Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: VEPZ01008424.1 Hibiscus syriacus cultivar Beakdansim tig00111207_pilon, whole genome shotgun sequence
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: 4198033
ACGTcount: A:0.33, C:0.17, G:0.17, T:0.33
File 12 of 16
Found at i:2918825 original size:43 final size:43
Alignment explanation
Indices: 2918764--2918888 Score: 218
Period size: 41 Copynumber: 3.0 Consensus size: 43
2918754 TGAAATCAAG
2918764 TTTTGAAATTACTCCCCCTTACTTTAACACTTCTCCCATTTTT
1 TTTTGAAATTACTCCCCCTTACTTTAACACTTCTCCCATTTTT
*
2918807 TTTTGATATTACTCCCCCTTACTTTAACACTTCTCCCA--TTT
1 TTTTGAAATTACTCCCCCTTACTTTAACACTTCTCCCATTTTT
*
2918848 TTTTGAAATTACCCCCCCTTACTTTAACACTTCTCCCATTT
1 TTTTGAAATTACTCCCCCTTACTTTAACACTTCTCCCATTT
2918889 ATCACATTTA
Statistics
Matches: 77, Mismatches: 3, Indels: 4
0.92 0.04 0.05
Matches are distributed among these distances:
41 39 0.51
43 38 0.49
ACGTcount: A:0.21, C:0.32, G:0.02, T:0.45
Consensus pattern (43 bp):
TTTTGAAATTACTCCCCCTTACTTTAACACTTCTCCCATTTTT
Found at i:2921253 original size:22 final size:23
Alignment explanation
Indices: 2921168--2921251 Score: 118
Period size: 23 Copynumber: 3.7 Consensus size: 23
2921158 TTCCCCTGTG
*
2921168 GGGGGAATCGATTCCCCTTCAAA
1 GGGGGAATCGGTTCCCCTTCAAA
**
2921191 GGGGGAATCGGTT-CCC-TCACGG
1 GGGGGAATCGGTTCCCCTTCA-AA
2921213 GGGGGAATCGGTTCCCCTTCAAA
1 GGGGGAATCGGTTCCCCTTCAAA
2921236 GGGGGAATCGGTTCCC
1 GGGGGAATCGGTTCCC
2921252 TTATGGGGGA
Statistics
Matches: 53, Mismatches: 5, Indels: 6
0.83 0.08 0.09
Matches are distributed among these distances:
21 3 0.06
22 16 0.30
23 31 0.58
24 3 0.06
ACGTcount: A:0.19, C:0.26, G:0.35, T:0.20
Consensus pattern (23 bp):
GGGGGAATCGGTTCCCCTTCAAA
Found at i:2921260 original size:45 final size:45
Alignment explanation
Indices: 2921167--2921252 Score: 163
Period size: 45 Copynumber: 1.9 Consensus size: 45
2921157 ATTCCCCTGT
2921167 GGGGGGAATCGATTCCCCTTCAAAGGGGGAATCGGTTCCCTCACG
1 GGGGGGAATCGATTCCCCTTCAAAGGGGGAATCGGTTCCCTCACG
*
2921212 GGGGGGAATCGGTTCCCCTTCAAAGGGGGAATCGGTTCCCT
1 GGGGGGAATCGATTCCCCTTCAAAGGGGGAATCGGTTCCCT
2921253 TATGGGGGAT
Statistics
Matches: 40, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
45 40 1.00
ACGTcount: A:0.19, C:0.26, G:0.35, T:0.21
Consensus pattern (45 bp):
GGGGGGAATCGATTCCCCTTCAAAGGGGGAATCGGTTCCCTCACG
Found at i:2930092 original size:54 final size:54
Alignment explanation
Indices: 2930009--2930381 Score: 532
Period size: 54 Copynumber: 6.9 Consensus size: 54
2929999 CGATGCAGTT
* * *
2930009 GTTCAGAAACTTATTATGAATTTCGTGGGTTGCACACTTAGTG-CTGATACGGTA
1 GTTCATAAACTTATTATGAATTCCGTGGGTTGCACACTTAGTGTC-GATACGGTC
* * * *
2930063 GTTCATAAACATATTATGAATTCCATGGGTTGCACACTCAGTTTCGATACGGTC
1 GTTCATAAACTTATTATGAATTCCGTGGGTTGCACACTTAGTGTCGATACGGTC
* * *
2930117 GTTCATAAACTTATTATGAATTCTGTGGGTTGCACACTTAGTGTTGATGCGGTC
1 GTTCATAAACTTATTATGAATTCCGTGGGTTGCACACTTAGTGTCGATACGGTC
* * * * *
2930171 ATTCATAAACTTATTATGAATTTCGTGGGTTGCACGCTTAGTGTAGATACGATC
1 GTTCATAAACTTATTATGAATTCCGTGGGTTGCACACTTAGTGTCGATACGGTC
* *
2930225 GTTCATAAACATATTATGAATTCTGTGGGTTGCACACTTAGTGTCGATACGGTC
1 GTTCATAAACTTATTATGAATTCCGTGGGTTGCACACTTAGTGTCGATACGGTC
* *
2930279 GTTCATAAACTTATTATGAATTCCGTGGGTTGCACACTCAGTGTCGATACGGTT
1 GTTCATAAACTTATTATGAATTCCGTGGGTTGCACACTTAGTGTCGATACGGTC
* * *
2930333 GTTTATAAACTTATTATGAATTTCGTGGGTTGCACACTCAGTGTCGATA
1 GTTCATAAACTTATTATGAATTCCGTGGGTTGCACACTTAGTGTCGATA
2930382 GTACACATAG
Statistics
Matches: 284, Mismatches: 34, Indels: 2
0.89 0.11 0.01
Matches are distributed among these distances:
54 283 1.00
55 1 0.00
ACGTcount: A:0.26, C:0.16, G:0.22, T:0.36
Consensus pattern (54 bp):
GTTCATAAACTTATTATGAATTCCGTGGGTTGCACACTTAGTGTCGATACGGTC
Found at i:2935860 original size:107 final size:106
Alignment explanation
Indices: 2935670--2936054 Score: 431
Period size: 107 Copynumber: 3.6 Consensus size: 106
2935660 GTGCTCACAT
* * * * *
2935670 AGTGTCGATACGGTCGTTCAGAAACTTATTATGAA-TCCATGGGTTGAACACTTACTGTCGATAC
1 AGTGCCGATATGGTCGTTCATAAACTTATTATGAATTCCATGGGTTGCACACTTAGTGTCGATA-
* *
2935734 GGTCTTTCATAAACATATTATCAATTCCGTGGTTGCACACTC
65 GGTCTTTCATAAACATATTATGAATTCCGTGGTTGCACACTA
* * ** * *
2935776 AGCGCCGATACT-ATCGTTCATAAACTTATTATGAATTCTGTGGGTTGTACACTTAGTGTTGATA
1 AGTGCCGATA-TGGTCGTTCATAAACTTATTATGAATTCCATGGGTTGCACACTTAGTGTCGATA
* * *
2935840 TGGT-TGTTCATAAACTTATTATGAATTTCGTGAGTTGCACACTT
65 -GGTCT-TTCATAAACATATTATGAATTCCGTG-GTTGCACACTA
* *
2935884 GGTGCCGATATGGTTGTTCATAAA-TATATTATGAATT-CAGTGGGTTGCACACTTAGTGTCGAT
1 AGTGCCGATATGGTCGTTCATAAACT-TATTATGAATTCCA-TGGGTTGCACACTTAGTGTCGAT
* ** *
2935947 AGGTCTTTCATAAACATATTATGAAATCAATAGGGTGCACACTA
64 AGGTCTTTCATAAACATATTATGAATTCCGT-GGTTGCACACTA
* * *
2935991 AGTGTCGATATGGTCGTTCATAAACTTATTATGAACTCCATGGGTTGCACACTCAG-GTCGATAG
1 AGTGCCGATATGGTCGTTCATAAACTTATTATGAATTCCATGGGTTGCACACTTAGTGTCGATAG
2936055 TACACATAAG
Statistics
Matches: 233, Mismatches: 35, Indels: 22
0.80 0.12 0.08
Matches are distributed among these distances:
106 38 0.16
107 129 0.55
108 66 0.28
ACGTcount: A:0.28, C:0.17, G:0.21, T:0.35
Consensus pattern (106 bp):
AGTGCCGATATGGTCGTTCATAAACTTATTATGAATTCCATGGGTTGCACACTTAGTGTCGATAG
GTCTTTCATAAACATATTATGAATTCCGTGGTTGCACACTA
Found at i:2935959 original size:161 final size:160
Alignment explanation
Indices: 2935659--2936043 Score: 443
Period size: 161 Copynumber: 2.4 Consensus size: 160
2935649 AAGCTCTTTT
* * * * *
2935659 GGTGCTCACATAGTGTCGATACGGTCGTTCAGAAACTTATTATGAATCCATGGGTTGAACACTTA
1 GGTGCACACTTAGTGTCGATATGGTCGTTCATAAACTTATTATGAATCCATGGGTTGCACACTTA
* * *
2935724 CTGTCGATACGGTCTTTCATAAACATATTATCAATTCCGTGGTTGCACACTCAGCGCCGATACTA
66 CTGCCGATACGGTCTTTCATAAACATATTATCAATTCAGTGGTTGCACACTCAGCGCCGATACGA
* * **
2935789 TCGTTCATAAACTTATTATGAATTCTGT-G
131 TCGTTCATAAACATATTATGAAATCAATAG
* * * * * *
2935818 GGTTGTACACTTAGTGTTGATATGGTTGTTCATAAACTTATTATGAATTTCGTGAGTTGCACACT
1 GG-TGCACACTTAGTGTCGATATGGTCGTTCATAAACTTATTATGAA-TCCATGGGTTGCACACT
** * * * * * *
2935883 TGGTGCCGATATGGT-TGTTCATAAATATATTATGAATTCAGTGGGTTGCACACTTAGTGTCGAT
64 TACTGCCGATACGGTCT-TTCATAAACATATTATCAATTCAGT-GGTTGCACACTCAGCGCCGAT
* *
2935947 A-GGTCTTTCATAAACATATTATGAAATCAATAG
127 ACGATCGTTCATAAACATATTATGAAATCAATAG
*
2935980 GGTGCACACTAAGTGTCGATATGGTCGTTCATAAACTTATTATGAACTCCATGGGTTGCACACT
1 GGTGCACACTTAGTGTCGATATGGTCGTTCATAAACTTATTATGAA-TCCATGGGTTGCACACT
2936044 CAGGTCGATA
Statistics
Matches: 185, Mismatches: 36, Indels: 8
0.81 0.16 0.03
Matches are distributed among these distances:
159 2 0.01
160 38 0.21
161 123 0.66
162 22 0.12
ACGTcount: A:0.28, C:0.17, G:0.20, T:0.35
Consensus pattern (160 bp):
GGTGCACACTTAGTGTCGATATGGTCGTTCATAAACTTATTATGAATCCATGGGTTGCACACTTA
CTGCCGATACGGTCTTTCATAAACATATTATCAATTCAGTGGTTGCACACTCAGCGCCGATACGA
TCGTTCATAAACATATTATGAAATCAATAG
Found at i:2936052 original size:53 final size:54
Alignment explanation
Indices: 2935669--2936053 Score: 399
Period size: 54 Copynumber: 7.2 Consensus size: 54
2935659 GGTGCTCACA
* * *
2935669 TAGTGTCGATACGGTCGTTCAGAAACTTATTATGAA-TCCATGGGTTGAACACT
1 TAGTGTCGATATGGTCGTTCATAAACTTATTATGAATTCCATGGGTTGCACACT
* * * * * *
2935722 TACTGTCGATACGGTCTTTCATAAACATATTATCAATTCCGT-GGTTGCACACT
1 TAGTGTCGATATGGTCGTTCATAAACTTATTATGAATTCCATGGGTTGCACACT
* * * * ** *
2935775 CAGCGCCGATACT-ATCGTTCATAAACTTATTATGAATTCTGTGGGTTGTACACT
1 TAGTGTCGATA-TGGTCGTTCATAAACTTATTATGAATTCCATGGGTTGCACACT
* * * * *
2935829 TAGTGTTGATATGGTTGTTCATAAACTTATTATGAATTTCGTGAGTTGCACACT
1 TAGTGTCGATATGGTCGTTCATAAACTTATTATGAATTCCATGGGTTGCACACT
* * *
2935883 TGGTGCCGATATGGTTGTTCATAAA-TATATTATGAATT-CAGTGGGTTGCACACT
1 TAGTGTCGATATGGTCGTTCATAAACT-TATTATGAATTCCA-TGGGTTGCACACT
* * * *
2935937 TAGTGTCGATA-GGTCTTTCATAAACATATTATGAAATCAATAGGG-TGCACACT
1 TAGTGTCGATATGGTCGTTCATAAACTTATTATGAATTCCAT-GGGTTGCACACT
* *
2935990 AAGTGTCGATATGGTCGTTCATAAACTTATTATGAACTCCATGGGTTGCACACT
1 TAGTGTCGATATGGTCGTTCATAAACTTATTATGAATTCCATGGGTTGCACACT
*
2936044 CAG-GTCGATA
1 TAGTGTCGATA
2936054 GTACACATAA
Statistics
Matches: 275, Mismatches: 46, Indels: 22
0.80 0.13 0.06
Matches are distributed among these distances:
53 125 0.45
54 150 0.55
ACGTcount: A:0.28, C:0.17, G:0.20, T:0.35
Consensus pattern (54 bp):
TAGTGTCGATATGGTCGTTCATAAACTTATTATGAATTCCATGGGTTGCACACT
Found at i:2938933 original size:3 final size:3
Alignment explanation
Indices: 2938925--2938954 Score: 51
Period size: 3 Copynumber: 9.7 Consensus size: 3
2938915 CGATCACGGG
2938925 GAA GAA GAA GAA GAA GAA GAA GAA GGAA GA
1 GAA GAA GAA GAA GAA GAA GAA GAA -GAA GA
2938955 TAGCTATCAT
Statistics
Matches: 26, Mismatches: 0, Indels: 2
0.93 0.00 0.07
Matches are distributed among these distances:
3 23 0.88
4 3 0.12
ACGTcount: A:0.63, C:0.00, G:0.37, T:0.00
Consensus pattern (3 bp):
GAA
Found at i:2946225 original size:23 final size:21
Alignment explanation
Indices: 2946178--2946219 Score: 57
Period size: 21 Copynumber: 2.0 Consensus size: 21
2946168 ACTAATCGTT
*
2946178 ATATATGATGTTATCATTAAC
1 ATATATGATGTTATCATGAAC
*
2946199 ATATATGATATTTATCATGAA
1 ATATATGAT-GTTATCATGAA
2946220 TGATATTTCG
Statistics
Matches: 18, Mismatches: 2, Indels: 1
0.86 0.10 0.05
Matches are distributed among these distances:
21 9 0.50
22 9 0.50
ACGTcount: A:0.40, C:0.07, G:0.10, T:0.43
Consensus pattern (21 bp):
ATATATGATGTTATCATGAAC
Found at i:2952245 original size:41 final size:43
Alignment explanation
Indices: 2952184--2952280 Score: 103
Period size: 41 Copynumber: 2.3 Consensus size: 43
2952174 AGGATTAGAT
* * *
2952184 TTATTAATTTATTATAAATTA-AGGTTGAGTA-AT-TTTAG-TTA
1 TTATTATTTTATTAGAAATTAGA-GTTAAG-ACATGTTTAGTTTA
* *
2952225 TTATTATTTTATTAGGAATTAGAGTTAAGACATGTTTAGTTTG
1 TTATTATTTTATTAGAAATTAGAGTTAAGACATGTTTAGTTTA
2952268 TTATTATTTTATT
1 TTATTATTTTATT
2952281 CATTAGTTAT
Statistics
Matches: 47, Mismatches: 5, Indels: 6
0.81 0.09 0.10
Matches are distributed among these distances:
40 1 0.02
41 25 0.53
42 6 0.13
43 15 0.32
ACGTcount: A:0.32, C:0.01, G:0.13, T:0.54
Consensus pattern (43 bp):
TTATTATTTTATTAGAAATTAGAGTTAAGACATGTTTAGTTTA
Found at i:2953161 original size:18 final size:17
Alignment explanation
Indices: 2953127--2953171 Score: 56
Period size: 17 Copynumber: 2.6 Consensus size: 17
2953117 AAATTCAATC
*
2953127 GATTAAATATTATTTTT
1 GATTAAATATTAATTTT
2953144 GATTAAATAATTAATTTT
1 GATTAAAT-ATTAATTTT
*
2953162 -AATAAATATT
1 GATTAAATATT
2953172 GAAAGATTTA
Statistics
Matches: 25, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
16 3 0.12
17 14 0.56
18 8 0.32
ACGTcount: A:0.44, C:0.00, G:0.04, T:0.51
Consensus pattern (17 bp):
GATTAAATATTAATTTT
Found at i:2957007 original size:24 final size:24
Alignment explanation
Indices: 2956971--2957028 Score: 80
Period size: 24 Copynumber: 2.4 Consensus size: 24
2956961 TTCACTGGCA
* *
2956971 TTTGTTTGCTGTTGAAGCTGTTTC
1 TTTGCTTGCTGTTGAAGCTGCTTC
* *
2956995 TTTGCTTGTTGTTGAGGCTGCTTC
1 TTTGCTTGCTGTTGAAGCTGCTTC
2957019 TTTGCTTGCT
1 TTTGCTTGCT
2957029 TCTTTTTAGT
Statistics
Matches: 29, Mismatches: 5, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
24 29 1.00
ACGTcount: A:0.05, C:0.16, G:0.26, T:0.53
Consensus pattern (24 bp):
TTTGCTTGCTGTTGAAGCTGCTTC
Found at i:2958572 original size:42 final size:42
Alignment explanation
Indices: 2958525--2958649 Score: 205
Period size: 42 Copynumber: 3.0 Consensus size: 42
2958515 TCGGTTAAAC
* * *
2958525 CTTCTAATAATCCGATTAGAAATTCCAATCATTCACCTAATA
1 CTTCTAATAATCCTATTGGAAATTCCAATGATTCACCTAATA
* *
2958567 CTTCTAATAATCCTATTGGAAATTTCAATGATGCACCTAATA
1 CTTCTAATAATCCTATTGGAAATTCCAATGATTCACCTAATA
2958609 CTTCTAATAATCCTATTGGAAATTCCAATGATTCACCTAAT
1 CTTCTAATAATCCTATTGGAAATTCCAATGATTCACCTAAT
2958650 GATTCGGTTG
Statistics
Matches: 76, Mismatches: 7, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
42 76 1.00
ACGTcount: A:0.36, C:0.22, G:0.07, T:0.35
Consensus pattern (42 bp):
CTTCTAATAATCCTATTGGAAATTCCAATGATTCACCTAATA
Found at i:2964528 original size:14 final size:14
Alignment explanation
Indices: 2964509--2964536 Score: 56
Period size: 14 Copynumber: 2.0 Consensus size: 14
2964499 CGATGGAGAA
2964509 GTGTTACATAAGCC
1 GTGTTACATAAGCC
2964523 GTGTTACATAAGCC
1 GTGTTACATAAGCC
2964537 TCAATAATAT
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 14 1.00
ACGTcount: A:0.29, C:0.21, G:0.21, T:0.29
Consensus pattern (14 bp):
GTGTTACATAAGCC
Found at i:2965688 original size:4 final size:4
Alignment explanation
Indices: 2965679--2965705 Score: 54
Period size: 4 Copynumber: 6.8 Consensus size: 4
2965669 CTAAATCAAG
2965679 AAAT AAAT AAAT AAAT AAAT AAAT AAA
1 AAAT AAAT AAAT AAAT AAAT AAAT AAA
2965706 GGAAACAAAA
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
4 23 1.00
ACGTcount: A:0.78, C:0.00, G:0.00, T:0.22
Consensus pattern (4 bp):
AAAT
Found at i:2966404 original size:14 final size:15
Alignment explanation
Indices: 2966385--2966414 Score: 53
Period size: 14 Copynumber: 2.1 Consensus size: 15
2966375 GATCAAGATA
2966385 TTGATCCAAAT-TTC
1 TTGATCCAAATATTC
2966399 TTGATCCAAATATTC
1 TTGATCCAAATATTC
2966414 T
1 T
2966415 CCTATAGTTA
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
14 11 0.73
15 4 0.27
ACGTcount: A:0.30, C:0.20, G:0.07, T:0.43
Consensus pattern (15 bp):
TTGATCCAAATATTC
Found at i:2967162 original size:14 final size:14
Alignment explanation
Indices: 2967143--2967176 Score: 50
Period size: 14 Copynumber: 2.4 Consensus size: 14
2967133 CTCAGTTTTG
*
2967143 ATAATTTCGTACAT
1 ATAATTTCATACAT
2967157 ATAATTTCATACAT
1 ATAATTTCATACAT
*
2967171 GTAATT
1 ATAATT
2967177 CTTAAATGCA
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
14 18 1.00
ACGTcount: A:0.38, C:0.12, G:0.06, T:0.44
Consensus pattern (14 bp):
ATAATTTCATACAT
Found at i:2979391 original size:129 final size:130
Alignment explanation
Indices: 2979147--2979384 Score: 329
Period size: 129 Copynumber: 1.8 Consensus size: 130
2979137 ATGATGATCC
* * *
2979147 ACCTCCTTCTGTGGTGGAATCGAACAAGAATGTTGATGTTGATCTATCTCATTCTATGATAGAAT
1 ACCTCCTTCTGTGATGGAATCAAACAAGAATGTTGATATTGATCTATCTCATTCTATGATAGAAT
*
2979212 CAAGCAAAATGATGATGTTAATCCAACTCCTTATGTGATGAATTCTAGCAAGAATGACAATTGTT
66 CAAGCAAAATGATGATGTTAATCCAACTCCCTATGTGATGAATTCTAGCAAGAATGACAATTGTT
* * * * *
2979277 ACCTCCTTCTGTGATTGAATCAAACAA-ATTGTTTATATTGATCTATCTCTTTCTGTGATAGAAT
1 ACCTCCTTCTGTGATGGAATCAAACAAGAATGTTGATATTGATCTATCTCATTCTATGATAGAAT
** *
2979341 CAAGCAACGT-AGTGAT-TATGATCCAACTCCCTATGTGATGAATT
66 CAAGCAAAATGA-TGATGT-TAATCCAACTCCCTATGTGATGAATT
2979385 TAAGCAAAAG
Statistics
Matches: 94, Mismatches: 12, Indels: 5
0.85 0.11 0.05
Matches are distributed among these distances:
128 2 0.02
129 68 0.72
130 24 0.26
ACGTcount: A:0.31, C:0.17, G:0.17, T:0.35
Consensus pattern (130 bp):
ACCTCCTTCTGTGATGGAATCAAACAAGAATGTTGATATTGATCTATCTCATTCTATGATAGAAT
CAAGCAAAATGATGATGTTAATCCAACTCCCTATGTGATGAATTCTAGCAAGAATGACAATTGTT
Found at i:2979955 original size:102 final size:102
Alignment explanation
Indices: 2979755--2979969 Score: 227
Period size: 102 Copynumber: 2.1 Consensus size: 102
2979745 AAGAGAAGCT
* * * * * *
2979755 ATCTCAGGAGAGATAAATTTTTGTTTCAATTGAAACAAATTCAAAAATTGTGTTCCAAGGGGAAC
1 ATCTCAAGTGAGATAAATTCTTGTTTCAAGTGAAACAAATTCAAAAATTGTATTCCAAGGGAAAC
* * *
2979820 TGTCTCAAGCGAGACAAAATTGGTTTTACGAAAAA-C
66 TGTCCCAAGCGAGACAAAATTGATTTTAAGAAAAATC
* * * * *
2979856 AATCTCAAGTGAGATAAA-TCTTGTTTCGAGTGAAACAACTTCAAAATTTTTATTTCAAGGGAAA
1 -ATCTCAAGTGAGATAAATTCTTGTTTCAAGTGAAACAAATTCAAAAATTGTATTCCAAGGG-AA
* ** *
2979920 ACTGTCCCAAGTGAGATGACATTGATTTTAAGAAAAATC
64 ACTGTCCCAAGCGAGACAAAATTGATTTTAAGAAAAATC
*
2979959 ATCTGAAGTGA
1 ATCTCAAGTGA
2979970 AATTTTTGTT
Statistics
Matches: 92, Mismatches: 19, Indels: 4
0.80 0.17 0.03
Matches are distributed among these distances:
101 35 0.38
102 56 0.61
103 1 0.01
ACGTcount: A:0.39, C:0.13, G:0.18, T:0.30
Consensus pattern (102 bp):
ATCTCAAGTGAGATAAATTCTTGTTTCAAGTGAAACAAATTCAAAAATTGTATTCCAAGGGAAAC
TGTCCCAAGCGAGACAAAATTGATTTTAAGAAAAATC
Found at i:2983737 original size:9 final size:9
Alignment explanation
Indices: 2983725--2983754 Score: 51
Period size: 9 Copynumber: 3.2 Consensus size: 9
2983715 TCAAAAATAA
2983725 TAAAGAATG
1 TAAAGAATG
2983734 TAAAGAATG
1 TAAAGAATG
2983743 ATAAAGAATG
1 -TAAAGAATG
2983753 TA
1 TA
2983755 GTGTATAAAA
Statistics
Matches: 20, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
9 11 0.55
10 9 0.45
ACGTcount: A:0.57, C:0.00, G:0.20, T:0.23
Consensus pattern (9 bp):
TAAAGAATG
Found at i:2983746 original size:19 final size:18
Alignment explanation
Indices: 2983711--2983754 Score: 61
Period size: 19 Copynumber: 2.3 Consensus size: 18
2983701 GAAAGAAAAA
2983711 AATGTCAAAAATAATAAAG
1 AATGT-AAAAATAATAAAG
*
2983730 AATGTAAAGAATGATAAAG
1 AATGTAAA-AATAATAAAG
2983749 AATGTA
1 AATGTA
2983755 GTGTATAAAA
Statistics
Matches: 23, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
18 3 0.13
19 20 0.87
ACGTcount: A:0.59, C:0.02, G:0.16, T:0.23
Consensus pattern (18 bp):
AATGTAAAAATAATAAAG
Found at i:2986319 original size:29 final size:29
Alignment explanation
Indices: 2986270--2986331 Score: 67
Period size: 29 Copynumber: 2.2 Consensus size: 29
2986260 AATAAAAGGA
* *
2986270 ATTAAAAATATAGTAT-TAAAATGTAAAAT
1 ATTAAAAATATAATATCAAAAATG-AAAAT
2986299 ATTAAAAATA-AATAGTCAAAAATGAAAAT
1 ATTAAAAATATAATA-TCAAAAATGAAAAT
2986328 -TTAA
1 ATTAA
2986332 TGATTAAAAT
Statistics
Matches: 29, Mismatches: 2, Indels: 5
0.81 0.06 0.14
Matches are distributed among these distances:
28 7 0.24
29 16 0.55
30 6 0.21
ACGTcount: A:0.61, C:0.02, G:0.06, T:0.31
Consensus pattern (29 bp):
ATTAAAAATATAATATCAAAAATGAAAAT
Found at i:2987524 original size:22 final size:22
Alignment explanation
Indices: 2987480--2987524 Score: 54
Period size: 22 Copynumber: 2.0 Consensus size: 22
2987470 GGGTCACTGT
*
2987480 TGGGCCTCCAATATTTGTAAAA
1 TGGGCCTCCAATATTTATAAAA
** *
2987502 TGGGCCTGTAATATTTATTAAA
1 TGGGCCTCCAATATTTATAAAA
2987524 T
1 T
2987525 AATAATATAT
Statistics
Matches: 19, Mismatches: 4, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
22 19 1.00
ACGTcount: A:0.31, C:0.13, G:0.18, T:0.38
Consensus pattern (22 bp):
TGGGCCTCCAATATTTATAAAA
Found at i:2987530 original size:3 final size:3
Alignment explanation
Indices: 2987522--2987567 Score: 56
Period size: 3 Copynumber: 14.7 Consensus size: 3
2987512 ATATTTATTA
**
2987522 AAT AAT AAT ATAT ATAT AAT AAT AAT TTT AAT AAT AAT AAT AAT AA
1 AAT AAT AAT A-AT A-AT AAT AAT AAT AAT AAT AAT AAT AAT AAT AA
2987568 ACAAAAATGA
Statistics
Matches: 38, Mismatches: 4, Indels: 2
0.86 0.09 0.05
Matches are distributed among these distances:
3 31 0.82
4 7 0.18
ACGTcount: A:0.61, C:0.00, G:0.00, T:0.39
Consensus pattern (3 bp):
AAT
Found at i:2987532 original size:17 final size:16
Alignment explanation
Indices: 2987510--2987563 Score: 58
Period size: 17 Copynumber: 3.3 Consensus size: 16
2987500 AATGGGCCTG
2987510 TAATATTTATTAAATAA
1 TAATATTTA-TAAATAA
*
2987527 TAATATATATATAATAA
1 TAATATTTATA-AATAA
2987544 TAAT-TTTA-ATAATAA
1 TAATATTTATA-AATAA
2987559 TAATA
1 TAATA
2987564 ATAAACAAAA
Statistics
Matches: 33, Mismatches: 2, Indels: 5
0.82 0.05 0.12
Matches are distributed among these distances:
15 11 0.33
16 5 0.15
17 17 0.52
ACGTcount: A:0.56, C:0.00, G:0.00, T:0.44
Consensus pattern (16 bp):
TAATATTTATAAATAA
Found at i:2987820 original size:76 final size:76
Alignment explanation
Indices: 2987722--2988207 Score: 900
Period size: 76 Copynumber: 6.4 Consensus size: 76
2987712 GAGGTCTTAA
* * *
2987722 AAACATCATGCACTGCAGGACTTACAAATGACCCTAAGGCTTTGAAAACATCAAAAAGCTCTCGA
1 AAACATCATGCACTGCAGGACTTACAGATGACCCTAAGGTTTTGAAAACATCAAAAAGCTCCCGA
2987787 AGGCTTTTTGG
66 AGGCTTTTTGG
*
2987798 AAACATCATGTACTGCAGGACTTACAGATGACCCTAAGGTTTTGAAAACATCAAAAAGCTCCCGA
1 AAACATCATGCACTGCAGGACTTACAGATGACCCTAAGGTTTTGAAAACATCAAAAAGCTCCCGA
2987863 AGGCTTTTTGG
66 AGGCTTTTTGG
*
2987874 AAACATCATGCACTGCAGGACTTACAGATAACCCTAAGGTTTTGAAAACATCAAAAAGCTCCCGA
1 AAACATCATGCACTGCAGGACTTACAGATGACCCTAAGGTTTTGAAAACATCAAAAAGCTCCCGA
2987939 AGGCTTTTTGG
66 AGGCTTTTTGG
2987950 AAACATCATGCACTGCAGGACTTACAGATGACCCTAAGGTTTTGAAAACATCAAAAAGCTCCCGA
1 AAACATCATGCACTGCAGGACTTACAGATGACCCTAAGGTTTTGAAAACATCAAAAAGCTCCCGA
2988015 AGGCTTTTTGG
66 AGGCTTTTTGG
2988026 AAACATCATGCACTGCAGGACTTACAGATGACCCTAAGGTTTTGAAAACATCAAAAAGCTCCCGA
1 AAACATCATGCACTGCAGGACTTACAGATGACCCTAAGGTTTTGAAAACATCAAAAAGCTCCCGA
2988091 AGGCTTTTTGG
66 AGGCTTTTTGG
* *
2988102 AAACATCATGCACTACAGGACATACAGATGACCCTAAGGTTTTGAAAACATCAAAAAGCTCCCGA
1 AAACATCATGCACTGCAGGACTTACAGATGACCCTAAGGTTTTGAAAACATCAAAAAGCTCCCGA
2988167 AGGCTTTTTGG
66 AGGCTTTTTGG
*
2988178 AAACATCATGCACTGTAGGACTTACAGATG
1 AAACATCATGCACTGCAGGACTTACAGATG
2988208 TGGGAAATAG
Statistics
Matches: 398, Mismatches: 12, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
76 398 1.00
ACGTcount: A:0.35, C:0.22, G:0.19, T:0.24
Consensus pattern (76 bp):
AAACATCATGCACTGCAGGACTTACAGATGACCCTAAGGTTTTGAAAACATCAAAAAGCTCCCGA
AGGCTTTTTGG
Found at i:2989081 original size:22 final size:22
Alignment explanation
Indices: 2989056--2989106 Score: 93
Period size: 22 Copynumber: 2.3 Consensus size: 22
2989046 AAGCTTTCAA
2989056 CTTTGAAAAGAGAATCTATCAT
1 CTTTGAAAAGAGAATCTATCAT
*
2989078 CTTTAAAAAGAGAATCTATCAT
1 CTTTGAAAAGAGAATCTATCAT
2989100 CTTTGAA
1 CTTTGAA
2989107 GAGTGTAGAT
Statistics
Matches: 27, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
22 27 1.00
ACGTcount: A:0.41, C:0.14, G:0.12, T:0.33
Consensus pattern (22 bp):
CTTTGAAAAGAGAATCTATCAT
Found at i:2991800 original size:114 final size:114
Alignment explanation
Indices: 2991600--2991819 Score: 377
Period size: 114 Copynumber: 1.9 Consensus size: 114
2991590 GATCATGCAG
* * *
2991600 TTCATCTTTCAATTCCAATGATTGGTTCTGGGGTTCCTACCGAACCAGATCAGATAACTCAAAGA
1 TTCATCTTTCAAATCCAATGATTGGTTCTGGGGTTCATACCAAACCAGATCAGATAACTCAAAGA
2991665 ACACTTCCAGAAGATGCTATTGGGTCTCCTTATTTCTACTATGAGCAAA
66 ACACTTCCAGAAGATGCTATTGGGTCTCCTTATTTCTACTATGAGCAAA
* * *
2991714 TTCATCTTTCAAATCTAATGATTGGTTTTGGGGTTCATACCAAACCATATCAGATAACTCAAAGA
1 TTCATCTTTCAAATCCAATGATTGGTTCTGGGGTTCATACCAAACCAGATCAGATAACTCAAAGA
*
2991779 ACAGTTCCAGAAGATGCTATTGGGTCTCCTTATTTCTACTA
66 ACACTTCCAGAAGATGCTATTGGGTCTCCTTATTTCTACTA
2991820 CGAGACTGTG
Statistics
Matches: 99, Mismatches: 7, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
114 99 1.00
ACGTcount: A:0.30, C:0.21, G:0.16, T:0.33
Consensus pattern (114 bp):
TTCATCTTTCAAATCCAATGATTGGTTCTGGGGTTCATACCAAACCAGATCAGATAACTCAAAGA
ACACTTCCAGAAGATGCTATTGGGTCTCCTTATTTCTACTATGAGCAAA
Found at i:2993961 original size:7 final size:7
Alignment explanation
Indices: 2993944--2993992 Score: 50
Period size: 7 Copynumber: 7.4 Consensus size: 7
2993934 CAATTTCTCC
2993944 CCTTTTT
1 CCTTTTT
2993951 -CTTTTT
1 CCTTTTT
2993957 CCTTTTT
1 CCTTTTT
*
2993964 -ATTTTT
1 CCTTTTT
*
2993970 -TTTTTT
1 CCTTTTT
*
2993976 CATTTTT
1 CCTTTTT
2993983 CCTTTTT
1 CCTTTTT
2993990 CCT
1 CCT
2993993 CATTTTTTTC
Statistics
Matches: 36, Mismatches: 4, Indels: 4
0.82 0.09 0.09
Matches are distributed among these distances:
6 16 0.44
7 20 0.56
ACGTcount: A:0.04, C:0.20, G:0.00, T:0.76
Consensus pattern (7 bp):
CCTTTTT
Found at i:2993962 original size:13 final size:13
Alignment explanation
Indices: 2993944--2993990 Score: 60
Period size: 13 Copynumber: 3.6 Consensus size: 13
2993934 CAATTTCTCC
2993944 CCTTTTTCTTTTT
1 CCTTTTTCTTTTT
*
2993957 CCTTTTTATTTTT
1 CCTTTTTCTTTTT
*
2993970 -TTTTTTCATTTTT
1 CCTTTTTC-TTTTT
2993983 CCTTTTTC
1 CCTTTTTC
2993991 CTCATTTTTT
Statistics
Matches: 28, Mismatches: 4, Indels: 3
0.80 0.11 0.09
Matches are distributed among these distances:
12 5 0.18
13 17 0.61
14 6 0.21
ACGTcount: A:0.04, C:0.19, G:0.00, T:0.77
Consensus pattern (13 bp):
CCTTTTTCTTTTT
Found at i:2993974 original size:19 final size:19
Alignment explanation
Indices: 2993946--2993982 Score: 56
Period size: 19 Copynumber: 1.9 Consensus size: 19
2993936 ATTTCTCCCC
*
2993946 TTTTTCTTTTTCCTTTTTA
1 TTTTTCTTTTTCATTTTTA
*
2993965 TTTTTTTTTTTCATTTTT
1 TTTTTCTTTTTCATTTTT
2993983 CCTTTTTCCT
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
19 16 1.00
ACGTcount: A:0.05, C:0.11, G:0.00, T:0.84
Consensus pattern (19 bp):
TTTTTCTTTTTCATTTTTA
Found at i:2993998 original size:26 final size:26
Alignment explanation
Indices: 2993946--2994009 Score: 76
Period size: 26 Copynumber: 2.5 Consensus size: 26
2993936 ATTTCTCCCC
* **
2993946 TTTTTC-TTTTTCCTTTTTATTTTTT
1 TTTTTCATTTTTCCTTTTTACTCATT
*
2993971 TTTTTCATTTTTCCTTTTTCCTCATT
1 TTTTTCATTTTTCCTTTTTACTCATT
2993997 TTTTTCATCTTTT
1 TTTTTCAT-TTTT
2994010 TTCTTTTTTC
Statistics
Matches: 33, Mismatches: 4, Indels: 2
0.85 0.10 0.05
Matches are distributed among these distances:
25 6 0.18
26 23 0.70
27 4 0.12
ACGTcount: A:0.06, C:0.17, G:0.00, T:0.77
Consensus pattern (26 bp):
TTTTTCATTTTTCCTTTTTACTCATT
Found at i:2996953 original size:36 final size:36
Alignment explanation
Indices: 2996876--2996965 Score: 94
Period size: 36 Copynumber: 2.5 Consensus size: 36
2996866 GTAAATGCGA
* *
2996876 AAATGCATAA-ATGCAAAAATAAGAATGCAAACTGTG
1 AAATGCA-AAGATGCAAAAATAAGAATACAAAATGTG
* *
2996912 TAATGCAAAGATGTAAAAAGTAAGAATACAAAATG-G
1 AAATGCAAAGATGCAAAAA-TAAGAATACAAAATGTG
* *
2996948 AAATGCACAGATACAAAA
1 AAATGCAAAGATGCAAAA
2996966 TGTAAATGCA
Statistics
Matches: 44, Mismatches: 8, Indels: 4
0.79 0.14 0.07
Matches are distributed among these distances:
35 2 0.05
36 29 0.66
37 13 0.30
ACGTcount: A:0.56, C:0.10, G:0.17, T:0.18
Consensus pattern (36 bp):
AAATGCAAAGATGCAAAAATAAGAATACAAAATGTG
Found at i:2998695 original size:11 final size:10
Alignment explanation
Indices: 2998666--2998692 Score: 54
Period size: 10 Copynumber: 2.7 Consensus size: 10
2998656 TAACATGCAT
2998666 GAAAAAATAA
1 GAAAAAATAA
2998676 GAAAAAATAA
1 GAAAAAATAA
2998686 GAAAAAA
1 GAAAAAA
2998693 ATAGAATAGT
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
10 17 1.00
ACGTcount: A:0.81, C:0.00, G:0.11, T:0.07
Consensus pattern (10 bp):
GAAAAAATAA
Found at i:3000222 original size:26 final size:28
Alignment explanation
Indices: 3000163--3000224 Score: 76
Period size: 29 Copynumber: 2.2 Consensus size: 28
3000153 ATTTATATAA
*
3000163 AAATAATAATAATGAAATAATAATTAAAGC
1 AAATAATAATAATAAAATAATAATT--AGC
3000193 -AATAATAATAATAAAATAAT-ATT-GC
1 AAATAATAATAATAAAATAATAATTAGC
3000218 AAATAAT
1 AAATAAT
3000225 GATTAAAATA
Statistics
Matches: 30, Mismatches: 1, Indels: 6
0.81 0.03 0.16
Matches are distributed among these distances:
25 2 0.07
26 6 0.20
28 3 0.10
29 19 0.63
ACGTcount: A:0.63, C:0.03, G:0.05, T:0.29
Consensus pattern (28 bp):
AAATAATAATAATAAAATAATAATTAGC
Found at i:3000280 original size:14 final size:14
Alignment explanation
Indices: 3000241--3000302 Score: 56
Period size: 14 Copynumber: 4.4 Consensus size: 14
3000231 AATAAAAGGA
* *
3000241 ATTAAAAATATAGT
1 ATTAAAAATAAAAT
3000255 ATTAAAATATAAAAT
1 ATTAAAA-ATAAAAT
3000270 ATTAAAAAT-AAAT
1 ATTAAAAATAAAAT
*
3000283 AGTCAAAAATGAAAAT
1 A-TTAAAAAT-AAAAT
3000299 -TTAA
1 ATTAA
3000303 TGATTAAAAT
Statistics
Matches: 40, Mismatches: 4, Indels: 8
0.77 0.08 0.15
Matches are distributed among these distances:
13 5 0.12
14 19 0.47
15 12 0.30
16 4 0.10
ACGTcount: A:0.63, C:0.02, G:0.05, T:0.31
Consensus pattern (14 bp):
ATTAAAAATAAAAT
Found at i:3000282 original size:13 final size:13
Alignment explanation
Indices: 3000241--3000283 Score: 50
Period size: 15 Copynumber: 3.1 Consensus size: 13
3000231 AATAAAAGGA
*
3000241 ATTAAAAATATAGT
1 ATTAAAAATA-AAT
3000255 ATTAAAATATAAAAT
1 ATTAAAA-AT-AAAT
3000270 ATTAAAAATAAAT
1 ATTAAAAATAAAT
3000283 A
1 A
3000284 GTCAAAAATG
Statistics
Matches: 26, Mismatches: 1, Indels: 5
0.81 0.03 0.16
Matches are distributed among these distances:
13 5 0.19
14 9 0.35
15 11 0.42
16 1 0.04
ACGTcount: A:0.65, C:0.00, G:0.02, T:0.33
Consensus pattern (13 bp):
ATTAAAAATAAAT
Found at i:3000290 original size:29 final size:29
Alignment explanation
Indices: 3000241--3000302 Score: 67
Period size: 29 Copynumber: 2.2 Consensus size: 29
3000231 AATAAAAGGA
* *
3000241 ATTAAAAATATAGTATTAAAATAT-AAAAT
1 ATTAAAAATATAATATCAAAA-ATGAAAAT
3000270 ATTAAAAATA-AATAGTCAAAAATGAAAAT
1 ATTAAAAATATAATA-TCAAAAATGAAAAT
3000299 -TTAA
1 ATTAA
3000303 TGATTAAAAT
Statistics
Matches: 29, Mismatches: 2, Indels: 5
0.81 0.06 0.14
Matches are distributed among these distances:
28 9 0.31
29 20 0.69
ACGTcount: A:0.63, C:0.02, G:0.05, T:0.31
Consensus pattern (29 bp):
ATTAAAAATATAATATCAAAAATGAAAAT
Found at i:3001516 original size:3 final size:3
Alignment explanation
Indices: 3001498--3001558 Score: 86
Period size: 3 Copynumber: 19.7 Consensus size: 3
3001488 ATATTTATTA
3001498 AAT AAT ATAT ATAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT
1 AAT AAT A-AT A-AT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT
**
3001545 TTT AAT AAT AAT AA
1 AAT AAT AAT AAT AA
3001559 ACAAAAATGA
Statistics
Matches: 53, Mismatches: 4, Indels: 2
0.90 0.07 0.03
Matches are distributed among these distances:
3 46 0.87
4 7 0.13
ACGTcount: A:0.62, C:0.00, G:0.00, T:0.38
Consensus pattern (3 bp):
AAT
Found at i:3011449 original size:20 final size:18
Alignment explanation
Indices: 3011426--3011470 Score: 56
Period size: 17 Copynumber: 2.4 Consensus size: 18
3011416 AAATTTTGGC
3011426 TTTTTTTGGCTCTTTTTATG
1 TTTTTTTGGC-CTTTTT-TG
*
3011446 TTTTTTT-GCCTTTTTTT
1 TTTTTTTGGCCTTTTTTG
3011463 TTTTTTTG
1 TTTTTTTG
3011471 AAAAAAAAAT
Statistics
Matches: 23, Mismatches: 1, Indels: 4
0.82 0.04 0.14
Matches are distributed among these distances:
17 8 0.35
18 6 0.26
19 2 0.09
20 7 0.30
ACGTcount: A:0.02, C:0.09, G:0.11, T:0.78
Consensus pattern (18 bp):
TTTTTTTGGCCTTTTTTG
Found at i:3016284 original size:13 final size:13
Alignment explanation
Indices: 3016251--3016298 Score: 60
Period size: 13 Copynumber: 3.7 Consensus size: 13
3016241 CGCAATGTAA
*
3016251 GTCATAAATGTGC
1 GTCATAAATGCGC
* *
3016264 GTCGTAAATGCGT
1 GTCATAAATGCGC
3016277 GTCATAAATGCGC
1 GTCATAAATGCGC
*
3016290 ATCATAAAT
1 GTCATAAAT
3016299 TTATGATGCA
Statistics
Matches: 29, Mismatches: 6, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
13 29 1.00
ACGTcount: A:0.33, C:0.17, G:0.21, T:0.29
Consensus pattern (13 bp):
GTCATAAATGCGC
Found at i:3024359 original size:3 final size:3
Alignment explanation
Indices: 3024353--3024406 Score: 108
Period size: 3 Copynumber: 18.0 Consensus size: 3
3024343 ATAGTGAATA
3024353 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT
3024401 AAT AAT
1 AAT AAT
3024407 GGTGACAACA
Statistics
Matches: 51, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 51 1.00
ACGTcount: A:0.67, C:0.00, G:0.00, T:0.33
Consensus pattern (3 bp):
AAT
Found at i:3026460 original size:15 final size:14
Alignment explanation
Indices: 3026435--3026468 Score: 50
Period size: 15 Copynumber: 2.4 Consensus size: 14
3026425 AGATTTGAAA
*
3026435 TTTTATTTTTTATT
1 TTTTATTTTTTAAT
3026449 TTTTATTTTTTTAAT
1 TTTTA-TTTTTTAAT
3026464 TTTTA
1 TTTTA
3026469 CATAATTTTA
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
14 5 0.28
15 13 0.72
ACGTcount: A:0.18, C:0.00, G:0.00, T:0.82
Consensus pattern (14 bp):
TTTTATTTTTTAAT
Found at i:3026468 original size:7 final size:7
Alignment explanation
Indices: 3026435--3026459 Score: 50
Period size: 7 Copynumber: 3.6 Consensus size: 7
3026425 AGATTTGAAA
3026435 TTTTATT
1 TTTTATT
3026442 TTTTATT
1 TTTTATT
3026449 TTTTATT
1 TTTTATT
3026456 TTTT
1 TTTT
3026460 TAATTTTTAC
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 18 1.00
ACGTcount: A:0.12, C:0.00, G:0.00, T:0.88
Consensus pattern (7 bp):
TTTTATT
Found at i:3026681 original size:21 final size:21
Alignment explanation
Indices: 3026648--3026688 Score: 64
Period size: 21 Copynumber: 2.0 Consensus size: 21
3026638 GTTTTTCCTG
* *
3026648 TTTTGTTTTGTTTTTATTTCC
1 TTTTATTTAGTTTTTATTTCC
3026669 TTTTATTTAGTTTTTATTTC
1 TTTTATTTAGTTTTTATTTC
3026689 TCAGTATTTA
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
21 18 1.00
ACGTcount: A:0.10, C:0.07, G:0.07, T:0.76
Consensus pattern (21 bp):
TTTTATTTAGTTTTTATTTCC
Found at i:3026745 original size:15 final size:15
Alignment explanation
Indices: 3026699--3026746 Score: 53
Period size: 15 Copynumber: 3.2 Consensus size: 15
3026689 TCAGTATTTA
*
3026699 TATTTATTTATTATT
1 TATTTATGTATTATT
* *
3026714 CATTTATG-AGTTTTT
1 TATTTATGTA-TTATT
3026729 TATTTATGTATTATT
1 TATTTATGTATTATT
3026744 TAT
1 TAT
3026747 AAATTTGGTA
Statistics
Matches: 26, Mismatches: 5, Indels: 4
0.74 0.14 0.11
Matches are distributed among these distances:
14 1 0.04
15 24 0.92
16 1 0.04
ACGTcount: A:0.25, C:0.02, G:0.06, T:0.67
Consensus pattern (15 bp):
TATTTATGTATTATT
Found at i:3026758 original size:26 final size:26
Alignment explanation
Indices: 3026703--3026762 Score: 68
Period size: 26 Copynumber: 2.3 Consensus size: 26
3026693 TATTTATATT
* * **
3026703 TATTTATTATTCATTTATGAGTTTTT
1 TATTTATTATTCATTTATAAATTTGG
3026729 TATTTATGTATT-ATTTATAAATTTGG
1 TATTTAT-TATTCATTTATAAATTTGG
3026755 TATTTATT
1 TATTTATT
3026763 TTATGTAGTA
Statistics
Matches: 29, Mismatches: 4, Indels: 3
0.81 0.11 0.08
Matches are distributed among these distances:
25 1 0.03
26 24 0.83
27 4 0.14
ACGTcount: A:0.27, C:0.02, G:0.08, T:0.63
Consensus pattern (26 bp):
TATTTATTATTCATTTATAAATTTGG
Found at i:3027809 original size:139 final size:138
Alignment explanation
Indices: 3027646--3028340 Score: 897
Period size: 139 Copynumber: 5.0 Consensus size: 138
3027636 ATTGTTAATA
* * * *
3027646 AATTA-TTGAGTCGAATAGTCAAAATGGAGCCTCGAGCATAAA-CGAGGACCAAAAAAAATATTC
1 AATTATTTGATTCGAATAATTAAAATGGAACCTCGAGCA-AAAGCGAGGACCAAAAAAAA-ATTC
* *
3027709 TCCTAAA-TTAAAGGACTAA-TTATGAAATTAAACCTAAAATGGAGGCTCTAATTATTAACCTAG
64 CCCTAAATTTAAA-GACTAAGTT-TGAAATTAAGCCTAAAATGGAGGCTCTAATTATTAACCTAG
3027772 TCAATTTTAACC
127 TCAATTTTAACC
* * * ** **
3027784 AATTATTTGGTTTGATTAATTAAAATGGAACCTCGAGCAAAAGTTAGGACCAAGTTAAAAATTCC
1 AATTATTTGATTCGAATAATTAAAATGGAACCTCGAGCAAAAGCGAGGACCAA-AAAAAAATTCC
* * *
3027849 CCTAAATTTAAAGACTAAGTTTGAAATTAAGCCT-AAATAAGAGGCTCTAATTATT-CCCTAATC
65 CCTAAATTTAAAGACTAAGTTTGAAATTAAGCCTAAAAT-GGAGGCTCTAATTATTAACCTAGTC
3027912 AATTTTAACC
129 AATTTTAACC
* * * * * *
3027922 AAATATTTTATTCGAATAATTGAAATGGAACATCGAGAAAAAGCGA-GA-CAAAATTGAAAATTC
1 AATTATTTGATTCGAATAATTAAAATGGAACCTCGAGCAAAAGCGAGGACCAAAA--AAAAATTC
**
3027985 CCCTAAATTTAAAGACTAAGTTTGAAATTAAGCCTAAAATGGAGGCTCTGGTTATTAACCTAGTC
64 CCCTAAATTTAAAGACTAAGTTTGAAATTAAGCCTAAAATGGAGGCTCTAATTATTAACCTAGTC
3028050 AATTTTAACC
129 AATTTTAACC
* * *
3028060 AAATATTTGATTCGAAATAATTAAAATGGAACCTCGAGAAAAAGCGATGACCAAATAAAAAA-TC
1 AATTATTTGATTCG-AATAATTAAAATGGAACCTCGAGCAAAAGCGAGGACCAAA-AAAAAATTC
* * *
3028124 CCCTAAATTTAAGGACTAAGTTTGAAATTAAGCCTAAAATGGAAGCTCTAATTATTAACCCAGTC
64 CCCTAAATTTAAAGACTAAGTTTGAAATTAAGCCTAAAATGGAGGCTCTAATTATTAACCTAGTC
*
3028189 AATTTTATCC
129 AATTTTAACC
* *
3028199 TATTATTTGATTCGAATAATTAAAATGGAACCTCGAGCAAAAGCGAGGA-CAAAATTAAAAATTT
1 AATTATTTGATTCGAATAATTAAAATGGAACCTCGAGCAAAAGCGAGGACCAAAA--AAAAATTC
* *
3028263 CCCTAAATTTAAAGACAAAGTTTGAAATTAAGCCTAAAATAGAGGCTCTAATTATTAACCTAGTC
64 CCCTAAATTTAAAGACTAAGTTTGAAATTAAGCCTAAAATGGAGGCTCTAATTATTAACCTAGTC
3028328 AATTTTAACC
129 AATTTTAACC
3028338 AAT
1 AAT
3028341 AATTAAAATG
Statistics
Matches: 484, Mismatches: 56, Indels: 33
0.84 0.10 0.06
Matches are distributed among these distances:
136 4 0.01
137 61 0.13
138 135 0.28
139 262 0.54
140 17 0.04
141 4 0.01
142 1 0.00
ACGTcount: A:0.42, C:0.15, G:0.14, T:0.29
Consensus pattern (138 bp):
AATTATTTGATTCGAATAATTAAAATGGAACCTCGAGCAAAAGCGAGGACCAAAAAAAAATTCCC
CTAAATTTAAAGACTAAGTTTGAAATTAAGCCTAAAATGGAGGCTCTAATTATTAACCTAGTCAA
TTTTAACC
Found at i:3033775 original size:29 final size:29
Alignment explanation
Indices: 3033734--3033918 Score: 180
Period size: 29 Copynumber: 6.4 Consensus size: 29
3033724 TACATTTTAA
*
3033734 AAATTA-AATTAAAGGATAAACCTTTTTGT
1 AAATTATAA-TAAAGGACAAACCTTTTTGT
* *
3033763 AAGTTATAATAAATGACAAACCTTTTTGT
1 AAATTATAATAAAGGACAAACCTTTTTGT
*
3033792 AAATTATAATAAATGACAAACCTTTTTGT
1 AAATTATAATAAAGGACAAACCTTTTTGT
* * * **
3033821 AAATCACAATAAA--ATAAACCTTACTGT
1 AAATTATAATAAAGGACAAACCTTTTTGT
* *
3033848 AAATTAAAATAAAGGAC-AACACTTTTTGC
1 AAATTATAATAAAGGACAAAC-CTTTTTGT
* * * *
3033877 AAATTACAACAAAGAACAAACCTTTTTAT
1 AAATTATAATAAAGGACAAACCTTTTTGT
*
3033906 AAATCATAATAAA
1 AAATTATAATAAA
3033919 AATCAAAACT
Statistics
Matches: 128, Mismatches: 23, Indels: 10
0.80 0.14 0.06
Matches are distributed among these distances:
27 22 0.17
28 3 0.02
29 98 0.77
30 5 0.04
ACGTcount: A:0.49, C:0.12, G:0.07, T:0.32
Consensus pattern (29 bp):
AAATTATAATAAAGGACAAACCTTTTTGT
Found at i:3033838 original size:85 final size:85
Alignment explanation
Indices: 3033749--3033919 Score: 220
Period size: 85 Copynumber: 2.0 Consensus size: 85
3033739 AAATTAAAGG
** * * * * * *
3033749 ATAAACCTTTTTGTAAGTTATAATAAATGACAA-ACCTTTTTGTAAATTATAATAAATG-ACAAA
1 ATAAACCTTACTGTAAATTAAAATAAAGGACAACA-CTTTTTGCAAATTACAACAAA-GAACAAA
*
3033812 CCTTTTTGTAAATCACAATAAA
64 CCTTTTTATAAATCACAATAAA
3033834 ATAAACCTTACTGTAAATTAAAATAAAGGACAACACTTTTTGCAAATTACAACAAAGAACAAACC
1 ATAAACCTTACTGTAAATTAAAATAAAGGACAACACTTTTTGCAAATTACAACAAAGAACAAACC
*
3033899 TTTTTATAAATCATAATAAA
66 TTTTTATAAATCACAATAAA
3033919 A
1 A
3033920 ATCAAAACTT
Statistics
Matches: 74, Mismatches: 10, Indels: 4
0.84 0.11 0.05
Matches are distributed among these distances:
84 1 0.01
85 72 0.97
86 1 0.01
ACGTcount: A:0.48, C:0.13, G:0.06, T:0.32
Consensus pattern (85 bp):
ATAAACCTTACTGTAAATTAAAATAAAGGACAACACTTTTTGCAAATTACAACAAAGAACAAACC
TTTTTATAAATCACAATAAA
Found at i:3033848 original size:27 final size:27
Alignment explanation
Indices: 3033809--3033860 Score: 68
Period size: 27 Copynumber: 1.9 Consensus size: 27
3033799 AATAAATGAC
** *
3033809 AAACCTTTTTGTAAATCACAATAAAAT
1 AAACCTTACTGTAAATCAAAATAAAAT
*
3033836 AAACCTTACTGTAAATTAAAATAAA
1 AAACCTTACTGTAAATCAAAATAAA
3033861 GGACAACACT
Statistics
Matches: 21, Mismatches: 4, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
27 21 1.00
ACGTcount: A:0.52, C:0.13, G:0.04, T:0.31
Consensus pattern (27 bp):
AAACCTTACTGTAAATCAAAATAAAAT
Found at i:3033859 original size:56 final size:57
Alignment explanation
Indices: 3033734--3033900 Score: 185
Period size: 56 Copynumber: 2.9 Consensus size: 57
3033724 TACATTTTAA
* * * * **
3033734 AAATTAAATTAAAGGATAAACCTTTTTGTAAGTTATAATAAATGACAAACCTTTTTGT
1 AAATTAAAATAAAGGACAAACCTTTTTGTAAATTACAATAAA-GACAAACCTTACTGT
* * * *
3033792 AAATTATAATAAATGACAAACCTTTTTGTAAATCACAATAAA-ATAAACCTTACTGT
1 AAATTAAAATAAAGGACAAACCTTTTTGTAAATTACAATAAAGACAAACCTTACTGT
* *
3033848 AAATTAAAATAAAGGAC-AACACTTTTTGCAAATTACAACAAAGAACAAACCTT
1 AAATTAAAATAAAGGACAAAC-CTTTTTGTAAATTACAATAAAG-ACAAACCTT
3033901 TTTATAAATC
Statistics
Matches: 90, Mismatches: 16, Indels: 6
0.80 0.14 0.05
Matches are distributed among these distances:
55 3 0.03
56 44 0.49
58 43 0.48
ACGTcount: A:0.48, C:0.13, G:0.08, T:0.31
Consensus pattern (57 bp):
AAATTAAAATAAAGGACAAACCTTTTTGTAAATTACAATAAAGACAAACCTTACTGT
Found at i:3033925 original size:29 final size:29
Alignment explanation
Indices: 3033734--3033946 Score: 161
Period size: 29 Copynumber: 7.4 Consensus size: 29
3033724 TACATTTTAA
* *
3033734 AAATTA-AATTAAAGGATAAACCTTTTTGT
1 AAATTATAA-TAAAGAACAAACCTTTTTGT
*
3033763 AAGTTATAATAAATG-ACAAACCTTTTTGT
1 AAATTATAATAAA-GAACAAACCTTTTTGT
3033792 AAATTATAATAAATG-ACAAACCTTTTTGT
1 AAATTATAATAAA-GAACAAACCTTTTTGT
* * * **
3033821 AAATCACAAT-AA-AATAAACCTTACTGT
1 AAATTATAATAAAGAACAAACCTTTTTGT
* * *
3033848 AAATTAAAATAAAGGAC-AACACTTTTTGC
1 AAATTATAATAAAGAACAAAC-CTTTTTGT
* * *
3033877 AAATTACAACAAAGAACAAACCTTTTTAT
1 AAATTATAATAAAGAACAAACCTTTTTGT
* * * *
3033906 AAATCATAATAAA-AATCAAAACTTCTTAT
1 AAATTATAATAAAGAA-CAAACCTTTTTGT
*
3033935 AAATTACAATAA
1 AAATTATAATAA
3033947 TGATATATAC
Statistics
Matches: 149, Mismatches: 27, Indels: 16
0.78 0.14 0.08
Matches are distributed among these distances:
27 19 0.13
28 9 0.06
29 115 0.77
30 6 0.04
ACGTcount: A:0.49, C:0.13, G:0.06, T:0.32
Consensus pattern (29 bp):
AAATTATAATAAAGAACAAACCTTTTTGT
Found at i:3033938 original size:114 final size:114
Alignment explanation
Indices: 3033734--3033946 Score: 261
Period size: 114 Copynumber: 1.9 Consensus size: 114
3033724 TACATTTTAA
* * * * * * * *
3033734 AAATTAAATTAAAGGATAAACCTTTTTGTAAGTTATAATAAATGACAAACCTTTTTGTAAATTAT
1 AAATTAAAATAAAGGACAAACCTTTTTGCAAATTACAACAAATGACAAACCTTTTTATAAATCAT
* * * *
3033799 AATAAATGACAAACCTTTTTGTAAATCACAATAAAATAAACCTTACTGT
66 AATAAATAACAAAACTTCTTATAAATCACAATAAAATAAACCTTACTGT
3033848 AAATTAAAATAAAGGAC-AACACTTTTTGCAAATTACAACAAA-GAACAAACCTTTTTATAAATC
1 AAATTAAAATAAAGGACAAAC-CTTTTTGCAAATTACAACAAATG-ACAAACCTTTTTATAAATC
*
3033911 ATAATAAA-AATCAAAACTTCTTATAAATTACAATAA
64 ATAATAAATAA-CAAAACTTCTTATAAATCACAATAA
3033947 TGATATATAC
Statistics
Matches: 83, Mismatches: 13, Indels: 6
0.81 0.13 0.06
Matches are distributed among these distances:
113 5 0.06
114 78 0.94
ACGTcount: A:0.49, C:0.13, G:0.06, T:0.32
Consensus pattern (114 bp):
AAATTAAAATAAAGGACAAACCTTTTTGCAAATTACAACAAATGACAAACCTTTTTATAAATCAT
AATAAATAACAAAACTTCTTATAAATCACAATAAAATAAACCTTACTGT
Found at i:3036996 original size:118 final size:120
Alignment explanation
Indices: 3036835--3037063 Score: 329
Period size: 118 Copynumber: 1.9 Consensus size: 120
3036825 TTGGACAAGT
* * * *
3036835 TCTTCTTAATATGAACCCTTCCATTGGAAATGATCGATCCACCTCCTTATGTGATGGATTTGAGC
1 TCTTCTCAATATGAACCCTTCCATTGGAAATGATCGATCCACCTCCTTATATGATGAATTTGAAC
* *
3036900 AAAAGATTTAACAAGTTATTC-TCATTATAAACTTCTTCTCCCTCTTAGGGCGAGC
66 AAAAGATTGAACAAGTT-CTCATCATTATAAACTTCTTCTCCCTCTTAGGGCGAGC
* * *
3036955 TCTTCTCATTATGAA-CCTTTCATTGGAAATGAT-GATCCACCTCCTTCTATGATGAATTTGAAC
1 TCTTCTCAATATGAACCCTTCCATTGGAAATGATCGATCCACCTCCTTATATGATGAATTTGAAC
* *
3037018 AAAAGGTTGAACAAGTTCTCATCATTATGAACTTCTTCTCCCTCTT
66 AAAAGATTGAACAAGTTCTCATCATTATAAACTTCTTCTCCCTCTT
3037064 TAGCCACCTC
Statistics
Matches: 97, Mismatches: 11, Indels: 4
0.87 0.10 0.04
Matches are distributed among these distances:
117 2 0.02
118 65 0.67
119 17 0.18
120 13 0.13
ACGTcount: A:0.28, C:0.23, G:0.14, T:0.36
Consensus pattern (120 bp):
TCTTCTCAATATGAACCCTTCCATTGGAAATGATCGATCCACCTCCTTATATGATGAATTTGAAC
AAAAGATTGAACAAGTTCTCATCATTATAAACTTCTTCTCCCTCTTAGGGCGAGC
Found at i:3037083 original size:76 final size:76
Alignment explanation
Indices: 3036991--3037139 Score: 228
Period size: 76 Copynumber: 2.0 Consensus size: 76
3036981 AAATGATGAT
* *
3036991 CCACCTCCTTCTATGATGAATTTGAACAAAAGGTTGAACAAGTTC-TCATCATTATGAACTTCTT
1 CCACCTCATTATATGATGAATTTGAACAAAAGGTTGAACAAGTTCTTC-TCATTATGAACTTCTT
*
3037055 CTCCCTCTTTAG
65 CTACCTCTTTAG
* * *
3037067 CCACCTCATTATATGATGGATTTGAGCAAAAGGTTGAACAAGTTCTTCTCGTTATGAACTTCTTC
1 CCACCTCATTATATGATGAATTTGAACAAAAGGTTGAACAAGTTCTTCTCATTATGAACTTCTTC
3037132 TACCTCTT
66 TACCTCTT
3037140 CGGACAAGTT
Statistics
Matches: 66, Mismatches: 6, Indels: 2
0.89 0.08 0.03
Matches are distributed among these distances:
76 64 0.97
77 2 0.03
ACGTcount: A:0.27, C:0.23, G:0.13, T:0.36
Consensus pattern (76 bp):
CCACCTCATTATATGATGAATTTGAACAAAAGGTTGAACAAGTTCTTCTCATTATGAACTTCTTC
TACCTCTTTAG
Found at i:3037129 original size:194 final size:195
Alignment explanation
Indices: 3036873--3037258 Score: 535
Period size: 194 Copynumber: 2.0 Consensus size: 195
3036863 AATGATCGAT
* * *
3036873 CCACCTCCTTATGTGATGGATTTGAGCAAAAGATTTAACAAGTTATTCTCATTATAAACTTCTTC
1 CCACCTCATTATATGATGGATTTGAGCAAAAGATTGAACAAGTTATTCTCATTATAAACTTCTTC
* * * *
3036938 TCCCTCTTAGGGCGAGCTCTTCTCATTATGAA-CCTTTCATTGGAAATGAT-GATCCACCTCCTT
66 TACCTCTTAGGACAAGCTCTTCTCATTATGAACCCTTCCATTGGAAATGATCGATCCACCTCCTT
* * * *
3037001 CTATGATGAATTTGAACAAAAGGTTGAACAAGTTC-TCATCATTATGAACTTCTTCTCCCTCTTT
131 ATATGATGAATTTGAAC-AAAGCTTGAACAAATTCTTC-TCATTATGAACTTCTTCTACCTCTTT
3037065 AG
194 AG
* * * *
3037067 CCACCTCATTATATGATGGATTTGAGCAAAAGGTTGAACAAGTTCTTCTCGTTATGAACTTCTTC
1 CCACCTCATTATATGATGGATTTGAGCAAAAGATTGAACAAGTTATTCTCATTATAAACTTCTTC
* *
3037132 TACCTCTTCGGACAAGTTCTTCTCATTATGAACCCTTCCATTGGAAATGATCGATCCACCTCCTT
66 TACCTCTTAGGACAAGCTCTTCTCATTATGAACCCTTCCATTGGAAATGATCGATCCACCTCCTT
* * * * *
3037197 ATGTGATGGATTTGATCAAATCTTGGACAAATTCTTCTCATTATGAACTTCTTCTACCTCTT
131 ATATGATGAATTTGAACAAAGCTTGAACAAATTCTTCTCATTATGAACTTCTTCTACCTCTT
3037259 CAGATGAGTT
Statistics
Matches: 167, Mismatches: 22, Indels: 5
0.86 0.11 0.03
Matches are distributed among these distances:
194 85 0.51
195 54 0.32
196 28 0.17
ACGTcount: A:0.26, C:0.23, G:0.14, T:0.37
Consensus pattern (195 bp):
CCACCTCATTATATGATGGATTTGAGCAAAAGATTGAACAAGTTATTCTCATTATAAACTTCTTC
TACCTCTTAGGACAAGCTCTTCTCATTATGAACCCTTCCATTGGAAATGATCGATCCACCTCCTT
ATATGATGAATTTGAACAAAGCTTGAACAAATTCTTCTCATTATGAACTTCTTCTACCTCTTTAG
Found at i:3037248 original size:119 final size:119
Alignment explanation
Indices: 3037067--3037601 Score: 506
Period size: 119 Copynumber: 4.5 Consensus size: 119
3037057 CCCTCTTTAG
* *
3037067 CCACCTCATTATATGATGGATTTGAGCAAAAGGTTGAACAAGTTCTTCTCGTTATGAACTTCTTC
1 CCACCTCCTTATATGATGGATTTGAGCAAAAGGTTGAACAAGTTCTTCTCATTATGAACTTCTTC
* * *
3037132 TACCTCTTCGGACAAGTTCTTCTCATTATGAACCCTTCCATTGGAAATGATCGAT
66 TACCTCTTCAGACGAGTTTTTCTCATTATGAACCCTTCCATTGGAAATGAT-GAT
* * ** * *
3037187 CCACCTCCTTATGTGATGGATTTGATC-AAATCTTGGACAAATTCTTCTCATTATGAACTTCTTC
1 CCACCTCCTTATATGATGGATTTGAGCAAAAGGTTGAACAAGTTCTTCTCATTATGAACTTCTTC
* * * * * * * * * *
3037251 TACCTCTTCAGATGAGTTTTTTTCATTGTGAACTCTTTCATCGAAAATTAGGGT
66 TACCTCTTCAGACGAGTTTTTCTCATTATGAACCCTTCCATTGGAAATGATGAT
** * * * * * * *
3037305 ATACCTCATTCTATGGTGGATTTGAGCTAAATGTTGAATAATTTCTTCTC-TGTATGAACTT-TC
1 CCACCTCCTTATATGATGGATTTGAGCAAAAGGTTGAACAAGTTCTTCTCAT-TATGAACTTCT-
* * * *
3037368 TCT-CTCTCTT-TGAACGAGTTATTCTCATTAAGAACCCTTCCGTTGGAAATGATGAT
64 TCTAC-CTCTTCAG-ACGAGTTTTTCTCATTATGAACCCTTCCATTGGAAATGATGAT
** * * *
3037424 CCACCTCCTCCTGTGATAGATTTGAGCAAAAGGTTGAACAAGTTCTTCTTATTATGAACTTCTTC
1 CCACCTCCTTATATGATGGATTTGAGCAAAAGGTTGAACAAGTTCTTCTCATTATGAACTTCTTC
* * * * * * *
3037489 TCCCTATTTAGAGGAGTTTTTCTCATTATGATCTCTTACATTGGAAATGATGAT
66 TACCTCTTCAGACGAGTTTTTCTCATTATGAACCCTTCCATTGGAAATGATGAT
** * * * *
3037543 AAACCTCCTTTTATTATGGATTTGAGCAAAATG-TGAAACACGTTCTTCTCATTATGAAC
1 CCACCTCCTTATATGATGGATTTGAGCAAAAGGTTG-AACAAGTTCTTCTCATTATGAAC
3037602 CATTTCAATG
Statistics
Matches: 328, Mismatches: 77, Indels: 21
0.77 0.18 0.05
Matches are distributed among these distances:
118 28 0.09
119 272 0.83
120 28 0.09
ACGTcount: A:0.26, C:0.20, G:0.15, T:0.38
Consensus pattern (119 bp):
CCACCTCCTTATATGATGGATTTGAGCAAAAGGTTGAACAAGTTCTTCTCATTATGAACTTCTTC
TACCTCTTCAGACGAGTTTTTCTCATTATGAACCCTTCCATTGGAAATGATGAT
Found at i:3037487 original size:238 final size:237
Alignment explanation
Indices: 3037069--3037601 Score: 615
Period size: 238 Copynumber: 2.2 Consensus size: 237
3037059 CTCTTTAGCC
3037069 ACCTCATTATATGATGGATTTGAGCAAAAGGTTGAACAAGTTCTTCTCGTTATGAACTTCTTCTA
1 ACCTCATTATATGATGGATTTGAGCAAAAGGTTGAACAAGTTCTTCTCGTTATGAACTTCTTCTA
* * * *
3037134 CCTCTTCGGACAAGTTCTTCTCATTATGAACCCTTCCATTGGAAATGATCGATCCACCTCCTTAT
66 -CTCTTCGAACAAGTTATTCTCATTAAGAACCCTTCCATTGGAAATGATCGATCCACCTCCTCAT
* * * * * *
3037199 GTGATGGATTTGATCAAATCTTGGACAAATTCTTCTCATTATGAACTTCTTCTACCTCTTCAGAT
130 GTGATAGATTTGAGCAAAGCTTGAACAAATTCTTCTCATTATGAACTTCTTCTACCTATTCAGAG
* *
3037264 GAGTTTTTTTCATTGTGAACTCTTTCATCGAAAATTAGGGTAT
195 GAGTTTTTCTCATTATGAACTCTTTCATCGAAAATTAGGGTAT
* * * * * *
3037307 ACCTCATTCTATGGTGGATTTGAGCTAAATGTTGAATAATTTCTTCTC-TGTATGAACTTTCTCT
1 ACCTCATTATATGATGGATTTGAGCAAAAGGTTGAACAAGTTCTTCTCGT-TATGAAC-TTCT-T
* * *
3037371 CT-CTCTTTGAACGAGTTATTCTCATTAAGAACCCTTCCGTTGGAAATGAT-GATCCACCTCCTC
63 CTACTCTTCGAACAAGTTATTCTCATTAAGAACCCTTCCATTGGAAATGATCGATCCACCTCCTC
* * * * * *
3037434 CTGTGATAGATTTGAGCAAAAGGTTGAACAAGTTCTTCTTATTATGAACTTCTTCTCCCTATTTA
128 ATGTGATAGATTTGAGC-AAAGCTTGAACAAATTCTTCTCATTATGAACTTCTTCTACCTATTCA
* * * * * * * *
3037499 GAGGAGTTTTTCTCATTATGATCTCTTACATTGGAAATGATGATAA
192 GAGGAGTTTTTCTCATTATGAACTCTTTCATCGAAAATTAGGGTAT
* * * * * *
3037545 ACCTCCTTTTATTATGGATTTGAGCAAAATG-TGAAACACGTTCTTCTCATTATGAAC
1 ACCTCATTATATGATGGATTTGAGCAAAAGGTTG-AACAAGTTCTTCTCGTTATGAAC
3037602 CATTTCAATG
Statistics
Matches: 246, Mismatches: 43, Indels: 12
0.82 0.14 0.04
Matches are distributed among these distances:
237 29 0.12
238 209 0.85
239 5 0.02
240 3 0.01
ACGTcount: A:0.26, C:0.20, G:0.15, T:0.38
Consensus pattern (237 bp):
ACCTCATTATATGATGGATTTGAGCAAAAGGTTGAACAAGTTCTTCTCGTTATGAACTTCTTCTA
CTCTTCGAACAAGTTATTCTCATTAAGAACCCTTCCATTGGAAATGATCGATCCACCTCCTCATG
TGATAGATTTGAGCAAAGCTTGAACAAATTCTTCTCATTATGAACTTCTTCTACCTATTCAGAGG
AGTTTTTCTCATTATGAACTCTTTCATCGAAAATTAGGGTAT
Found at i:3049119 original size:21 final size:21
Alignment explanation
Indices: 3049094--3049157 Score: 78
Period size: 21 Copynumber: 3.1 Consensus size: 21
3049084 TTGTTTGAAA
3049094 TTTTGCCTTTTTTGGCTTTTT
1 TTTTGCCTTTTTTGGCTTTTT
* *
3049115 TTTTG-TTTTTTTGCCCTTTTT
1 TTTTGCCTTTTTTG-GCTTTTT
*
3049136 TTTTGCCTTTTTTTG-TTTTT
1 TTTTGCCTTTTTTGGCTTTTT
3049156 TT
1 TT
3049158 GAAAAAAAAT
Statistics
Matches: 36, Mismatches: 5, Indels: 5
0.78 0.11 0.11
Matches are distributed among these distances:
20 14 0.39
21 16 0.44
22 6 0.17
ACGTcount: A:0.00, C:0.12, G:0.11, T:0.77
Consensus pattern (21 bp):
TTTTGCCTTTTTTGGCTTTTT
Found at i:3049136 original size:13 final size:12
Alignment explanation
Indices: 3049101--3049149 Score: 52
Period size: 12 Copynumber: 4.3 Consensus size: 12
3049091 AAATTTTGCC
*
3049101 TTTTTTGGCTTT
1 TTTTTTGCCTTT
3049113 TTTTTTG----T
1 TTTTTTGCCTTT
3049121 TTTTTTGCCCTTT
1 TTTTTTG-CCTTT
3049134 TTTTTTGCCTTT
1 TTTTTTGCCTTT
3049146 TTTT
1 TTTT
3049150 GTTTTTTTGA
Statistics
Matches: 32, Mismatches: 0, Indels: 10
0.76 0.00 0.24
Matches are distributed among these distances:
8 8 0.25
12 16 0.50
13 8 0.25
ACGTcount: A:0.00, C:0.12, G:0.10, T:0.78
Consensus pattern (12 bp):
TTTTTTGCCTTT
Found at i:3052142 original size:77 final size:79
Alignment explanation
Indices: 3052053--3052200 Score: 189
Period size: 77 Copynumber: 1.9 Consensus size: 79
3052043 TTAATAAATT
*
3052053 TCTTATTTAATTAATTC-AAATTAAATAT-ACATT-AAAGACTTATAAT-ATGAATTACAATC-T
1 TCTTATTTAATT-ATTCTAAATTAAATATCA-ATTAAAAGACTTATAATCA-AAATTACAATCTT
3052113 TTAATGTTTATTTAAAA
63 TTAATGTTTATTTAAAA
* * * *
3052130 TCTTATTTAATTATTCTGAATTAAATATCAATTAAAAGAGTTGTAATCAAAATTACATTCTTTTA
1 TCTTATTTAATTATTCTAAATTAAATATCAATTAAAAGACTTATAATCAAAATTACAATCTTTTA
3052195 ATGTTT
66 ATGTTT
3052201 CCTTACTATA
Statistics
Matches: 61, Mismatches: 5, Indels: 8
0.82 0.07 0.11
Matches are distributed among these distances:
76 4 0.07
77 25 0.41
78 21 0.34
79 11 0.18
ACGTcount: A:0.41, C:0.08, G:0.05, T:0.45
Consensus pattern (79 bp):
TCTTATTTAATTATTCTAAATTAAATATCAATTAAAAGACTTATAATCAAAATTACAATCTTTTA
ATGTTTATTTAAAA
Found at i:3052283 original size:17 final size:15
Alignment explanation
Indices: 3052248--3052284 Score: 74
Period size: 15 Copynumber: 2.5 Consensus size: 15
3052238 ACAAATATAC
3052248 ATATATTAACTCTAG
1 ATATATTAACTCTAG
3052263 ATATATTAACTCTAG
1 ATATATTAACTCTAG
3052278 ATATATT
1 ATATATT
3052285 TTAGTAACAT
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 22 1.00
ACGTcount: A:0.41, C:0.11, G:0.05, T:0.43
Consensus pattern (15 bp):
ATATATTAACTCTAG
Found at i:3059006 original size:139 final size:137
Alignment explanation
Indices: 3058837--3059629 Score: 771
Period size: 139 Copynumber: 5.8 Consensus size: 137
3058827 AGCCTAAGGG
** * * * ** *
3058837 ATTAAACCTAAAAATATAGGCTCTAA-TATTAATCCAAATCATTTTTAATAAATTA-TTGAGTCG
1 ATTAAACCT-AAAATGGAGGCTCTAATTATTAA-CCTAGTCAATTTTAACCAATTATTTGATTCG
* * *
3058900 AATAGTCAAAATGGAACCTCGAGCATAAAG-AAGAACCAAATCAAAAACTCCCTTAAA-TTAAAG
64 AATAATTAAAATGGAACCTCGAGCA-AAAGCAAGAACCAAATTAAAAA-TCCCTTAAATTTAAA-
3058963 GACTAGTTATGAA
126 GACTAGTT-TGAA
* * * * *
3058976 ATTAAACCTAAAATGGAGGCTATAATTATTAATCTAGTCAATTTTAACAAATGATTTGATTAGAA
1 ATTAAACCTAAAATGGAGGCTCTAATTATTAACCTAGTCAATTTTAACCAATTATTTGATTCGAA
* * * * *
3059041 AAATTAAAATGAAACCT--------AG--AGAACCAAATTCAAAATTCCCATAAATTTAAAGCCT
66 TAATTAAAATGGAACCTCGAGCAAAAGCAAGAACCAAATT-AAAAATCCCTTAAATTTAAAGACT
3059096 AAGTTTGAA
130 -AGTTTGAA
* * * *
3059105 ATTAAGCCTAAAATGGAGGCTCTAATTATTAACCTAATCAATTTTAACCAATTATTTAATTCG-G
1 ATTAAACCTAAAATGGAGGCTCTAATTATTAACCTAGTCAATTTTAACCAATTATTTGATTCGAA
* * * *
3059169 TTATTAAAATGGAACCTCAAGCAAAAGTGAA-TACCAAATTAAAAATTTCCC-TAAATTTAAAGA
66 TAATTAAAATGGAACCTCGAGCAAAAG-CAAGAACCAAATTAAAAA--TCCCTTAAATTTAAAGA
*
3059232 TTACGTTTGAA
128 CTA-GTTTGAA
* * * *
3059243 ATTAAACCTAAAATGGAGGCTCTAATTTTTAACCTAGTCAATTTGAACTAGTTATTTGATTCGAA
1 ATTAAACCTAAAATGGAGGCTCTAATTATTAACCTAGTCAATTTTAACCAATTATTTGATTCGAA
* * * * * *
3059308 TAATTAAAATGGAACATTGAGCAAAAGCAAGGATCAAATTAAAAATTCCTCTAAATTTAAGGACA
66 TAATTAAAATGGAACCTCGAGCAAAAGCAAGAACCAAATTAAAAATCCCT-TAAATTTAAAGAC-
*
3059373 TAGTTTAAA
129 TAGTTTGAA
* * * * * *
3059382 ATGAAGCCTAAAATGAAGGCTTTAAATATTAACCTAGTCAATTTTAACCAATTATTTGATTCAAA
1 ATTAAACCTAAAATGGAGGCTCTAATTATTAACCTAGTCAATTTTAACCAATTATTTGATTCGAA
* * ** *
3059447 TAATTAAAAAGGAACCTCAAGCAAAAGTGAGGACC-AATTAAAAATCCCCTTAAATTTAAAGACT
66 TAATTAAAATGGAACCTCGAGCAAAAGCAAGAACCAAATTAAAAAT-CCCTTAAATTTAAAGACT
* *
3059511 AATTTTGCA
130 -AGTTTGAA
* *
3059520 ATTAAGCCTAAAAT-GAGGCTCTAATTTTTAACCTAGTCAATTTTAACCAATTATTTGATTCGAA
1 ATTAAACCTAAAATGGAGGCTCTAATTATTAACCTAGTCAATTTTAACCAATTATTTGATTCGAA
* *
3059584 TAACTAAAATGGAACCTTGAGCAAAAGCAATG-ACCAAATTAAAAAT
66 TAATTAAAATGGAACCTCGAGCAAAAGCAA-GAACCAAATTAAAAAT
3059630 GGGTGAAGGC
Statistics
Matches: 538, Mismatches: 88, Indels: 57
0.79 0.13 0.08
Matches are distributed among these distances:
128 14 0.03
129 80 0.15
130 15 0.03
136 2 0.00
137 81 0.15
138 165 0.31
139 179 0.33
140 2 0.00
ACGTcount: A:0.44, C:0.14, G:0.12, T:0.30
Consensus pattern (137 bp):
ATTAAACCTAAAATGGAGGCTCTAATTATTAACCTAGTCAATTTTAACCAATTATTTGATTCGAA
TAATTAAAATGGAACCTCGAGCAAAAGCAAGAACCAAATTAAAAATCCCTTAAATTTAAAGACTA
GTTTGAA
Found at i:3059488 original size:277 final size:275
Alignment explanation
Indices: 3058854--3059629 Score: 854
Period size: 267 Copynumber: 2.8 Consensus size: 275
3058844 CTAAAAATAT
* * ** * * * * *
3058854 AGGCTCT-AATATTAATCCAAATCATTTTTAATAAATTA-TTGAGTCGAATAGTCAAAATGGAAC
1 AGGCTCTAAATATTAA-CCTAATCAATTTTAACCAATTATTTAATTC-AATAATTAAAAAGGAAC
* *
3058917 CTCGAGCATAAA--GAAGAACCAAATCAAAAA-CTCCCTTAAA-TTAAAGGACT-AGTTATGAAA
64 CTCAAGCA-AAAGTGAAG-ACCAAATTAAAAATC-CCCTTAAATTTAAA-GACTAAGTT-TGAAA
* * * * * *
3058977 TTAAACCTAAAATGGAGGCTATAATTATTAATCTAGTCAATTTTAACAAATGATTTGATTAGAAA
124 TTAAACCTAAAATGGAGGCTCTAATTTTTAACCTAGTCAATTTTAACAAATTATTTGATTCGAAT
* * * *
3059042 AATTAAAATGAAACCT-AG----AG--A-ACCAAATTCAAAATTCCCATAAATTTAAAGCCTAAG
189 AATTAAAATGGAACTTGAGCAAAAGCAAGACCAAATTAAAAATTCCCATAAATTTAAAGCATAAG
* * *
3059099 TTTGAAATTAAGCCTAAAATGG
254 TTTAAAATGAAGCCTAAAATGA
* ** * *
3059121 AGGCTCTAATTATTAACCTAATCAATTTTAACCAATTATTTAATTCGGTTATTAAAATGGAACCT
1 AGGCTCTAAATATTAACCTAATCAATTTTAACCAATTATTTAATTCAATAATTAAAAAGGAACCT
* * * *
3059186 CAAGCAAAAGTGAATACCAAATTAAAAATTTCCC-TAAATTTAAAGATTACGTTTGAAATTAAAC
66 CAAGCAAAAGTGAAGACCAAATTAAAAA-TCCCCTTAAATTTAAAGACTAAGTTTGAAATTAAAC
* * *
3059250 CTAAAATGGAGGCTCTAATTTTTAACCTAGTCAATTTGAACTAGTTATTTGATTCGAATAATTAA
130 CTAAAATGGAGGCTCTAATTTTTAACCTAGTCAATTTTAACAAATTATTTGATTCGAATAATTAA
* *
3059315 AATGGAACATTGAGCAAAAGCAAGGATCAAATTAAAAATTCCTC-TAAATTTAAGGACAT-AGTT
195 AATGGAAC-TTGAGCAAAAGCAA-GACCAAATTAAAAATTCC-CATAAATTTAAAG-CATAAGTT
3059378 TAAAATGAAGCCTAAAATGA
256 TAAAATGAAGCCTAAAATGA
* * *
3059398 AGGCTTTAAATATTAACCTAGTCAATTTTAACCAATTATTTGATTCAAATAATTAAAAAGGAACC
1 AGGCTCTAAATATTAACCTAATCAATTTTAACCAATTATTTAATTC-AATAATTAAAAAGGAACC
* * * *
3059463 TCAAGCAAAAGTGAGGACC-AATTAAAAATCCCCTTAAATTTAAAGACTAATTTTGCAATTAAGC
65 TCAAGCAAAAGTGAAGACCAAATTAAAAATCCCCTTAAATTTAAAGACTAAGTTTGAAATTAAAC
* *
3059527 CTAAAAT-GAGGCTCTAATTTTTAACCTAGTCAATTTTAACCAATTATTTGATTCGAATAACTAA
130 CTAAAATGGAGGCTCTAATTTTTAACCTAGTCAATTTTAACAAATTATTTGATTCGAATAATTAA
3059591 AATGGAACCTTGAGCAAAAGCAATGACCAAATTAAAAAT
195 AATGGAA-CTTGAGCAAAAGCAA-GACCAAATTAAAAAT
3059630 GGGTGAAGGC
Statistics
Matches: 428, Mismatches: 58, Indels: 37
0.82 0.11 0.07
Matches are distributed among these distances:
266 3 0.01
267 137 0.32
268 27 0.06
269 2 0.00
273 2 0.00
275 1 0.00
276 92 0.21
277 130 0.30
278 34 0.08
ACGTcount: A:0.44, C:0.14, G:0.12, T:0.30
Consensus pattern (275 bp):
AGGCTCTAAATATTAACCTAATCAATTTTAACCAATTATTTAATTCAATAATTAAAAAGGAACCT
CAAGCAAAAGTGAAGACCAAATTAAAAATCCCCTTAAATTTAAAGACTAAGTTTGAAATTAAACC
TAAAATGGAGGCTCTAATTTTTAACCTAGTCAATTTTAACAAATTATTTGATTCGAATAATTAAA
ATGGAACTTGAGCAAAAGCAAGACCAAATTAAAAATTCCCATAAATTTAAAGCATAAGTTTAAAA
TGAAGCCTAAAATGA
Found at i:3061217 original size:20 final size:20
Alignment explanation
Indices: 3061152--3061220 Score: 66
Period size: 20 Copynumber: 3.3 Consensus size: 20
3061142 CAAAAAGGGC
*
3061152 AAAAAGAAAAAAGAAAAGAAGCA
1 AAAAAGAAAAAA-CAAA-AA-CA
* *
3061175 AAAAGGAAAAAACAAGAACA
1 AAAAAGAAAAAACAAAAACA
* *
3061195 AAAAAGAAAGAACAAAAATA
1 AAAAAGAAAAAACAAAAACA
3061215 AAAAAG
1 AAAAAG
3061221 GGGACAAAAA
Statistics
Matches: 39, Mismatches: 7, Indels: 3
0.80 0.14 0.06
Matches are distributed among these distances:
20 24 0.62
21 2 0.05
22 2 0.05
23 11 0.28
ACGTcount: A:0.78, C:0.06, G:0.14, T:0.01
Consensus pattern (20 bp):
AAAAAGAAAAAACAAAAACA
Found at i:3061856 original size:22 final size:22
Alignment explanation
Indices: 3061828--3061878 Score: 84
Period size: 22 Copynumber: 2.3 Consensus size: 22
3061818 CCCCATCAAT
3061828 CCTTTGAGCATCAAATACCAAA
1 CCTTTGAGCATCAAATACCAAA
* *
3061850 CCTTTGAGTATCAAATGCCAAA
1 CCTTTGAGCATCAAATACCAAA
3061872 CCTTTGA
1 CCTTTGA
3061879 CCAAACACAA
Statistics
Matches: 27, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
22 27 1.00
ACGTcount: A:0.35, C:0.25, G:0.12, T:0.27
Consensus pattern (22 bp):
CCTTTGAGCATCAAATACCAAA
Found at i:3062785 original size:36 final size:36
Alignment explanation
Indices: 3062738--3062842 Score: 156
Period size: 36 Copynumber: 2.9 Consensus size: 36
3062728 GTGCTCACCA
3062738 TTGTCTCTCTTGAGACAGTTTCCCTTGAAACAAACT
1 TTGTCTCTCTTGAGACAGTTTCCCTTGAAACAAACT
* *
3062774 TTGTCTCTCTTGAGACAGTTTCCCTTTAAACAAAATT
1 TTGTCTCTCTTGAGACAGTTTCCCTTGAAAC-AAACT
* * *
3062811 TTTTCTCCCTTGAGACAGTTTCTCTTGAAACA
1 TTGTCTCTCTTGAGACAGTTTCCCTTGAAACA
3062843 TAAACATTGA
Statistics
Matches: 62, Mismatches: 6, Indels: 2
0.89 0.09 0.03
Matches are distributed among these distances:
36 31 0.50
37 31 0.50
ACGTcount: A:0.25, C:0.24, G:0.12, T:0.39
Consensus pattern (36 bp):
TTGTCTCTCTTGAGACAGTTTCCCTTGAAACAAACT
Found at i:3062832 original size:37 final size:37
Alignment explanation
Indices: 3062738--3062847 Score: 159
Period size: 37 Copynumber: 3.0 Consensus size: 37
3062728 GTGCTCACCA
3062738 TTGTCTCTCTTGAGACAGTTTCCCTTGAAAC-AAACT
1 TTGTCTCTCTTGAGACAGTTTCCCTTGAAACAAAACT
* *
3062774 TTGTCTCTCTTGAGACAGTTTCCCTTTAAACAAAATT
1 TTGTCTCTCTTGAGACAGTTTCCCTTGAAACAAAACT
* * *
3062811 TTTTCTCCCTTGAGACAGTTTCTCTTGAAACATAAAC
1 TTGTCTCTCTTGAGACAGTTTCCCTTGAAACA-AAAC
3062848 ATTGAAAACA
Statistics
Matches: 65, Mismatches: 7, Indels: 2
0.88 0.09 0.03
Matches are distributed among these distances:
36 30 0.46
37 32 0.49
38 3 0.05
ACGTcount: A:0.26, C:0.24, G:0.12, T:0.38
Consensus pattern (37 bp):
TTGTCTCTCTTGAGACAGTTTCCCTTGAAACAAAACT
Found at i:3062932 original size:102 final size:102
Alignment explanation
Indices: 3062756--3063213 Score: 756
Period size: 102 Copynumber: 4.5 Consensus size: 102
3062746 CTTGAGACAG
** * * * *
3062756 TTTCCCTTGAAACAAACTTTGTCTCTCTTGAGACAGTTTCCCTTTAAACAAAATTTTTTCTCCCT
1 TTTCCCTTGAAATGAATTTTGTCTCTCTTGAGATAGTTTCCCTTGAAACAAAATTTTGTCTCCCT
3062821 TGAGACAGTTTCTCTTGAAACATAAACATTGAAAACA
66 TGAGACAGTTTCTCTTGAAACATAAACATTGAAAACA
* ** *
3062858 TTTCCCTTGAAATGAGTTTTGTCTCTCTTGAGATAGTTTCCCTTGAAACAAAATTCCGTCTCCAT
1 TTTCCCTTGAAATGAATTTTGTCTCTCTTGAGATAGTTTCCCTTGAAACAAAATTTTGTCTCCCT
*
3062923 TGAGACAGTTTCTCTTGAAACATAAACATTGGAAACA
66 TGAGACAGTTTCTCTTGAAACATAAACATTGAAAACA
3062960 TTTCCCTTGAAATGAATTTTGTCTCTCTTGAGATAGTTTCCCTTGAAACAAAATTTTGTCTCCCT
1 TTTCCCTTGAAATGAATTTTGTCTCTCTTGAGATAGTTTCCCTTGAAACAAAATTTTGTCTCCCT
3063025 TGAGACAGTTTCTCTTGAAACATAAACAATT-AAAACA
66 TGAGACAGTTTCTCTTGAAACATAAAC-ATTGAAAACA
**
3063062 TTTCCCTTGAAATGAATTTTGTCTCTCTTGAGATAGTTTCCCTCAAAACAAAATTTTGTCTCCCT
1 TTTCCCTTGAAATGAATTTTGTCTCTCTTGAGATAGTTTCCCTTGAAACAAAATTTTGTCTCCCT
3063127 TGAGACAGTTTCTCTTGAAACATAAACATTGAAAACA
66 TGAGACAGTTTCTCTTGAAACATAAACATTGAAAACA
* * *
3063164 TTTCCCTTGAAATGAATTTCGTCTCTCATGAGATAGTTTCTCTTGAAACA
1 TTTCCCTTGAAATGAATTTTGTCTCTCTTGAGATAGTTTCCCTTGAAACA
3063214 TAAACATTGA
Statistics
Matches: 331, Mismatches: 23, Indels: 4
0.92 0.06 0.01
Matches are distributed among these distances:
101 3 0.01
102 325 0.98
103 3 0.01
ACGTcount: A:0.30, C:0.21, G:0.12, T:0.37
Consensus pattern (102 bp):
TTTCCCTTGAAATGAATTTTGTCTCTCTTGAGATAGTTTCCCTTGAAACAAAATTTTGTCTCCCT
TGAGACAGTTTCTCTTGAAACATAAACATTGAAAACA
Found at i:3062933 original size:37 final size:37
Alignment explanation
Indices: 3062874--3063148 Score: 148
Period size: 37 Copynumber: 7.9 Consensus size: 37
3062864 TTGAAATGAG
*
3062874 TTTTGTCTCTC-TTGAGATAGTTTCCCTTGAAACAAAA
1 TTTTGTCTC-CATTGAGACAGTTTCCCTTGAAACAAAA
** *
3062911 TTCCGTCTCCATTGAGACAGTTTCTCTTGAAACATAAA
1 TTTTGTCTCCATTGAGACAGTTTCCCTTGAAACA-AAA
* **
3062949 ---------CATTGGAAACA-TTTCCCTTGAAA-TGAA
1 TTTTGTCTCCATT-GAGACAGTTTCCCTTGAAACAAAA
*
3062976 TTTTGTCTCTC-TTGAGATAGTTTCCCTTGAAACAAAA
1 TTTTGTCTC-CATTGAGACAGTTTCCCTTGAAACAAAA
* *
3063013 TTTTGTCTCCCTTGAGACAGTTTCTCTTGAAACATAAA
1 TTTTGTCTCCATTGAGACAGTTTCCCTTGAAACA-AAA
* * * **
3063051 --------CAATTAAAACA-TTTCCCTTGAAA-TGAA
1 TTTTGTCTCCATTGAGACAGTTTCCCTTGAAACAAAA
* **
3063078 TTTTGTCTCTC-TTGAGATAGTTTCCCTCAAAACAAAA
1 TTTTGTCTC-CATTGAGACAGTTTCCCTTGAAACAAAA
* *
3063115 TTTTGTCTCCCTTGAGACAGTTTCTCTTGAAACA
1 TTTTGTCTCCATTGAGACAGTTTCCCTTGAAACA
3063149 TAAACATTGA
Statistics
Matches: 176, Mismatches: 33, Indels: 58
0.66 0.12 0.22
Matches are distributed among these distances:
27 4 0.02
29 26 0.15
30 12 0.07
35 10 0.06
36 27 0.15
37 91 0.52
38 6 0.03
ACGTcount: A:0.29, C:0.21, G:0.13, T:0.37
Consensus pattern (37 bp):
TTTTGTCTCCATTGAGACAGTTTCCCTTGAAACAAAA
Found at i:3063203 original size:65 final size:65
Alignment explanation
Indices: 3063113--3063255 Score: 241
Period size: 65 Copynumber: 2.2 Consensus size: 65
3063103 CTCAAAACAA
* * *
3063113 AATTTTGTCTCCCTTGAGACAGTTTCTCTTGAAACATAAACATTGAAAACATTTCCCTTGAAATG
1 AATTTCGTCTCTCATGAGACAGTTTCTCTTGAAACATAAACATTGAAAACATTTCCCTTGAAATG
*
3063178 AATTTCGTCTCTCATGAGATAGTTTCTCTTGAAACATAAACATTGAAAACATTTCCCTTGAAATG
1 AATTTCGTCTCTCATGAGACAGTTTCTCTTGAAACATAAACATTGAAAACATTTCCCTTGAAATG
*
3063243 AATTTCTTCTCTC
1 AATTTCGTCTCTC
3063256 TTGAAACAAA
Statistics
Matches: 73, Mismatches: 5, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
65 73 1.00
ACGTcount: A:0.31, C:0.20, G:0.11, T:0.37
Consensus pattern (65 bp):
AATTTCGTCTCTCATGAGACAGTTTCTCTTGAAACATAAACATTGAAAACATTTCCCTTGAAATG
Found at i:3064319 original size:109 final size:109
Alignment explanation
Indices: 3064126--3064502 Score: 423
Period size: 109 Copynumber: 3.5 Consensus size: 109
3064116 GATATTGGAT
* * * *
3064126 TCGAGACAACACAAGTTCAACTTCACAGCGAAGGGATGGCTGGTTGTCAGCAAACAATTTCCCGA
1 TCGAGACAACACAAGTTCAACTTCACAACGAAGGGACGGCTGGTTGTCAACAAACAATTTCCAGA
* * *
3064191 TTCCAGAGTCGATTTCAACTCCACGACGGAGGATATCGTGCTAC
66 TTCCACAGTCGATTTCAACTCCACGACAGAGGATATCGTGCCAC
* * *
3064235 -CTGAGACAACACAAGTTCAACTTCACAACGAAGGGACGACTGGTTGTCAACGAACAACTTTTCA
1 TC-GAGACAACACAAGTTCAACTTCACAACGAAGGGACGGCTGGTTGTCAACAAACAA-TTTCCA
** *
3064299 G-TTTTATCTG-CGATTTCAACTCCACGACAGAGGATATCGTGCCAC
64 GATTCCA-CAGTCGATTTCAACTCCACGACAGAGGATATCGTGCCAC
* * *
3064344 TCGAGACAACACAAGTTCAACTTCACAACGAAGGGACGGCTGGTTGTCAACAAACATTTTTCAAA
1 TCGAGACAACACAAGTTCAACTTCACAACGAAGGGACGGCTGGTTGTCAACAAACAATTTCCAGA
* * * *
3064409 TTTCAGAGCCAATTTCAACTTCGCA-G-C-GAAGGATAAT-G-G--AC
66 TTCCACAGTCGATTTCAAC-TC-CACGACAG-AGGAT-ATCGTGCCAC
* *
3064450 TCGAGATAACACAAGTTCAACTTCACAACGAAGGGACGGCTGATTGTCAACAA
1 TCGAGACAACACAAGTTCAACTTCACAACGAAGGGACGGCTGGTTGTCAACAA
3064503 GATTTCGTTC
Statistics
Matches: 235, Mismatches: 23, Indels: 23
0.84 0.08 0.08
Matches are distributed among these distances:
106 53 0.23
108 10 0.04
109 158 0.67
110 12 0.05
111 2 0.01
ACGTcount: A:0.33, C:0.24, G:0.21, T:0.22
Consensus pattern (109 bp):
TCGAGACAACACAAGTTCAACTTCACAACGAAGGGACGGCTGGTTGTCAACAAACAATTTCCAGA
TTCCACAGTCGATTTCAACTCCACGACAGAGGATATCGTGCCAC
Found at i:3064490 original size:106 final size:104
Alignment explanation
Indices: 3063801--3064658 Score: 625
Period size: 98 Copynumber: 8.3 Consensus size: 104
3063791 GTCAATTTTG
* *
3063801 ACTTCACAGCGAAGGATATTGGACTCGAGACAACACAAGTTCAACTTCACAACAAAGGGACGGCT
1 ACTTCACAGCGAAGGATAATGGACTCGAGACAACACAAGTTCAACTTCACAACGAAGGGACGGCT
* *
3063866 GGTTGTCAACAATA-ATTTCCCAGTTTCA-AGGCCAATTTCA
66 GGTTGTCAACAA-ACATTT-TCAATTTCAGA-GCCAATTTCA
* * * * * * * *
3063906 ACTTCACGGCGAAGGATATTGGACCCAAGATAGCACAA-TCTCAACTTCACAGCGAAGGGGCGGC
1 ACTTCACAGCGAAGGATAATGGACTCGAGACAACACAAGT-TCAACTTCACAACGAAGGGACGGC
** * * *
3063970 TGACTGTCGAC-AA-A----CAATTTCGGAGCCAATCTCA
65 TGGTTGTCAACAAACATTTTCAATTTCAGAGCCAATTTCA
* * * * * * * * *
3064004 ACTTCACAGCGAAGGATATTGGACCCAAGACAGCACAAGCTCAACTTCATAGCGAAGGGGCAGCT
1 ACTTCACAGCGAAGGATAATGGACTCGAGACAACACAAGTTCAACTTCACAACGAAGGGACGGCT
** * * * *
3064069 GACTGTCGAC--A-A---GCAATTTCGGAGCCAATCTCA
66 GGTTGTCAACAAACATTTTCAATTTCAGAGCCAATTTCA
* * * * *
3064102 ACTTCACAGCAAAGGATATTGGATTCGAGACAACACAAGTTCAACTTCACAGCGAAGGGATGGCT
1 ACTTCACAGCGAAGGATAATGGACTCGAGACAACACAAGTTCAACTTCACAACGAAGGGACGGCT
* * * * * *
3064167 GGTTGTCAGCAAACAATTTCCCGATTCCAGAGTCGATTTCA
66 GGTTGTCAACAAAC-ATTT-TCAATTTCAGAGCCAATTTCA
* *
3064208 ACTCCAC-GACGGAGGAT-ATCGTG-CTACCTGAGACAACACAAGTTCAACTTCACAACGAAGGG
1 ACTTCACAG-CGAAGGATAAT-G-GACT--C-GAGACAACACAAGTTCAACTTCACAACGAAGGG
* * * * ** *
3064270 ACGACTGGTTGTCAACGAACAACTTTTCAGTTTTATCTG-CGATTTCA
60 ACGGCTGGTTGTCAACAAAC-A-TTTTCAATTTCA-GAGCCAATTTCA
*
3064317 ACTCCAC-GAC-AGAGGAT-ATCGTGCCACTCGAGACAACACAAGTTCAACTTCACAACGAAGGG
1 ACTTCACAG-CGA-AGGATAAT-G-G--ACTCGAGACAACACAAGTTCAACTTCACAACGAAGGG
3064379 ACGGCTGGTTGTCAACAAACATTTTTCAAATTTCAGAGCCAATTTCA
60 ACGGCTGGTTGTCAACAAACA-TTTTC-AATTTCAGAGCCAATTTCA
* *
3064426 ACTTCGCAGCGAAGGATAATGGACTCGAGATAACACAAGTTCAACTTCACAACGAAGGGACGGCT
1 ACTTCACAGCGAAGGATAATGGACTCGAGACAACACAAGTTCAACTTCACAACGAAGGGACGGCT
* * * **
3064491 GATTGTCAAC-AAGA-TTTC--GTTCAGATTCAATTTCA
66 GGTTGTCAACAAACATTTTCAATTTCAGAGCCAATTTCA
* * * * * * * *
3064526 ACTTCACAGTGAAGGATATTAGACTCGAGACAGCACAAGCTCAACTTCACAGCGACGGGGCGGCT
1 ACTTCACAGCGAAGGATAATGGACTCGAGACAACACAAGTTCAACTTCACAACGAAGGGACGGCT
** * * * *
3064591 GACTGTCAACAAACAATTTCACGGTTCCAGAACCAATTTCA
66 GGTTGTCAACAAACATTTTCA--ATTTCAGAGCCAATTTCA
* *
3064632 ACTTCACAGCGGAGGATATTGGACTCG
1 ACTTCACAGCGAAGGATAATGGACTCG
3064659 GAACAATATT
Statistics
Matches: 625, Mismatches: 93, Indels: 69
0.79 0.12 0.09
Matches are distributed among these distances:
97 2 0.00
98 165 0.26
99 1 0.00
100 79 0.13
101 3 0.00
102 5 0.01
103 6 0.01
104 2 0.00
105 67 0.11
106 116 0.19
107 1 0.00
108 9 0.01
109 158 0.25
110 9 0.01
112 2 0.00
ACGTcount: A:0.33, C:0.25, G:0.21, T:0.22
Consensus pattern (104 bp):
ACTTCACAGCGAAGGATAATGGACTCGAGACAACACAAGTTCAACTTCACAACGAAGGGACGGCT
GGTTGTCAACAAACATTTTCAATTTCAGAGCCAATTTCA
Found at i:3065175 original size:35 final size:35
Alignment explanation
Indices: 3065119--3065217 Score: 119
Period size: 35 Copynumber: 2.7 Consensus size: 35
3065109 TTTCATCCTA
3065119 CTAGGATTCAAACT-CTCAAAATAGGATAGAATTCTG
1 CTAGGATTC-AACTCCT-AAAATAGGATAGAATTCTG
*
3065155 CTAGGATTCAACTCCTAAAATAGGATAGAATTTTG
1 CTAGGATTCAACTCCTAAAATAGGATAGAATTCTG
** *
3065190 CTATGTTTTAAACTCCTAAAGATAGGAT
1 CTA-GGATTCAACTCCTAAA-ATAGGAT
3065218 CCACAAGCAC
Statistics
Matches: 56, Mismatches: 4, Indels: 5
0.86 0.06 0.08
Matches are distributed among these distances:
35 25 0.45
36 24 0.43
37 7 0.12
ACGTcount: A:0.37, C:0.15, G:0.16, T:0.31
Consensus pattern (35 bp):
CTAGGATTCAACTCCTAAAATAGGATAGAATTCTG
Found at i:3065910 original size:16 final size:16
Alignment explanation
Indices: 3065889--3065922 Score: 50
Period size: 16 Copynumber: 2.1 Consensus size: 16
3065879 CATGTATTTA
3065889 TATTATATTACATTAT
1 TATTATATTACATTAT
* *
3065905 TATTATTTTACTTTAT
1 TATTATATTACATTAT
3065921 TA
1 TA
3065923 AATTTTTTTT
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
16 16 1.00
ACGTcount: A:0.32, C:0.06, G:0.00, T:0.62
Consensus pattern (16 bp):
TATTATATTACATTAT
Found at i:3080737 original size:8 final size:9
Alignment explanation
Indices: 3080718--3080748 Score: 55
Period size: 9 Copynumber: 3.6 Consensus size: 9
3080708 TTTTTGGAAA
3080718 TTTTGGCTT
1 TTTTGGCTT
3080727 TTTTGGCTT
1 TTTTGGCTT
3080736 TTTTGG-TT
1 TTTTGGCTT
3080744 TTTTG
1 TTTTG
3080749 TTTTTTTAAA
Statistics
Matches: 22, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
8 7 0.32
9 15 0.68
ACGTcount: A:0.00, C:0.06, G:0.23, T:0.71
Consensus pattern (9 bp):
TTTTGGCTT
Found at i:3083251 original size:80 final size:80
Alignment explanation
Indices: 3083159--3083393 Score: 416
Period size: 80 Copynumber: 2.9 Consensus size: 80
3083149 ATTATATATT
* * * * *
3083159 TAAAATGTTAAAACAATATAATTAGTCATCTGCGTTACAAATAAAAATATTTCTTTTAAAATTTT
1 TAAAAGGTTAAAACAATCTAATTACTCATTTGTGTTACAAATAAAAATATTTCTTTTAAAATTTT
3083224 CACAAGTTAAGCGAA
66 CACAAGTTAAGCGAA
3083239 TAAAAGGTTAAAACAATCTAATTACTCATTTGTGTTACAAATAAAAATATTTCTTTTAAAATTTT
1 TAAAAGGTTAAAACAATCTAATTACTCATTTGTGTTACAAATAAAAATATTTCTTTTAAAATTTT
3083304 CACAAGTTAAGCGAA
66 CACAAGTTAAGCGAA
*
3083319 TAAAAGTTTAAAACAATCTAATTACTCATTTGTGTTACAAATAAAAATATTTCTTTTAAAATTTT
1 TAAAAGGTTAAAACAATCTAATTACTCATTTGTGTTACAAATAAAAATATTTCTTTTAAAATTTT
3083384 CACAAGTTAA
66 CACAAGTTAA
3083394 ACTTCGCTAT
Statistics
Matches: 149, Mismatches: 6, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
80 149 1.00
ACGTcount: A:0.44, C:0.11, G:0.08, T:0.37
Consensus pattern (80 bp):
TAAAAGGTTAAAACAATCTAATTACTCATTTGTGTTACAAATAAAAATATTTCTTTTAAAATTTT
CACAAGTTAAGCGAA
Found at i:3086537 original size:31 final size:30
Alignment explanation
Indices: 3086502--3086602 Score: 85
Period size: 31 Copynumber: 3.1 Consensus size: 30
3086492 GGGACTATGG
3086502 TAGGTTCAGTCGCTGCTGGTAATTCCTTGTA
1 TAGGTTCAGTC-CTGCTGGTAATTCCTTGTA
* * *
3086533 TAGGTTCAATACCTACTGGTAATTCCTTATCTCTA
1 TAGGTTCAGT-CCTGCTGGTAATTCC---T-TGTA
* *
3086568 GCAGGTTCAGTCACTGCTGGTATTTCCTTGTA
1 -TAGGTTCAGTC-CTGCTGGTAATTCCTTGTA
3086600 TAG
1 TAG
3086603 ATTTAGCACC
Statistics
Matches: 54, Mismatches: 9, Indels: 14
0.70 0.12 0.18
Matches are distributed among these distances:
31 24 0.44
32 4 0.07
33 1 0.02
34 1 0.02
35 4 0.07
36 20 0.37
ACGTcount: A:0.20, C:0.21, G:0.21, T:0.39
Consensus pattern (30 bp):
TAGGTTCAGTCCTGCTGGTAATTCCTTGTA
Found at i:3086618 original size:67 final size:67
Alignment explanation
Indices: 3086503--3086629 Score: 191
Period size: 67 Copynumber: 1.9 Consensus size: 67
3086493 GGACTATGGT
* * * *
3086503 AGGTTCAGTCGCTGCTGGTAATTCCTTGTATAGGTTCAATACCTACTGGTAATTCCTTATCTCTA
1 AGGTTCAGTCACTGCTGGTAATTCCTTGTATAGATTCAACACCGACTGGTAATTCCTTATCTCTA
3086568 GC
66 GC
* * *
3086570 AGGTTCAGTCACTGCTGGTATTTCCTTGTATAGATTTAGCACCGACTGGTAATTCCTTAT
1 AGGTTCAGTCACTGCTGGTAATTCCTTGTATAGATTCAACACCGACTGGTAATTCCTTAT
3086630 GGACCTAAGG
Statistics
Matches: 53, Mismatches: 7, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
67 53 1.00
ACGTcount: A:0.21, C:0.21, G:0.20, T:0.38
Consensus pattern (67 bp):
AGGTTCAGTCACTGCTGGTAATTCCTTGTATAGATTCAACACCGACTGGTAATTCCTTATCTCTA
GC
Found at i:3100693 original size:18 final size:17
Alignment explanation
Indices: 3100672--3100728 Score: 73
Period size: 18 Copynumber: 3.4 Consensus size: 17
3100662 TCATGTCTTT
3100672 TTTTTTTCTTTCGAACAG
1 TTTTTTT-TTTCGAACAG
*
3100690 TTTTTTTTTTCGAACTG
1 TTTTTTTTTTCGAACAG
3100707 TTATTTTTTTTC-AACA-
1 TT-TTTTTTTTCGAACAG
3100723 TTTTTT
1 TTTTTT
3100729 GTGATGGAGA
Statistics
Matches: 36, Mismatches: 2, Indels: 5
0.84 0.05 0.12
Matches are distributed among these distances:
15 4 0.11
16 2 0.06
17 14 0.39
18 16 0.44
ACGTcount: A:0.16, C:0.12, G:0.07, T:0.65
Consensus pattern (17 bp):
TTTTTTTTTTCGAACAG
Found at i:3103634 original size:13 final size:13
Alignment explanation
Indices: 3103616--3103642 Score: 54
Period size: 13 Copynumber: 2.1 Consensus size: 13
3103606 CCTGGTCGAA
3103616 TAAAAATAAAAAT
1 TAAAAATAAAAAT
3103629 TAAAAATAAAAAT
1 TAAAAATAAAAAT
3103642 T
1 T
3103643 TAATAGAAAA
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 14 1.00
ACGTcount: A:0.74, C:0.00, G:0.00, T:0.26
Consensus pattern (13 bp):
TAAAAATAAAAAT
Found at i:3114929 original size:47 final size:47
Alignment explanation
Indices: 3114856--3115666 Score: 908
Period size: 47 Copynumber: 17.2 Consensus size: 47
3114846 AAACTGAATT
*
3114856 CATAACTAAAAATTCATG-AATGGATGCATTAAGGCATGAAAGGATGC
1 CATAACTAAAAATGCATGAAAT-GATGCATTAAGGCATGAAAGGATGC
* *
3114903 CATAATTAAAAATGCATGAAATGATGCATTAAGGCATGAAAAGATGC
1 CATAACTAAAAATGCATGAAATGATGCATTAAGGCATGAAAGGATGC
* ** *
3114950 CATAACTAAAAATACATGAACGGATGTATTAAGGCATGAAAGGATGC
1 CATAACTAAAAATGCATGAAATGATGCATTAAGGCATGAAAGGATGC
* ** *
3114997 CATAAC-AAAAATACATGAACGGATGCATTAAGGCATAAAAGGATGC
1 CATAACTAAAAATGCATGAAATGATGCATTAAGGCATGAAAGGATGC
* *
3115043 TATAACTAAAAATGCATG-AATAAATGCATTAAGGCATGAAAGGATGC
1 CATAACTAAAAATGCATGAAAT-GATGCATTAAGGCATGAAAGGATGC
* * * *
3115090 CATAACTAAAAATGGATGAACA-AATGCATTAAGGCATGAAATGATGG
1 CATAACTAAAAATGCATGAA-ATGATGCATTAAGGCATGAAAGGATGC
* *
3115137 AATAACAAAAAATGCATG-AATGGATGCATTAAGGCATGAAAGGATGC
1 CATAACTAAAAATGCATGAAAT-GATGCATTAAGGCATGAAAGGATGC
* *** ** *
3115184 CATAACAAAAAATGCATGAGCGGATGCATTAAGTTATGAAAGGATGT
1 CATAACTAAAAATGCATGAAATGATGCATTAAGGCATGAAAGGATGC
** *
3115231 CATAACTAAAAATTTATG-AATGGATGCATTAAGGCATGAAAGGATAC
1 CATAACTAAAAATGCATGAAAT-GATGCATTAAGGCATGAAAGGATGC
* **
3115278 CATATCTAAAAATGCATGAACGGATGCATTAAGGCATGAAAGGATGC
1 CATAACTAAAAATGCATGAAATGATGCATTAAGGCATGAAAGGATGC
* *
3115325 CATAACTAAAAATGTATGAACA-AATGCATTAAGGCATGAAAGGATGC
1 CATAACTAAAAATGCATGAA-ATGATGCATTAAGGCATGAAAGGATGC
* * *
3115372 CATAACTAAAAATGTATG-AATGGATGCATTAAGGCATCAAAGGAGGC
1 CATAACTAAAAATGCATGAAAT-GATGCATTAAGGCATGAAAGGATGC
* * *
3115419 CATAACTAAAAATGCATG-AACGAATGCATTAAGGCATGAAAGGTTGA
1 CATAACTAAAAATGCATGAAATG-ATGCATTAAGGCATGAAAGGATGC
* ** *
3115466 CATAACTAAAAATGTATGAAATGATTTATTAAGACATGAAAGGATGC
1 CATAACTAAAAATGCATGAAATGATGCATTAAGGCATGAAAGGATGC
*
3115513 CATAACTAAAAATACATG-AATGGATGCATTAAGGCATGAAAGGATGC
1 CATAACTAAAAATGCATGAAAT-GATGCATTAAGGCATGAAAGGATGC
* * * * * *
3115560 TATAACT-AAAATGCATGAAAAT-ATACTTTAAAGCCTGAAAGTATGC
1 CATAACTAAAAATGCATG-AAATGATGCATTAAGGCATGAAAGGATGC
* * * ** *
3115606 CATAACAAAAAAATGCATGAACATAAATGTATTAAGGCATGAAAAAAGGC
1 CATAAC-TAAAAATGCATGAA-AT-GATGCATTAAGGCATGAAAGGATGC
3115656 CATAACTAAAA
1 CATAACTAAAA
3115667 TTAAAGTATA
Statistics
Matches: 648, Mismatches: 93, Indels: 44
0.83 0.12 0.06
Matches are distributed among these distances:
45 2 0.00
46 83 0.13
47 513 0.79
48 23 0.04
49 5 0.01
50 22 0.03
ACGTcount: A:0.46, C:0.12, G:0.20, T:0.22
Consensus pattern (47 bp):
CATAACTAAAAATGCATGAAATGATGCATTAAGGCATGAAAGGATGC
Found at i:3115223 original size:141 final size:141
Alignment explanation
Indices: 3114856--3115666 Score: 1018
Period size: 141 Copynumber: 5.7 Consensus size: 141
3114846 AAACTGAATT
* * *
3114856 CATAACTAAAAATTCATGAATGGATGCATTAAGGCATGAAAGGATGCCATAATTAAAAATGCATG
1 CATAACTAAAAATGCATGAACGGATGCATTAAGGCATGAAAGGATGCCATAACTAAAAATGCATG
* * * *
3114921 AAATGATGCATTAAGGCATGAAAAGATGCCATAACTAAAAATACATGAACGGATGTATTAAGGCA
66 AAAAGATGCATTAAGGCATGAAAGGATGCCATAACTAAAAATACATGAATGGATGCATTAAGGCA
3114986 TGAAAGGATGC
131 TGAAAGGATGC
* * *
3114997 CATAAC-AAAAATACATGAACGGATGCATTAAGGCATAAAAGGATGCTATAACTAAAAATGCATG
1 CATAACTAAAAATGCATGAACGGATGCATTAAGGCATGAAAGGATGCCATAACTAAAAATGCATG
** ***
3115061 AATAA-ATGCATTAAGGCATGAAAGGATGCCATAACTAAAAATGGATGAACAAATGCATTAAGGC
66 AA-AAGATGCATTAAGGCATGAAAGGATGCCATAACTAAAAATACATGAATGGATGCATTAAGGC
* *
3115125 ATGAAATGATGG
130 ATGAAAGGATGC
* * * *
3115137 AATAACAAAAAATGCATGAATGGATGCATTAAGGCATGAAAGGATGCCATAACAAAAAATGCATG
1 CATAACTAAAAATGCATGAACGGATGCATTAAGGCATGAAAGGATGCCATAACTAAAAATGCATG
*** ** * **
3115202 AGCGGATGCATTAAGTTATGAAAGGATGTCATAACTAAAAATTTATGAATGGATGCATTAAGGCA
66 AAAAGATGCATTAAGGCATGAAAGGATGCCATAACTAAAAATACATGAATGGATGCATTAAGGCA
*
3115267 TGAAAGGATAC
131 TGAAAGGATGC
* *
3115278 CATATCTAAAAATGCATGAACGGATGCATTAAGGCATGAAAGGATGCCATAACTAAAAATGTATG
1 CATAACTAAAAATGCATGAACGGATGCATTAAGGCATGAAAGGATGCCATAACTAAAAATGCATG
**
3115343 AACAA-ATGCATTAAGGCATGAAAGGATGCCATAACTAAAAATGTATGAATGGATGCATTAAGGC
66 AA-AAGATGCATTAAGGCATGAAAGGATGCCATAACTAAAAATACATGAATGGATGCATTAAGGC
* *
3115407 ATCAAAGGAGGC
130 ATGAAAGGATGC
* * * *
3115419 CATAACTAAAAATGCATGAACGAATGCATTAAGGCATGAAAGGTTGACATAACTAAAAATGTATG
1 CATAACTAAAAATGCATGAACGGATGCATTAAGGCATGAAAGGATGCCATAACTAAAAATGCATG
* ** *
3115484 AAATGATTTATTAAGACATGAAAGGATGCCATAACTAAAAATACATGAATGGATGCATTAAGGCA
66 AAAAGATGCATTAAGGCATGAAAGGATGCCATAACTAAAAATACATGAATGGATGCATTAAGGCA
3115549 TGAAAGGATGC
131 TGAAAGGATGC
* *** * * * * * *
3115560 TATAACT-AAAATGCATGAAAATATACTTTAAAGCCTGAAAGTATGCCATAACAAAAAAATGCAT
1 CATAACTAAAAATGCATGAACGGATGCATTAAGGCATGAAAGGATGCCATAAC-TAAAAATGCAT
* * ** *
3115624 GAACATAAATGTATTAAGGCATGAAAAAAGGCCATAACTAAAA
65 GAA-A-AGATGCATTAAGGCATGAAAGGATGCCATAACTAAAA
3115667 TTAAAGTATA
Statistics
Matches: 580, Mismatches: 82, Indels: 14
0.86 0.12 0.02
Matches are distributed among these distances:
140 159 0.27
141 390 0.67
142 1 0.00
143 30 0.05
ACGTcount: A:0.46, C:0.12, G:0.20, T:0.22
Consensus pattern (141 bp):
CATAACTAAAAATGCATGAACGGATGCATTAAGGCATGAAAGGATGCCATAACTAAAAATGCATG
AAAAGATGCATTAAGGCATGAAAGGATGCCATAACTAAAAATACATGAATGGATGCATTAAGGCA
TGAAAGGATGC
Found at i:3130983 original size:5 final size:5
Alignment explanation
Indices: 3130975--3131062 Score: 67
Period size: 5 Copynumber: 17.2 Consensus size: 5
3130965 TCATTTTCTT
* *
3130975 TTTTC TTTTC TTTAC TTTTC TTTAC TTTTC TTTCTTC TTTTC TTTT- TCTTTC
1 TTTTC TTTTC TTTTC TTTTC TTTTC TTTTC -TT-TTC TTTTC TTTTC T-TTTC
*
3131027 -TTTC TTTT- TTTCTAC TTTT- TATTTT TTTTC TTTTC T
1 TTTTC TTTTC TTT-T-C TTTTC T-TTTC TTTTC TTTTC T
3131063 CGAGTGCAGT
Statistics
Matches: 68, Mismatches: 5, Indels: 20
0.73 0.05 0.22
Matches are distributed among these distances:
4 9 0.13
5 47 0.69
6 6 0.09
7 6 0.09
ACGTcount: A:0.05, C:0.18, G:0.00, T:0.77
Consensus pattern (5 bp):
TTTTC
Found at i:3130983 original size:22 final size:22
Alignment explanation
Indices: 3130958--3131035 Score: 69
Period size: 22 Copynumber: 3.6 Consensus size: 22
3130948 ATTTCCTTCA
3130958 TTTTCTTTCATTTTCTTTTTTC
1 TTTTCTTTCATTTTCTTTTTTC
3130980 TTTTCTTT-ACTTTTCTTTACTTT-
1 TTTTCTTTCA-TTTTCTTT--TTTC
3131003 TCTTTC-TTC-TTTTC-TTTTTC
1 T-TTTCTTTCATTTTCTTTTTTC
*
3131023 -TTTCTTTCTTTTT
1 TTTTCTTTCATTTT
3131036 TTCTACTTTT
Statistics
Matches: 48, Mismatches: 0, Indels: 18
0.73 0.00 0.27
Matches are distributed among these distances:
18 4 0.08
19 6 0.12
20 4 0.08
21 3 0.06
22 21 0.44
23 3 0.06
24 7 0.15
ACGTcount: A:0.04, C:0.19, G:0.00, T:0.77
Consensus pattern (22 bp):
TTTTCTTTCATTTTCTTTTTTC
Found at i:3130994 original size:32 final size:32
Alignment explanation
Indices: 3130958--3131045 Score: 103
Period size: 32 Copynumber: 2.8 Consensus size: 32
3130948 ATTTCCTTCA
*
3130958 TTTTCTTT-CATTTTCTTTTTTCTTTTCTTTAC
1 TTTTCTTTAC-TTTTCTTTCTTCTTTTCTTTAC
*
3130990 TTTTCTTTACTTTTCTTTCTTCTTTTCTTT-T
1 TTTTCTTTACTTTTCTTTCTTCTTTTCTTTAC
*
3131021 TCTTTCTTT-CTTTT-TTTCTACTTTT
1 T-TTTCTTTACTTTTCTTTCTTCTTTT
3131046 TATTTTTTTT
Statistics
Matches: 51, Mismatches: 3, Indels: 6
0.85 0.05 0.10
Matches are distributed among these distances:
30 10 0.20
31 6 0.12
32 34 0.67
33 1 0.02
ACGTcount: A:0.05, C:0.19, G:0.00, T:0.76
Consensus pattern (32 bp):
TTTTCTTTACTTTTCTTTCTTCTTTTCTTTAC
Found at i:3131028 original size:10 final size:10
Alignment explanation
Indices: 3130958--3131059 Score: 61
Period size: 10 Copynumber: 9.8 Consensus size: 10
3130948 ATTTCCTTCA
*
3130958 TTTTCTTTCA
1 TTTTCTTTCT
*
3130968 TTTTCTTTTTT
1 TTTTC-TTTCT
3130979 CTTTTCTTTAC-
1 -TTTTCTTT-CT
3130990 TTTTCTTTAC-
1 TTTTCTTT-CT
3131000 TTTTCTTTCTT
1 TTTTCTTTC-T
3131011 CTTTTCTTT-T
1 -TTTTCTTTCT
3131021 TCTTTCTTTCT
1 T-TTTCTTTCT
3131032 TTTT-TTCTACT
1 TTTTCTT-T-CT
*
3131043 TTTTATTT-T
1 TTTTCTTTCT
3131052 TTTTCTTT
1 TTTTCTTT
3131060 TCTCGAGTGC
Statistics
Matches: 77, Mismatches: 4, Indels: 23
0.74 0.04 0.22
Matches are distributed among these distances:
9 12 0.16
10 35 0.45
11 15 0.19
12 15 0.19
ACGTcount: A:0.05, C:0.18, G:0.00, T:0.77
Consensus pattern (10 bp):
TTTTCTTTCT
Found at i:3131037 original size:22 final size:22
Alignment explanation
Indices: 3130959--3131039 Score: 64
Period size: 18 Copynumber: 3.6 Consensus size: 22
3130949 TTTCCTTCAT
3130959 TTTCTTTCATTTTCTTTTTTCTTTTC
1 TTTCTTT--TTTTC-TTTTTC-TTTC
3130985 TTTACTTTTCTTTAC-TTTTCTTTC
1 TTT-CTTTT-TTT-CTTTTTCTTTC
3131009 -TTC---TTTTCTTTTTCTTTC
1 TTTCTTTTTTTCTTTTTCTTTC
3131027 TTTCTTTTTTTCT
1 TTTCTTTTTTTCT
3131040 ACTTTTTATT
Statistics
Matches: 47, Mismatches: 0, Indels: 20
0.70 0.00 0.30
Matches are distributed among these distances:
17 1 0.02
18 12 0.26
19 4 0.09
22 7 0.15
23 2 0.04
24 4 0.09
25 6 0.13
26 6 0.13
27 5 0.11
ACGTcount: A:0.04, C:0.20, G:0.00, T:0.77
Consensus pattern (22 bp):
TTTCTTTTTTTCTTTTTCTTTC
Found at i:3138314 original size:131 final size:131
Alignment explanation
Indices: 3138045--3138411 Score: 461
Period size: 131 Copynumber: 2.8 Consensus size: 131
3138035 ATAATTTTAA
* *
3138045 GAGAGAAAACGATGATATCTAATTATTTCCAATCTAGAATAAATGACCTCTCGTATA--TT-AAA
1 GAGAGAAAACGATAATATCTAATTATTTCCAATCGAGAATAAATGACCTCT--TATACCTTAAAA
* * * * * *
3138107 CATTCATTTATTACTCCAATCGAAATGAAGAGATATCAGTATTTCGTCTTAAAATTCAATATTGA
64 CAGTCATTTATTACTCCAACCGAAATGAAGAGATATCACTATTTCATCTTAAAAATCAATATTAA
3138172 TTC
129 TTC
* ** * *
3138175 GAGTGAAAATAATAATATCTAATGATTTCCAATCGAGAATAAATGACCTCTTATACCTTAAAAAA
1 GAGAGAAAACGATAATATCTAATTATTTCCAATCGAGAATAAATGACCTCTTATACCTTAAAACA
* * *
3138240 GTCATGTATTGCTCCAACCGAAATGAAGAGATATCACTATTTCATCTTAAAAATCAGTATTAATT
66 GTCATTTATTACTCCAACCGAAATGAAGAGATATCACTATTTCATCTTAAAAATCAATATTAATT
*
3138305 T
131 C
* * * * * *
3138306 GAGAGAAAACGGTAATATCAAATTATTTCAAATCGAGAATAAATGACCTCTCATGCCTTAAAGCA
1 GAGAGAAAACGATAATATCTAATTATTTCCAATCGAGAATAAATGACCTCTTATACCTTAAAACA
* * *
3138371 GTCGTTTATTACTCCAACCGAAATGAAAAGATATTACTATT
66 GTCATTTATTACTCCAACCGAAATGAAGAGATATCACTATT
3138412 CTCAATATCG
Statistics
Matches: 201, Mismatches: 33, Indels: 5
0.84 0.14 0.02
Matches are distributed among these distances:
128 4 0.02
130 47 0.23
131 150 0.75
ACGTcount: A:0.40, C:0.16, G:0.12, T:0.32
Consensus pattern (131 bp):
GAGAGAAAACGATAATATCTAATTATTTCCAATCGAGAATAAATGACCTCTTATACCTTAAAACA
GTCATTTATTACTCCAACCGAAATGAAGAGATATCACTATTTCATCTTAAAAATCAATATTAATT
C
Found at i:3146693 original size:16 final size:16
Alignment explanation
Indices: 3146672--3146706 Score: 61
Period size: 16 Copynumber: 2.2 Consensus size: 16
3146662 TGATATGGCT
3146672 GGGGAGTGGGTGAAAC
1 GGGGAGTGGGTGAAAC
*
3146688 GGGGAGTGGTTGAAAC
1 GGGGAGTGGGTGAAAC
3146704 GGG
1 GGG
3146707 CGGCAGTTAA
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
16 18 1.00
ACGTcount: A:0.23, C:0.06, G:0.57, T:0.14
Consensus pattern (16 bp):
GGGGAGTGGGTGAAAC
Found at i:3146722 original size:52 final size:52
Alignment explanation
Indices: 3146639--3146742 Score: 154
Period size: 52 Copynumber: 2.0 Consensus size: 52
3146629 TTGGTGTGAT
* * * *
3146639 GAGTGGGTGAAACGGGCAGTAGTTGATATGGCTGGGGAGTGGGTGAAACGGG
1 GAGTGGGTGAAACGGGCAGCAGTTAAGATGGCCGGGGAGTGGGTGAAACGGG
* *
3146691 GAGTGGTTGAAACGGGCGGCAGTTAAGATGGCCGGGGAGTGGGTGAAACGGG
1 GAGTGGGTGAAACGGGCAGCAGTTAAGATGGCCGGGGAGTGGGTGAAACGGG
3146743 TCTAGATTGG
Statistics
Matches: 46, Mismatches: 6, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
52 46 1.00
ACGTcount: A:0.23, C:0.10, G:0.50, T:0.17
Consensus pattern (52 bp):
GAGTGGGTGAAACGGGCAGCAGTTAAGATGGCCGGGGAGTGGGTGAAACGGG
Found at i:3147791 original size:16 final size:16
Alignment explanation
Indices: 3147770--3147802 Score: 66
Period size: 16 Copynumber: 2.1 Consensus size: 16
3147760 TTTAAATATT
3147770 CATCAAAAGATTCTAA
1 CATCAAAAGATTCTAA
3147786 CATCAAAAGATTCTAA
1 CATCAAAAGATTCTAA
3147802 C
1 C
3147803 TTTTTTATTC
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 17 1.00
ACGTcount: A:0.48, C:0.21, G:0.06, T:0.24
Consensus pattern (16 bp):
CATCAAAAGATTCTAA
Found at i:3150287 original size:15 final size:15
Alignment explanation
Indices: 3150267--3150302 Score: 54
Period size: 15 Copynumber: 2.4 Consensus size: 15
3150257 ATATTTAGTT
3150267 GGGCGGGCGGATGCG
1 GGGCGGGCGGATGCG
*
3150282 GGGCGGGTGGATGCG
1 GGGCGGGCGGATGCG
*
3150297 GTGCGG
1 GGGCGG
3150303 ATGCGGGGTG
Statistics
Matches: 19, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
15 19 1.00
ACGTcount: A:0.06, C:0.17, G:0.67, T:0.11
Consensus pattern (15 bp):
GGGCGGGCGGATGCG
Found at i:3153468 original size:42 final size:42
Alignment explanation
Indices: 3153377--3153611 Score: 249
Period size: 42 Copynumber: 5.5 Consensus size: 42
3153367 AAAATGACGT
** * * * *
3153377 TATAGATCTGACCTTTTGCGGTGTTTGTTCAAAAAAATGTCAC
1 TATAGATCTGACCTTTTGCGGCATTTGTTC-CAAAAACGCCGC
* * *
3153420 TATAGATCTGACCTTTTGCAGCGTTTGTTCGAAAAACGCCGC
1 TATAGATCTGACCTTTTGCGGCATTTGTTCCAAAAACGCCGC
* * **
3153462 TATAGATATGACCTTTTGCGACATTTGTTCCAAAAACGCTAC
1 TATAGATCTGACCTTTTGCGGCATTTGTTCCAAAAACGCCGC
* *
3153504 TATAGATCTTGAACTTTAT--GGCATTTGTTCCAAAAATGCCGC
1 TATAGATC-TGACCTTT-TGCGGCATTTGTTCCAAAAACGCCGC
* *
3153546 TATAGATATCGACCTTTTGTGGCATTTGTTCCAAAAACGCCGC
1 TATAGATCT-GACCTTTTGCGGCATTTGTTCCAAAAACGCCGC
*
3153589 TATAGATCTCGACCTATTGCGGC
1 TATAGATCT-GACCTTTTGCGGC
3153612 GTTTTTTGTT
Statistics
Matches: 162, Mismatches: 25, Indels: 10
0.82 0.13 0.05
Matches are distributed among these distances:
41 2 0.01
42 82 0.51
43 77 0.48
44 1 0.01
ACGTcount: A:0.27, C:0.21, G:0.18, T:0.34
Consensus pattern (42 bp):
TATAGATCTGACCTTTTGCGGCATTTGTTCCAAAAACGCCGC
Found at i:3153562 original size:85 final size:84
Alignment explanation
Indices: 3153356--3153597 Score: 265
Period size: 85 Copynumber: 2.8 Consensus size: 84
3153346 ATTAGCCACG
* * * ** * *
3153356 TTTGTATCCAAAAAATGACGTTATAGATCTGACCTTTTGCGGTGTTTGTTCAAAAAAATG-TCAC
1 TTTGT-TCC-AAAAATGCCGCTATAGATATGACCTTTTGCGGCATTTGTTC-CAAAAACGCT-AC
* *
3153420 TATAGATC-TGACCTTTTGCAGCG
62 TATAGATCTTGAACTTTTG-AGCA
* * *
3153443 TTTGTTCGAAAAACGCCGCTATAGATATGACCTTTTGCGACATTTGTTCCAAAAACGCTACTATA
1 TTTGTTCCAAAAATGCCGCTATAGATATGACCTTTTGCGGCATTTGTTCCAAAAACGCTACTATA
3153508 GATCTTGAACTTTATG-GCA
66 GATCTTGAACTTT-TGAGCA
* **
3153527 TTTGTTCCAAAAATGCCGCTATAGATATCGACCTTTTGTGGCATTTGTTCCAAAAACGCCGCTAT
1 TTTGTTCCAAAAATGCCGCTATAGATAT-GACCTTTTGCGGCATTTGTTCCAAAAACGCTACTAT
3153592 AGATCT
65 AGATCT
3153598 CGACCTATTG
Statistics
Matches: 133, Mismatches: 18, Indels: 10
0.83 0.11 0.06
Matches are distributed among these distances:
84 44 0.33
85 80 0.60
86 4 0.03
87 5 0.04
ACGTcount: A:0.29, C:0.20, G:0.17, T:0.34
Consensus pattern (84 bp):
TTTGTTCCAAAAATGCCGCTATAGATATGACCTTTTGCGGCATTTGTTCCAAAAACGCTACTATA
GATCTTGAACTTTTGAGCA
Found at i:3158396 original size:13 final size:13
Alignment explanation
Indices: 3158362--3158407 Score: 67
Period size: 13 Copynumber: 3.6 Consensus size: 13
3158352 GCACAATCTT
*
3158362 AGACACAACTTTC
1 AGACACAACTTTG
3158375 AG-CACAACTTTG
1 AGACACAACTTTG
*
3158387 AGAGACAACTTTG
1 AGACACAACTTTG
3158400 AGACACAA
1 AGACACAA
3158408 TTCACAAAGT
Statistics
Matches: 29, Mismatches: 3, Indels: 2
0.85 0.09 0.06
Matches are distributed among these distances:
12 11 0.38
13 18 0.62
ACGTcount: A:0.41, C:0.24, G:0.15, T:0.20
Consensus pattern (13 bp):
AGACACAACTTTG
Found at i:3158747 original size:3 final size:3
Alignment explanation
Indices: 3158734--3158796 Score: 110
Period size: 3 Copynumber: 21.3 Consensus size: 3
3158724 ATAATAATAT
*
3158734 TTA TTA CTA TTA TTA TTA -TA TTA TTA TTA TTA TTA TTA TTA TTA TTA
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA
3158781 TTA TTA TTA TTA TTA T
1 TTA TTA TTA TTA TTA T
3158797 CTAGGATTAA
Statistics
Matches: 57, Mismatches: 2, Indels: 2
0.93 0.03 0.03
Matches are distributed among these distances:
2 2 0.04
3 55 0.96
ACGTcount: A:0.33, C:0.02, G:0.00, T:0.65
Consensus pattern (3 bp):
TTA
Found at i:3177133 original size:21 final size:21
Alignment explanation
Indices: 3177109--3177165 Score: 53
Period size: 23 Copynumber: 2.6 Consensus size: 21
3177099 ATCCTCACTA
3177109 TGTATCGATACACTATG-ATAG
1 TGTATCGATACACTATGAAT-G
* * *
3177130 TGTACCGATGCATTCTTTGAATG
1 TGTATCGATACA--CTATGAATG
3177153 TGTATCGATACAC
1 TGTATCGATACAC
3177166 ACAGGAGTGT
Statistics
Matches: 28, Mismatches: 5, Indels: 6
0.72 0.13 0.15
Matches are distributed among these distances:
21 11 0.39
23 15 0.54
24 2 0.07
ACGTcount: A:0.28, C:0.18, G:0.19, T:0.35
Consensus pattern (21 bp):
TGTATCGATACACTATGAATG
Found at i:3185419 original size:23 final size:23
Alignment explanation
Indices: 3185371--3185419 Score: 55
Period size: 23 Copynumber: 2.1 Consensus size: 23
3185361 TTTTTGTGAC
* *
3185371 TTTTTTGGCTTTTTGATTTTTTT
1 TTTTTTGGCTTTTTGATTCTTCT
*
3185394 TTTTTTGGCATTTTT-CTTCTTCT
1 TTTTTTGGC-TTTTTGATTCTTCT
3185417 TTT
1 TTT
3185420 CAAAAATAGC
Statistics
Matches: 22, Mismatches: 3, Indels: 2
0.81 0.11 0.07
Matches are distributed among these distances:
23 17 0.77
24 5 0.23
ACGTcount: A:0.04, C:0.10, G:0.10, T:0.76
Consensus pattern (23 bp):
TTTTTTGGCTTTTTGATTCTTCT
Found at i:3187067 original size:29 final size:29
Alignment explanation
Indices: 3187014--3187193 Score: 177
Period size: 29 Copynumber: 6.2 Consensus size: 29
3187004 TTTACACAAT
* * *
3187014 TATCACCCTTTTAAGAAATATTTACTAAAA
1 TATCACCTTTTTAA-AAATAATTACGAAAA
*
3187044 TATCACCTTTTTAAAACTAATTACGAAAA
1 TATCACCTTTTTAAAAATAATTACGAAAA
* * *
3187073 TATCA-CATTTTAAAAAAAATTTACGAAAT
1 TATCACCTTTTTAAAAATAA-TTACGAAAA
* *
3187102 TAAT-ACGTTTGTAAAAA-AATTACGAAAA
1 T-ATCACCTTTTTAAAAATAATTACGAAAA
* * * *
3187130 TAACACCATTTTCAAAATAATTACCAAAA
1 TATCACCTTTTTAAAAATAATTACGAAAA
* *
3187159 TATCACCATTTTAAAAATAATTACTAAAA
1 TATCACCTTTTTAAAAATAATTACGAAAA
3187188 TATCAC
1 TATCAC
3187194 TTGGTCAACG
Statistics
Matches: 124, Mismatches: 21, Indels: 11
0.79 0.13 0.07
Matches are distributed among these distances:
27 1 0.01
28 29 0.23
29 71 0.57
30 23 0.19
ACGTcount: A:0.49, C:0.15, G:0.03, T:0.33
Consensus pattern (29 bp):
TATCACCTTTTTAAAAATAATTACGAAAA
Found at i:3187221 original size:13 final size:13
Alignment explanation
Indices: 3187203--3187228 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
3187193 CTTGGTCAAC
3187203 GGTCAACGGGTCG
1 GGTCAACGGGTCG
3187216 GGTCAACGGGTCG
1 GGTCAACGGGTCG
3187229 AGTCGAAACC
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.15, C:0.23, G:0.46, T:0.15
Consensus pattern (13 bp):
GGTCAACGGGTCG
Found at i:3187949 original size:2 final size:2
Alignment explanation
Indices: 3187942--3187973 Score: 64
Period size: 2 Copynumber: 16.0 Consensus size: 2
3187932 TTTCAATTAA
3187942 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
3187974 TCAAAAATCC
Statistics
Matches: 30, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 30 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:3188467 original size:10 final size:10
Alignment explanation
Indices: 3188452--3188478 Score: 54
Period size: 10 Copynumber: 2.7 Consensus size: 10
3188442 TCTCCCTCAC
3188452 AAGAACTTGA
1 AAGAACTTGA
3188462 AAGAACTTGA
1 AAGAACTTGA
3188472 AAGAACT
1 AAGAACT
3188479 CAAGGTAAAG
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
10 17 1.00
ACGTcount: A:0.52, C:0.11, G:0.19, T:0.19
Consensus pattern (10 bp):
AAGAACTTGA
Found at i:3194758 original size:18 final size:18
Alignment explanation
Indices: 3194735--3194787 Score: 81
Period size: 18 Copynumber: 2.9 Consensus size: 18
3194725 ATTTTTTTTT
3194735 CAAAAAACAAAAAAAAGG
1 CAAAAAACAAAAAAAAGG
3194753 CAAAAAA-ATAAAAAAAGG
1 CAAAAAACA-AAAAAAAGG
3194771 CAAAAAAACAAAAAAAA
1 C-AAAAAACAAAAAAAA
3194788 AAAAAGCTAA
Statistics
Matches: 32, Mismatches: 0, Indels: 5
0.86 0.00 0.14
Matches are distributed among these distances:
17 1 0.03
18 17 0.53
19 13 0.41
20 1 0.03
ACGTcount: A:0.81, C:0.09, G:0.08, T:0.02
Consensus pattern (18 bp):
CAAAAAACAAAAAAAAGG
Found at i:3194783 original size:24 final size:25
Alignment explanation
Indices: 3194756--3194809 Score: 76
Period size: 24 Copynumber: 2.2 Consensus size: 25
3194746 AAAAAGGCAA
*
3194756 AAAAATAAAAAAAGGC-AAAAAAAC
1 AAAAATAAAAAAAAGCTAAAAAAAC
3194780 AAAAA-AAAAAAAAGCTAAAAAAAC
1 AAAAATAAAAAAAAGCTAAAAAAAC
*
3194804 CAAAAT
1 AAAAAT
3194810 TTCAAAAAAA
Statistics
Matches: 26, Mismatches: 2, Indels: 3
0.84 0.06 0.10
Matches are distributed among these distances:
23 9 0.35
24 17 0.65
ACGTcount: A:0.80, C:0.09, G:0.06, T:0.06
Consensus pattern (25 bp):
AAAAATAAAAAAAAGCTAAAAAAAC
Found at i:3194808 original size:9 final size:8
Alignment explanation
Indices: 3194736--3194808 Score: 58
Period size: 8 Copynumber: 8.5 Consensus size: 8
3194726 TTTTTTTTTC
3194736 AAAAAACAA
1 AAAAAAC-A
3194745 AAAAAAGGCA
1 AAAAAA--CA
*
3194755 AAAAAATA
1 AAAAAACA
3194763 AAAAAAGGCA
1 AAAAAA--CA
3194773 AAAAAACA
1 AAAAAACA
3194781 AAAAAA-A
1 AAAAAACA
*
3194788 AAAAAGCTA
1 AAAAAAC-A
*
3194797 AAAAAACC
1 AAAAAACA
3194805 AAAA
1 AAAA
3194809 TTTCAAAAAA
Statistics
Matches: 53, Mismatches: 5, Indels: 13
0.75 0.07 0.18
Matches are distributed among these distances:
7 6 0.11
8 19 0.36
9 13 0.25
10 14 0.26
11 1 0.02
ACGTcount: A:0.81, C:0.10, G:0.07, T:0.03
Consensus pattern (8 bp):
AAAAAACA
Found at i:3194808 original size:18 final size:18
Alignment explanation
Indices: 3194735--3194802 Score: 72
Period size: 18 Copynumber: 3.9 Consensus size: 18
3194725 ATTTTTTTTT
*
3194735 CAAAAAACAAAAAAAAGG
1 CAAAAAACTAAAAAAAGG
*
3194753 CAAAAAAATAAAAAAAGG
1 CAAAAAACTAAAAAAAGG
3194771 CAAAAAAAC-AAAAAAA--
1 C-AAAAAACTAAAAAAAGG
3194787 -AAAAAAGCTAAAAAAA
1 CAAAAAA-CTAAAAAAA
3194803 CCAAAATTTC
Statistics
Matches: 44, Mismatches: 3, Indels: 8
0.80 0.05 0.15
Matches are distributed among these distances:
14 6 0.14
15 1 0.02
16 7 0.16
18 24 0.55
19 6 0.14
ACGTcount: A:0.81, C:0.09, G:0.07, T:0.03
Consensus pattern (18 bp):
CAAAAAACTAAAAAAAGG
Found at i:3201925 original size:12 final size:13
Alignment explanation
Indices: 3201908--3201952 Score: 58
Period size: 12 Copynumber: 3.5 Consensus size: 13
3201898 ATCAAGTCAC
3201908 AACAAAGGAAAA-
1 AACAAAGGAAAAG
3201920 AACAAA-GAAAAG
1 AACAAAGGAAAAG
3201932 AACAAAGAGAAAAG
1 AACAAAG-GAAAAG
3201946 AAGCAAA
1 AA-CAAA
3201953 TAGAAAAAAA
Statistics
Matches: 29, Mismatches: 0, Indels: 5
0.85 0.00 0.15
Matches are distributed among these distances:
11 5 0.17
12 12 0.41
14 8 0.28
15 4 0.14
ACGTcount: A:0.73, C:0.09, G:0.18, T:0.00
Consensus pattern (13 bp):
AACAAAGGAAAAG
Found at i:3201957 original size:15 final size:14
Alignment explanation
Indices: 3201908--3201988 Score: 61
Period size: 14 Copynumber: 6.1 Consensus size: 14
3201898 ATCAAGTCAC
3201908 AACAAAG-GAAAA-
1 AACAAAGAGAAAAG
3201920 AAC-AA-AGAAAAG
1 AACAAAGAGAAAAG
3201932 AACAAAGAGAAAAG
1 AACAAAGAGAAAAG
*
3201946 AAGCAAATAG-AAA-
1 AA-CAAAGAGAAAAG
3201959 AA-AAAGAGAATAAAG
1 AACAAAGAG-A-AAAG
*
3201974 AA-AAAAAGAAAAG
1 AACAAAGAGAAAAG
3201987 AA
1 AA
3201989 AAGAAAAAAA
Statistics
Matches: 57, Mismatches: 3, Indels: 17
0.74 0.04 0.22
Matches are distributed among these distances:
11 12 0.21
12 6 0.11
13 10 0.18
14 16 0.28
15 13 0.23
ACGTcount: A:0.75, C:0.05, G:0.17, T:0.02
Consensus pattern (14 bp):
AACAAAGAGAAAAG
Found at i:3201968 original size:26 final size:26
Alignment explanation
Indices: 3201923--3202007 Score: 84
Period size: 26 Copynumber: 3.1 Consensus size: 26
3201913 AGGAAAAAAC
3201923 AAAGAAAAGAACAAAGAGAAAAGAAGCAA
1 AAAGAAAAG-A-AAAGAGAAAAGAAG-AA
*
3201952 ATAGAAAA-AAAAGAGAATAAAGAA-AA
1 AAAGAAAAGAAAAGAG-A-AAAGAAGAA
*
3201978 AAAGAAAAGAAAAGAAAAAAAGAAGAA
1 AAAGAAAAGAAAAG-AGAAAAGAAGAA
3202005 AAA
1 AAA
3202008 ATCAAAGAAA
Statistics
Matches: 48, Mismatches: 3, Indels: 12
0.76 0.05 0.19
Matches are distributed among these distances:
26 21 0.44
27 13 0.27
28 7 0.15
29 7 0.15
ACGTcount: A:0.78, C:0.02, G:0.18, T:0.02
Consensus pattern (26 bp):
AAAGAAAAGAAAAGAGAAAAGAAGAA
Found at i:3201975 original size:18 final size:19
Alignment explanation
Indices: 3201923--3201998 Score: 59
Period size: 17 Copynumber: 3.8 Consensus size: 19
3201913 AGGAAAAAAC
3201923 AAAGAAAAGAACAAAGAGAA-A
1 AAAGAAAAGAA-AAA-A-AAGA
3201944 AGAAGCAAATAGAAAAAAAAGA
1 A-AAG-AAA-AGAAAAAAAAGA
* *
3201966 GAA-TAAAG-AAAAAAAGA
1 AAAGAAAAGAAAAAAAAGA
3201983 AAAGAAAAGAAAAAAA
1 AAAGAAAAGAAAAAAA
3201999 GAAGAAAAAA
Statistics
Matches: 45, Mismatches: 4, Indels: 14
0.71 0.06 0.22
Matches are distributed among these distances:
17 11 0.24
18 6 0.13
19 8 0.18
21 5 0.11
22 5 0.11
23 6 0.13
24 4 0.09
ACGTcount: A:0.78, C:0.03, G:0.17, T:0.03
Consensus pattern (19 bp):
AAAGAAAAGAAAAAAAAGA
Found at i:3201999 original size:18 final size:17
Alignment explanation
Indices: 3201916--3202008 Score: 71
Period size: 18 Copynumber: 5.4 Consensus size: 17
3201906 ACAACAAAGG
*
3201916 AAAAAACAAAGAAAAGAA
1 AAAAAAGAAA-AAAAGAA
* * * *
3201934 CAAAGAGAAAAGAAGCA
1 AAAAAAGAAAAAAAGAA
* * *
3201951 AATAGA-AAAAAAAGAG
1 AAAAAAGAAAAAAAGAA
*
3201967 AATAAAGAAAAAAAGAA
1 AAAAAAGAAAAAAAGAA
3201984 AAGAAAAGAAAAAAAGAA
1 AA-AAAAGAAAAAAAGAA
3202002 GAAAAAA
1 -AAAAAA
3202009 TCAAAGAAAA
Statistics
Matches: 59, Mismatches: 13, Indels: 6
0.76 0.17 0.08
Matches are distributed among these distances:
16 12 0.20
17 20 0.34
18 25 0.42
19 2 0.03
ACGTcount: A:0.78, C:0.03, G:0.16, T:0.02
Consensus pattern (17 bp):
AAAAAAGAAAAAAAGAA
Found at i:3202018 original size:21 final size:19
Alignment explanation
Indices: 3201924--3202031 Score: 64
Period size: 18 Copynumber: 5.6 Consensus size: 19
3201914 GGAAAAAACA
3201924 AAGAAAAGAACAAAGAGAAAAG
1 AAGAAAA-AA-AAAGA-AAAAG
* *
3201946 AAGCAAATAGAAA-AAAAAG
1 AAG-AAAAAAAAAGAAAAAG
* *
3201965 -AGAATAAAGAA-AAAAAG
1 AAGAAAAAAAAAGAAAAAG
*
3201982 AA-AAGAAAAGAA-AAAAAG
1 AAGAA-AAAAAAAGAAAAAG
3202000 AAGAAAAAATCAAAGAAAAAG
1 AAGAAAAAA--AAAGAAAAAG
*
3202021 GAGAAAAAAAA
1 AAGAAAAAAAA
3202032 CAAGAAGCAC
Statistics
Matches: 70, Mismatches: 9, Indels: 17
0.73 0.09 0.18
Matches are distributed among these distances:
17 13 0.19
18 21 0.30
19 9 0.13
20 3 0.04
21 17 0.24
22 4 0.06
23 3 0.04
ACGTcount: A:0.77, C:0.03, G:0.18, T:0.03
Consensus pattern (19 bp):
AAGAAAAAAAAAGAAAAAG
Found at i:3202036 original size:21 final size:21
Alignment explanation
Indices: 3201971--3202037 Score: 68
Period size: 21 Copynumber: 3.2 Consensus size: 21
3201961 AAAGAGAATA
*
3201971 AAGAAAAA-AAGAAAAGAAAAG
1 AAGAAAAAGAAGAAAA-AAAAC
*
3201992 AA-AAAAAGAAG-AAAAAATC
1 AAGAAAAAGAAGAAAAAAAAC
*
3202011 AAAGAAAAAGGAGAAAAAAAAC
1 -AAGAAAAAGAAGAAAAAAAAC
3202033 AAGAA
1 AAGAA
3202038 GCACATGCAA
Statistics
Matches: 38, Mismatches: 4, Indels: 8
0.76 0.08 0.16
Matches are distributed among these distances:
19 3 0.08
20 10 0.26
21 18 0.47
22 7 0.18
ACGTcount: A:0.79, C:0.03, G:0.16, T:0.01
Consensus pattern (21 bp):
AAGAAAAAGAAGAAAAAAAAC
Found at i:3203252 original size:37 final size:36
Alignment explanation
Indices: 3203211--3203292 Score: 92
Period size: 36 Copynumber: 2.2 Consensus size: 36
3203201 ATCTCTTGGT
* * *
3203211 ACAATTTTCTCTAAAAATAAATTTTGTCTCAGTAGAG
1 ACAATTTTCTC-AAAAACAAATTTCGTCTCACTAGAG
* * *
3203248 ACAATTTTTTCCAAAACAAATTTCGTCTCACTTGAG
1 ACAATTTTCTCAAAAACAAATTTCGTCTCACTAGAG
*
3203284 ACATTTTTC
1 ACAATTTTC
3203293 ATTTGAGATT
Statistics
Matches: 37, Mismatches: 8, Indels: 1
0.80 0.17 0.02
Matches are distributed among these distances:
36 27 0.73
37 10 0.27
ACGTcount: A:0.34, C:0.18, G:0.09, T:0.39
Consensus pattern (36 bp):
ACAATTTTCTCAAAAACAAATTTCGTCTCACTAGAG
Found at i:3203393 original size:27 final size:27
Alignment explanation
Indices: 3203345--3203401 Score: 69
Period size: 27 Copynumber: 2.1 Consensus size: 27
3203335 TTGATCTCAC
**
3203345 TTGAGATTGTTTTTCTCAAAACAAACT
1 TTGAGATTGTTTCCCTCAAAACAAACT
** *
3203372 TTGAGATTGTTTCCCTTGAAACAAATT
1 TTGAGATTGTTTCCCTCAAAACAAACT
3203399 TTG
1 TTG
3203402 TCTCCCTTGA
Statistics
Matches: 25, Mismatches: 5, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
27 25 1.00
ACGTcount: A:0.30, C:0.14, G:0.14, T:0.42
Consensus pattern (27 bp):
TTGAGATTGTTTCCCTCAAAACAAACT
Found at i:3203411 original size:63 final size:66
Alignment explanation
Indices: 3203303--3203620 Score: 232
Period size: 66 Copynumber: 4.9 Consensus size: 66
3203293 ATTTGAGATT
* * * * * ** *
3203303 CAAATTTTGAGTTTGTTTCACTTGAAACAAA-GTTGATCTCACTTGAGATTGTTTTTC-TCAAA-
1 CAAACTTTGAGATTGTTTCCCTTGAAACAAATTTTG-TCTCCCTTGAGACAGTTTCTCATCAAAC
3203365 A-
65 AC
* *
3203366 CAAACTTTGAGATTGTTTCCCTTGAAACAAATTTTGTCTCCCTTGAGGCAGTTTCTCATGAAACA
1 CAAACTTTGAGATTGTTTCCCTTGAAACAAATTTTGTCTCCCTTGAGACAGTTTCTCATCAAACA
3203431 C
66 C
* * * * * * * * * * *
3203432 CCACCTTTTAGATTATTTCCCTTGAAACAAATTTTATCTCCCTTAAGGCAGCTTCTCTTGAAAAA
1 CAAACTTTGAGATTGTTTCCCTTGAAACAAATTTTGTCTCCCTTGAGACAGTTTCTCATCAAACA
3203497 C
66 C
* * * ** * * * * *
3203498 CCATCTTTGAGATCAG-TTCCCTTGAAATGAATTTTGTCTCTCTTGAGATAGTTTCTCTTGAAAT
1 CAAACTTTGAGAT-TGTTTCCCTTGAAACAAATTTTGTCTCCCTTGAGACAGTTTCTCATCAAAC
3203562 AC
65 AC
* * * * ** * *
3203564 CAATCTTTGAGTTTGTTTCCCATGAAACGAACGTTGTCTCTCTTGAGACGGTTTCTC
1 CAAACTTTGAGATTGTTTCCCTTGAAACAAATTTTGTCTCCCTTGAGACAGTTTCTC
3203621 TTGAAACCAT
Statistics
Matches: 208, Mismatches: 41, Indels: 9
0.81 0.16 0.03
Matches are distributed among these distances:
63 44 0.21
64 7 0.03
65 2 0.01
66 155 0.75
ACGTcount: A:0.26, C:0.21, G:0.14, T:0.38
Consensus pattern (66 bp):
CAAACTTTGAGATTGTTTCCCTTGAAACAAATTTTGTCTCCCTTGAGACAGTTTCTCATCAAACA
C
Found at i:3203459 original size:66 final size:66
Alignment explanation
Indices: 3203370--3203627 Score: 282
Period size: 66 Copynumber: 3.9 Consensus size: 66
3203360 TCAAAACAAA
* * *
3203370 CTTTGAGATTGTTTCCCTTGAAACAAATTTTGTCTCCCTTGAGGCAGTTTCTCATGAAACACCCA
1 CTTTGAGATTATTTCCCTTGAAACAAATTTTGTCTCCCTTGAGACAGTTTCTCTTGAAACACCCA
*
3203435 C
66 T
* * * * * *
3203436 CTTTTAGATTATTTCCCTTGAAACAAATTTTATCTCCCTTAAGGCAGCTTCTCTTGAAAAACCCA
1 CTTTGAGATTATTTCCCTTGAAACAAATTTTGTCTCCCTTGAGACAGTTTCTCTTGAAACACCCA
3203501 T
66 T
* * ** * * * *
3203502 CTTTGAGATCAGTTCCCTTGAAATGAATTTTGTCTCTCTTGAGATAGTTTCTCTTGAAATACCAA
1 CTTTGAGATTATTTCCCTTGAAACAAATTTTGTCTCCCTTGAGACAGTTTCTCTTGAAACACCCA
3203567 T
66 T
* * * * ** * *
3203568 CTTTGAGTTTGTTTCCCATGAAACGAACGTTGTCTCTCTTGAGACGGTTTCTCTTGAAAC
1 CTTTGAGATTATTTCCCTTGAAACAAATTTTGTCTCCCTTGAGACAGTTTCTCTTGAAAC
3203628 CATTATCCCT
Statistics
Matches: 160, Mismatches: 32, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
66 160 1.00
ACGTcount: A:0.25, C:0.22, G:0.15, T:0.38
Consensus pattern (66 bp):
CTTTGAGATTATTTCCCTTGAAACAAATTTTGTCTCCCTTGAGACAGTTTCTCTTGAAACACCCA
T
Found at i:3203961 original size:134 final size:130
Alignment explanation
Indices: 3203653--3203990 Score: 345
Period size: 131 Copynumber: 2.6 Consensus size: 130
3203643 TGGCCTTTCG
* * * * *
3203653 TCCTTATCACGTAGGAACCATGTCATCCACTGACCAAATCTCATCATCACGTAAGAGTCGTGTCA
1 TCCTCATCATGTAGGAACCATGTCATCCACT-ACCATATCTCCTCATCACGTAAGAGCCGTGTCA
* * * * * * * *
3203718 CTCCTAGATAACTAGTCGTCCTCATCACGTAGGAACCATGTTATTATCCATAAAGATGGCCTACC
65 CCCCTAGATAACCAATCGTCCTCATCACATAAGAACCATGTTATCACCCATAAAGATGGCCAACC
*
3203783 G
130 A
** * ** *
3203784 TCCTCATCATGTAGGAATTATGAT-ATCCATCGACCATGCCTCCTCATCACGTAAGAGCCATGTC
1 TCCTCATCATGTAGGAACCATG-TCATCCA-CTACCATATCTCCTCATCACGTAAGAGCCGTGTC
* * * *
3203848 ACCCCTAGATAACCAATCGTCCTCATCGCATAAGAATCGTGTTATCACCCTTTCTAAAGATGGCC
64 ACCCCTAGATAACCAATCGTCCTCATCACATAAGAACCATGTTATCACCC---ATAAAGATGGCC
3203913 AACCA
126 AACCA
* * * *
3203918 TCCTCATCGTGTAGGAACCGTGTCATCCACATACCATATCTCCTCATCACGTAGGAGCTGTGTCA
1 TCCTCATCATGTAGGAACCATGTCATCCAC-TACCATATCTCCTCATCACGTAAGAGCCGTGTCA
*
3203983 CCCTTAGA
65 CCCCTAGA
3203991 CGACCATAAC
Statistics
Matches: 165, Mismatches: 35, Indels: 11
0.78 0.17 0.05
Matches are distributed among these distances:
131 89 0.54
132 2 0.01
133 2 0.01
134 72 0.44
ACGTcount: A:0.28, C:0.30, G:0.16, T:0.27
Consensus pattern (130 bp):
TCCTCATCATGTAGGAACCATGTCATCCACTACCATATCTCCTCATCACGTAAGAGCCGTGTCAC
CCCTAGATAACCAATCGTCCTCATCACATAAGAACCATGTTATCACCCATAAAGATGGCCAACCA
Done.