTTCAATTTATGTTTTTC-AAAAAATCAACTCATATTGCAAGAAGTGAGTTGAGCC
*
105987645 TTTT-AATTTCTGTTTTTC-AAAAATCAACTCATATTGCAAGAAGTGAGTTGAGCC
1 TTTTCAATTTATGTTTTTCAAAAAATCAACTCATATTGCAAGAAGTGAGTTGAGCC
105987699 T
1 T
105987700 CAGGGCATGC
Statistics
Matches: 51, Mismatches: 4, Indels: 3
0.88 0.07 0.05
Matches are distributed among these distances:
54 34 0.67
56 13 0.25
57 4 0.08
ACGTcount: A:0.31, C:0.13, G:0.16, T:0.39
Consensus pattern (56 bp):
TTTTCAATTTATGTTTTTCAAAAAATCAACTCATATTGCAAGAAGTGAGTTGAGCC
Found at i:105987729 original size:142 final size:142
Alignment explanation
Indices: 105987371--105987843 Score: 660
Period size: 142 Copynumber: 3.3 Consensus size: 142
105987361 TATTTCTCAA
** * * * **
105987371 AAAAATCAACTCATATTGTGAGAGGTGAGTTAAGCCTCAGGTCACATGCCGAGGTATTTTCAAAA
1 AAAAATCAACTCATATTGCAAGAAGTGAGTTGAGCCTCAGG--ACATGCTGAGGTATTTTCAATT
* * *
105987436 TCTGTTTCGCAAATTT-TGTATTTTTCAAAAAGACCAACTCATATTGCGAGAGGTGAGTTGAGCC
64 TCTGTTT-TC-AATTTATG--TTTTTCAAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCC
105987500 TTTTAATTTCTATTTTTC
125 TTTTAATTTCTATTTTTC
* *
105987518 AAAAAAAATCAACTCATATTGCAAGAAGTGAGTTGAGCCTCAGGACACGCTGAGGTATATTCAAT
1 ---AAAAATCAACTCATATTGCAAGAAGTGAGTTGAGCCTCAGGACATGCTGAGGTATTTTCAAT
*
105987583 TTCTGTTTTCAATTTATGTTTTTCAAAAAAATCAACTCATATTGTGAGAGGTGAGTTGAGCCTTT
63 TTCTGTTTTCAATTTATGTTTTTCAAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTTT
*
105987648 TAATTTCTGTTTTTC
128 TAATTTCTATTTTTC
*
105987663 AAAAATCAACTCATATTGCAAGAAGTGAGTTGAGCCTCAGGGCATGCTGAGGTATTTTCAATTTC
1 AAAAATCAACTCATATTGCAAGAAGTGAGTTGAGCCTCAGGACATGCTGAGGTATTTTCAATTTC
* *
105987728 TGTTTTCAATTTATGTTTTTCAAAAAAATTAACTCATATTGCGAGAGGTGAGTTAAGCCTTTTAA
66 TGTTTTCAATTTATGTTTTTCAAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTTTTAA
*
105987793 TTTCTATTTTTAAA
131 TTTCTATTTTT--C
* *
105987807 AAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCT
1 AAAAATCAACTCATATTGCAAGAAGTGAGTTGAGCCT
105987844 TTTGATTTCT
Statistics
Matches: 296, Mismatches: 24, Indels: 12
0.89 0.07 0.04
Matches are distributed among these distances:
142 134 0.45
144 35 0.12
145 58 0.20
146 5 0.02
147 3 0.01
148 24 0.08
150 37 0.12
ACGTcount: A:0.32, C:0.15, G:0.18, T:0.36
Consensus pattern (142 bp):
AAAAATCAACTCATATTGCAAGAAGTGAGTTGAGCCTCAGGACATGCTGAGGTATTTTCAATTTC
TGTTTTCAATTTATGTTTTTCAAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTTTTAA
TTTCTATTTTTC
Found at i:105987750 original size:14 final size:13
Alignment explanation
Indices: 105987717--105987746 Score: 51
Period size: 13 Copynumber: 2.3 Consensus size: 13
105987707 TGCTGAGGTA
*
105987717 TTTTCAATTTCTG
1 TTTTCAATTTATG
105987730 TTTTCAATTTATG
1 TTTTCAATTTATG
105987743 TTTT
1 TTTT
105987747 TCAAAAAAAT
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
13 16 1.00
ACGTcount: A:0.17, C:0.10, G:0.07, T:0.67
Consensus pattern (13 bp):
TTTTCAATTTATG
Done.