Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: VEPZ01000761.1 Hibiscus syriacus cultivar Beakdansim tig00001478_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: 5609167
ACGTcount: A:0.33, C:0.17, G:0.17, T:0.33
File 5 of 23
Found at i:1182538 original size:3 final size:3
Alignment explanation
Indices: 1182530--1182586 Score: 96
Period size: 3 Copynumber: 19.0 Consensus size: 3
1182520 TTTTCCCGTT
* *
1182530 TTA TTA TTA TTA TTG TTA TTA TTA TAA TTA TTA TTA TTA TTA TTA TTA
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA
1182578 TTA TTA TTA
1 TTA TTA TTA
1182587 AATAATTTTT
Statistics
Matches: 50, Mismatches: 4, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
3 50 1.00
ACGTcount: A:0.33, C:0.00, G:0.02, T:0.65
Consensus pattern (3 bp):
TTA
Found at i:1197746 original size:44 final size:44
Alignment explanation
Indices: 1197683--1197770 Score: 176
Period size: 44 Copynumber: 2.0 Consensus size: 44
1197673 AGAAACAAAA
1197683 TTTTGTTGCATTATCTACCACTGAATCCGAATACATTTCAGCTG
1 TTTTGTTGCATTATCTACCACTGAATCCGAATACATTTCAGCTG
1197727 TTTTGTTGCATTATCTACCACTGAATCCGAATACATTTCAGCTG
1 TTTTGTTGCATTATCTACCACTGAATCCGAATACATTTCAGCTG
1197771 GTAGTTGTTG
Statistics
Matches: 44, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
44 44 1.00
ACGTcount: A:0.25, C:0.23, G:0.14, T:0.39
Consensus pattern (44 bp):
TTTTGTTGCATTATCTACCACTGAATCCGAATACATTTCAGCTG
Found at i:1198366 original size:20 final size:20
Alignment explanation
Indices: 1198341--1198380 Score: 62
Period size: 20 Copynumber: 2.0 Consensus size: 20
1198331 TTTTGGTGCA
*
1198341 GAGGGAATCGATCCCCCCTT
1 GAGGGAACCGATCCCCCCTT
*
1198361 GAGGGAACCGATTCCCCCTT
1 GAGGGAACCGATCCCCCCTT
1198381 TACAAGGGAA
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
20 18 1.00
ACGTcount: A:0.20, C:0.35, G:0.25, T:0.20
Consensus pattern (20 bp):
GAGGGAACCGATCCCCCCTT
Found at i:1202076 original size:15 final size:14
Alignment explanation
Indices: 1202058--1202135 Score: 67
Period size: 15 Copynumber: 5.6 Consensus size: 14
1202048 TTGAAAAAGA
1202058 AAAAAAATGAAAATG
1 AAAAAAATG-AAATG
1202073 -AAAAAATGAAATG
1 AAAAAAATGAAATG
1202086 ----AAATGAAATG
1 AAAAAAATGAAATG
*
1202096 AAATGAAATGAAATG
1 AAA-AAAATGAAATG
1202111 AAAAAGAATGAAAATG
1 AAAAA-AATG-AAATG
1202127 ATAAAAAAT
1 A-AAAAAAT
1202136 ATATATAGAA
Statistics
Matches: 54, Mismatches: 1, Indels: 15
0.77 0.01 0.21
Matches are distributed among these distances:
10 10 0.19
13 5 0.09
14 9 0.17
15 17 0.31
16 9 0.17
17 4 0.07
ACGTcount: A:0.68, C:0.00, G:0.15, T:0.17
Consensus pattern (14 bp):
AAAAAAATGAAATG
Found at i:1202086 original size:5 final size:5
Alignment explanation
Indices: 1202062--1202113 Score: 81
Period size: 5 Copynumber: 10.6 Consensus size: 5
1202052 AAAAGAAAAA
1202062 AAATG AAAATG AAA-- AAATG AAATG AAATG AAATG AAATG AAATG AAATG
1 AAATG -AAATG AAATG AAATG AAATG AAATG AAATG AAATG AAATG AAATG
1202111 AAA
1 AAA
1202114 AAGAATGAAA
Statistics
Matches: 44, Mismatches: 0, Indels: 5
0.90 0.00 0.10
Matches are distributed among these distances:
3 3 0.07
5 36 0.82
6 5 0.11
ACGTcount: A:0.65, C:0.00, G:0.17, T:0.17
Consensus pattern (5 bp):
AAATG
Found at i:1203971 original size:114 final size:112
Alignment explanation
Indices: 1203684--1204132 Score: 469
Period size: 113 Copynumber: 3.9 Consensus size: 112
1203674 GCAAAGATTC
* * * *
1203684 GAATCCATCACTCAATGGATCAACATTT-CTGGAAGAGTTCATAATGAGAAGAACTCATCTAAAG
1 GAATTCATCACTCGATGGATCAACATTTCCAGGAA-AGTTCATAATGAGAAGAACTCATCTGAAG
* * *
1203748 AAGGAAGAAGAAGTTCATAATGAGAAGAACTTGTTTAACCTTTAGTTC
65 AAGGAAGAAGAAGTTCATAATGAGAAGAACTTGTTCAACCTTTTGTTT
* * * *
1203796 GAATTCATCACTTGATGGATCAACATTGCCAGGTAGAGTTTATAATGAGAAGAACTCATCTGAAG
1 GAATTCATCACTCGATGGATCAACATTTCCAGG-AAAGTTCATAATGAGAAGAACTCATCTGAAG
* * *
1203861 AAGGAAGAAAAAATTCATAATGAGAAGAATTTGTTCAAACCTTTTGTTT
65 AAGGAAGAAGAAGTTCATAATGAGAAGAACTTGTTC-AACCTTTTGTTT
* * *
1203910 GAATTCATCACTCGATGGATCAACTTTTCCAGAGAAAGTTCATAATGAGAAGAGCTTATCTGAAG
1 GAATTCATCACTCGATGGATCAACATTTCCAG-GAAAGTTCATAATGAGAAGAACTCATCTGAAG
* * *
1203975 -GGGAAGAAGAAGTTCATAATGAAAAAAACTTGTTCAACC-TTTGTTT
65 AAGGAAGAAGAAGTTCATAATGAGAAGAACTTGTTCAACCTTTTGTTT
* * * *
1204021 G-ATTCTATCACAGAAGGAGATAGATCAGCATCAACATTTCCA-GAAGTGTTCATAATTAGAAGA
1 GAATTC-ATCAC---------TCGAT--GGATCAACATTTCCAGGAA-AGTTCATAATGAGAAGA
* *
1204084 ACTCATTTGAAGAATGAA-AAGAAGTTCATAATGAGAAGAACTTGTTCAA
53 ACTCATCTGAAGAAGGAAGAAGAAGTTCATAATGAGAAGAACTTGTTCAA
1204133 TCTTGCCTTT
Statistics
Matches: 280, Mismatches: 39, Indels: 27
0.81 0.11 0.08
Matches are distributed among these distances:
110 4 0.01
111 13 0.05
112 28 0.10
113 91 0.32
114 67 0.24
115 1 0.00
120 7 0.03
121 53 0.19
122 16 0.06
ACGTcount: A:0.39, C:0.14, G:0.19, T:0.28
Consensus pattern (112 bp):
GAATTCATCACTCGATGGATCAACATTTCCAGGAAAGTTCATAATGAGAAGAACTCATCTGAAGA
AGGAAGAAGAAGTTCATAATGAGAAGAACTTGTTCAACCTTTTGTTT
Found at i:1204531 original size:27 final size:25
Alignment explanation
Indices: 1204483--1204533 Score: 66
Period size: 27 Copynumber: 2.0 Consensus size: 25
1204473 TTTTTGCCCC
* *
1204483 TTTTTTTATTATAATTATTATTATA
1 TTTTTTTATTATAATAAATATTATA
1204508 TTTTTATTATTAATAATAAATATTAT
1 TTTTT-TTATT-ATAATAAATATTAT
1204534 TATTACATAT
Statistics
Matches: 22, Mismatches: 2, Indels: 2
0.85 0.08 0.08
Matches are distributed among these distances:
25 5 0.23
26 5 0.23
27 12 0.55
ACGTcount: A:0.37, C:0.00, G:0.00, T:0.63
Consensus pattern (25 bp):
TTTTTTTATTATAATAAATATTATA
Found at i:1205050 original size:13 final size:13
Alignment explanation
Indices: 1205032--1205068 Score: 56
Period size: 13 Copynumber: 2.8 Consensus size: 13
1205022 TAAAACACAG
*
1205032 AGGGAGAGCAACC
1 AGGGAGAGAAACC
1205045 AGGGAGAGAAACC
1 AGGGAGAGAAACC
*
1205058 AGAGAGAGAAA
1 AGGGAGAGAAA
1205069 AAAGGAGATA
Statistics
Matches: 22, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
13 22 1.00
ACGTcount: A:0.49, C:0.14, G:0.38, T:0.00
Consensus pattern (13 bp):
AGGGAGAGAAACC
Found at i:1206969 original size:10 final size:11
Alignment explanation
Indices: 1206954--1206987 Score: 61
Period size: 11 Copynumber: 3.2 Consensus size: 11
1206944 ATTTCATCCC
1206954 AAAAAG-GAAT
1 AAAAAGAGAAT
1206964 AAAAAGAGAAT
1 AAAAAGAGAAT
1206975 AAAAAGAGAAT
1 AAAAAGAGAAT
1206986 AA
1 AA
1206988 TTGATCTATA
Statistics
Matches: 23, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
10 6 0.26
11 17 0.74
ACGTcount: A:0.74, C:0.00, G:0.18, T:0.09
Consensus pattern (11 bp):
AAAAAGAGAAT
Found at i:1208967 original size:28 final size:27
Alignment explanation
Indices: 1208936--1208989 Score: 72
Period size: 28 Copynumber: 2.0 Consensus size: 27
1208926 AACTTATTTA
*
1208936 CAAACCGGGCCCAAATCAAACACAAACT
1 CAAACCGGGCCCAAACCAAACA-AAACT
* *
1208964 CAAACCGTGCCCTAACCAAACAAAAC
1 CAAACCGGGCCCAAACCAAACAAAAC
1208990 CCGAGTCCAA
Statistics
Matches: 23, Mismatches: 3, Indels: 1
0.85 0.11 0.04
Matches are distributed among these distances:
27 4 0.17
28 19 0.83
ACGTcount: A:0.46, C:0.37, G:0.09, T:0.07
Consensus pattern (27 bp):
CAAACCGGGCCCAAACCAAACAAAACT
Found at i:1221062 original size:54 final size:54
Alignment explanation
Indices: 1220999--1221294 Score: 396
Period size: 54 Copynumber: 5.5 Consensus size: 54
1220989 ATAAGTTATT
* * * * * *
1220999 TGGGGTGCACACGTAGTGGT-GATACGGTCATTCATAAGCTCATTATGAATTTCA
1 TGGGTTGCACACTTAGT-GTCGATACGGTCGTTCATAAACTTATTATGAATTCCA
* * *
1221053 TGGGTTGCACACTTAGTATCGATACGGTCGTTCATAAACTTATTATGAATTACG
1 TGGGTTGCACACTTAGTGTCGATACGGTCGTTCATAAACTTATTATGAATTCCA
* ** *
1221107 TGTGTTGCACACTTAGTACCGATACGGTCGTTCATAAACTTATTATGAATTCCT
1 TGGGTTGCACACTTAGTGTCGATACGGTCGTTCATAAACTTATTATGAATTCCA
* *
1221161 TGGGTTGCACACTTAGTGTCTATACGGTCGTTCATAAACTTATTATAAATTCCA
1 TGGGTTGCACACTTAGTGTCGATACGGTCGTTCATAAACTTATTATGAATTCCA
* * * * *
1221215 TGGGTTGCACACTTAGTTTCGATACGGTCATTTATAAACTTATTATGAATTTCG
1 TGGGTTGCACACTTAGTGTCGATACGGTCGTTCATAAACTTATTATGAATTCCA
1221269 TGGGTTGCACACTTAGTGTCGATACG
1 TGGGTTGCACACTTAGTGTCGATACG
1221295 TAAAAATGCA
Statistics
Matches: 215, Mismatches: 26, Indels: 2
0.88 0.11 0.01
Matches are distributed among these distances:
53 1 0.00
54 214 1.00
ACGTcount: A:0.26, C:0.18, G:0.21, T:0.36
Consensus pattern (54 bp):
TGGGTTGCACACTTAGTGTCGATACGGTCGTTCATAAACTTATTATGAATTCCA
Found at i:1221147 original size:27 final size:26
Alignment explanation
Indices: 1221063--1221148 Score: 70
Period size: 27 Copynumber: 3.2 Consensus size: 26
1221053 TGGGTTGCAC
1221063 ACTTAGTATCGATACGGTCGTTCATAA
1 ACTTAGTA-CGATACGGTCGTTCATAA
* * *
1221090 ACTTATTATGAATTACGTGT-GTTGC--AC
1 ACTTAGTACG-A-TACG-GTCGTT-CATAA
1221117 ACTTAGTACCGATACGGTCGTTCATAA
1 ACTTAGTA-CGATACGGTCGTTCATAA
1221144 ACTTA
1 ACTTA
1221149 TTATGAATTC
Statistics
Matches: 45, Mismatches: 6, Indels: 16
0.67 0.09 0.24
Matches are distributed among these distances:
25 3 0.07
26 8 0.18
27 23 0.51
28 8 0.18
29 3 0.07
ACGTcount: A:0.29, C:0.19, G:0.17, T:0.35
Consensus pattern (26 bp):
ACTTAGTACGATACGGTCGTTCATAA
Found at i:1221278 original size:162 final size:162
Alignment explanation
Indices: 1220998--1221294 Score: 443
Period size: 162 Copynumber: 1.8 Consensus size: 162
1220988 TATAAGTTAT
* * *
1220998 TTGGGGTGCACACGTAGTGGTGATACGGTCATTCATAAGCTCATTATGAATTTCATGGGTTGCAC
1 TTGGGGTGCACACGTAGTGGTGATACGGTCATTCATAAACTCATTATAAATTCCATGGGTTGCAC
* *
1221063 ACTTAGTATCGATACGGTCGTTCATAAACTTATTATGAATTACGTGTGTTGCACACTTAGTACCG
66 ACTTAGTATCGATACGGTCATTCATAAACTTATTATGAATTACGTGGGTTGCACACTTAGTACCG
1221128 ATACGGTCGTTCATAAACTTATTATGAATTCC
131 ATACGGTCGTTCATAAACTTATTATGAATTCC
* * * * *
1221160 TTGGGTTGCACACTTAGT-GTCTATACGGTCGTTCATAAACTTATTATAAATTCCATGGGTTGCA
1 TTGGGGTGCACACGTAGTGGT-GATACGGTCATTCATAAACTCATTATAAATTCCATGGGTTGCA
* * * **
1221224 CACTTAGTTTCGATACGGTCATTTATAAACTTATTATGAATTTCGTGGGTTGCACACTTAGTGTC
65 CACTTAGTATCGATACGGTCATTCATAAACTTATTATGAATTACGTGGGTTGCACACTTAGTACC
1221289 GATACG
130 GATACG
1221295 TAAAAATGCA
Statistics
Matches: 119, Mismatches: 15, Indels: 2
0.88 0.11 0.01
Matches are distributed among these distances:
161 2 0.02
162 117 0.98
ACGTcount: A:0.26, C:0.18, G:0.21, T:0.36
Consensus pattern (162 bp):
TTGGGGTGCACACGTAGTGGTGATACGGTCATTCATAAACTCATTATAAATTCCATGGGTTGCAC
ACTTAGTATCGATACGGTCATTCATAAACTTATTATGAATTACGTGGGTTGCACACTTAGTACCG
ATACGGTCGTTCATAAACTTATTATGAATTCC
Found at i:1223314 original size:22 final size:22
Alignment explanation
Indices: 1223289--1223330 Score: 66
Period size: 22 Copynumber: 1.9 Consensus size: 22
1223279 AGAATTAAGT
1223289 GGATGATGATGGTCTTGATGGA
1 GGATGATGATGGTCTTGATGGA
* *
1223311 GGATGTTGATGGTGTTGATG
1 GGATGATGATGGTCTTGATG
1223331 TTGAAATGGA
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
22 18 1.00
ACGTcount: A:0.19, C:0.02, G:0.43, T:0.36
Consensus pattern (22 bp):
GGATGATGATGGTCTTGATGGA
Found at i:1227507 original size:23 final size:23
Alignment explanation
Indices: 1227461--1227517 Score: 80
Period size: 24 Copynumber: 2.4 Consensus size: 23
1227451 TTTCCTTGGC
*
1227461 TTTTCTTCTTCTTTTTTGAAATTA
1 TTTTCTTCTTATTTTTTG-AATTA
1227485 TTTTCTTCTTATTTTTCTG-ATTA
1 TTTTCTTCTTATTTTT-TGAATTA
1227508 TTTTCTTCTT
1 TTTTCTTCTT
1227518 TTTGTCTTTG
Statistics
Matches: 31, Mismatches: 1, Indels: 3
0.89 0.03 0.09
Matches are distributed among these distances:
23 14 0.45
24 15 0.48
25 2 0.06
ACGTcount: A:0.12, C:0.14, G:0.04, T:0.70
Consensus pattern (23 bp):
TTTTCTTCTTATTTTTTGAATTA
Found at i:1227590 original size:17 final size:18
Alignment explanation
Indices: 1227557--1227591 Score: 54
Period size: 19 Copynumber: 1.9 Consensus size: 18
1227547 GGAGCCTTTA
1227557 TTTTCTTTTTGAACTTCTT
1 TTTTCTTTTTG-ACTTCTT
1227576 TTTTCTTTTTG-CTTCT
1 TTTTCTTTTTGACTTCT
1227592 ATTGTTTTCA
Statistics
Matches: 16, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
17 5 0.31
19 11 0.69
ACGTcount: A:0.06, C:0.17, G:0.06, T:0.71
Consensus pattern (18 bp):
TTTTCTTTTTGACTTCTT
Found at i:1227889 original size:22 final size:22
Alignment explanation
Indices: 1227864--1227905 Score: 59
Period size: 22 Copynumber: 1.9 Consensus size: 22
1227854 GGAATTAAGT
1227864 GGATGATT-ATGGTCTTGATGGA
1 GGATG-TTGATGGTCTTGATGGA
*
1227886 GGATGTTGATGGTGTTGATG
1 GGATGTTGATGGTCTTGATG
1227906 TTGAAATGGA
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
21 2 0.11
22 16 0.89
ACGTcount: A:0.19, C:0.02, G:0.40, T:0.38
Consensus pattern (22 bp):
GGATGTTGATGGTCTTGATGGA
Found at i:1231128 original size:3 final size:3
Alignment explanation
Indices: 1231120--1231171 Score: 104
Period size: 3 Copynumber: 17.3 Consensus size: 3
1231110 TAGAAAAATG
1231120 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA
1 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA
1231168 TAA T
1 TAA T
1231172 TGTCGCAACC
Statistics
Matches: 49, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 49 1.00
ACGTcount: A:0.65, C:0.00, G:0.00, T:0.35
Consensus pattern (3 bp):
TAA
Found at i:1232172 original size:18 final size:17
Alignment explanation
Indices: 1232149--1232191 Score: 61
Period size: 18 Copynumber: 2.5 Consensus size: 17
1232139 ATATATACAT
1232149 ATAATAATAATAACATGA
1 ATAATAATAATAA-ATGA
*
1232167 ATAATAAAAATAAATGA
1 ATAATAATAATAAATGA
1232184 ATAA-AATA
1 ATAATAATA
1232192 TCCATATAAT
Statistics
Matches: 23, Mismatches: 2, Indels: 2
0.85 0.07 0.07
Matches are distributed among these distances:
16 3 0.13
17 8 0.35
18 12 0.52
ACGTcount: A:0.67, C:0.02, G:0.05, T:0.26
Consensus pattern (17 bp):
ATAATAATAATAAATGA
Found at i:1233477 original size:105 final size:105
Alignment explanation
Indices: 1233285--1234008 Score: 1104
Period size: 105 Copynumber: 7.0 Consensus size: 105
1233275 GCATTGTTCA
* **
1233285 GAGTCCAATATCCTCCGTTGTGAAGTTGAAATTGAATCTG-AA-TGA-AA-TT-TTGTTGACAAG
1 GAGTCCAATATCCTTCGTTGTGAAGTTGAAATTGGCTCTGAAATTGAGAAGTTGTTGTTGACAAG
1233345 CAGCGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCTG
66 CAGCGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCTG
* *
1233385 GAGTCCAATATCCTTCGTTGTGAAGTTGAAATTGGCTCTGAGATTGGGAAGTTGTTGTTGACAAG
1 GAGTCCAATATCCTTCGTTGTGAAGTTGAAATTGGCTCTGAAATTGAGAAGTTGTTGTTGACAAG
* *
1233450 CAGCGGTCCTTTCGTCGTGAAGTTGAACTTGCATTGTCTG
66 CAGCGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCTG
** *
1233490 GAGTCCAATATCCTTCGTTGTGAAGTTGAAATTGGCTCTGCGATTGGGAAGTTGTTGTTGACAAG
1 GAGTCCAATATCCTTCGTTGTGAAGTTGAAATTGGCTCTGAAATTGAGAAGTTGTTGTTGACAAG
* *
1233555 CAACGGTCCCTTCGTCGTGAAGTTGAACTTGCATTGTCTG
66 CAGCGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCTG
*
1233595 AAGTCCAATATCCTTCGTTGTGAAGTTGAAATTGGCTCTGAAATTGAGAAGTTGTTGTTGACAAG
1 GAGTCCAATATCCTTCGTTGTGAAGTTGAAATTGGCTCTGAAATTGAGAAGTTGTTGTTGACAAG
*
1233660 AAGCGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCTG
66 CAGCGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCTG
* ** * * *
1233700 AAGTCCAATATCCTTTATTGTGAAGTTGAAATTGGTTATGAAATTGAGAA---GTTGTTGACAGG
1 GAGTCCAATATCCTTCGTTGTGAAGTTGAAATTGGCTCTGAAATTGAGAAGTTGTTGTTGACAAG
*
1233762 CAGCGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTTTG
66 CAGCGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCTG
* * *
1233802 AAGTCCAATATCCTTCATTGTGAAGTTGAAATTGGCTCTGAAATTGAGAAGTTGTTGTTGACAGG
1 GAGTCCAATATCCTTCGTTGTGAAGTTGAAATTGGCTCTGAAATTGAGAAGTTGTTGTTGACAAG
1233867 CAGCGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCTG
66 CAGCGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCTG
*
1233907 GAGTCCAATATCCTTCGTTGTGAAGTTGAAATTGGCTCTGAAATTGAGAATTTGTTTGTTGACAA
1 GAGTCCAATATCCTTCGTTGTGAAGTTGAAATTGGCTCTGAAATTGAGAAGTTG-TTGTTGACAA
* ** * * *
1233972 CCAGTTGTCCCTTCTTTGTGAAGTTGAACTTGTGTTG
65 GCAGCGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTG
1234009 CCTCGAGTGC
Statistics
Matches: 577, Mismatches: 38, Indels: 12
0.92 0.06 0.02
Matches are distributed among these distances:
100 37 0.06
101 1 0.00
102 98 0.17
103 2 0.00
104 2 0.00
105 397 0.69
106 40 0.07
ACGTcount: A:0.23, C:0.16, G:0.26, T:0.35
Consensus pattern (105 bp):
GAGTCCAATATCCTTCGTTGTGAAGTTGAAATTGGCTCTGAAATTGAGAAGTTGTTGTTGACAAG
CAGCGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCTG
Found at i:1233813 original size:207 final size:208
Alignment explanation
Indices: 1233285--1234008 Score: 1105
Period size: 207 Copynumber: 3.5 Consensus size: 208
1233275 GCATTGTTCA
* ** *
1233285 GAGTCCAATATCCTCCGTTGTGAAGTTGAAATTGAATCTG-AA-TGA-AATTTTGTTGACAAGCA
1 GAGTCCAATATCCTTCGTTGTGAAGTTGAAATTGGCTCTGAAATTGAGAATGTTGTTGACAAGCA
*
1233347 GCGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCTGGAGTCCAATATCCTTCGTTGTGAAGTT
66 GCGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCTGAAGTCCAATATCCTTCGTTGTGAAGTT
* * *
1233412 GAAATTGGCTCTGAGATTGGGAAGTTGTTGTTGACAAGCAGCGGTCCTTTCGTCGTGAAGTTGAA
131 GAAATTGGCTCTGAAATTGAGAAGTTGTTGTTGACAAGCAGCGGTCCCTTCGTCGTGAAGTTGAA
*
1233477 CTTGCATTGTCTG
196 CTTGCGTTGTCTG
** *
1233490 GAGTCCAATATCCTTCGTTGTGAAGTTGAAATTGGCTCTGCGATTGGGAAGTTGTTGTTGACAAG
1 GAGTCCAATATCCTTCGTTGTGAAGTTGAAATTGGCTCTGAAATTGAGAA--TGTTGTTGACAAG
* *
1233555 CAACGGTCCCTTCGTCGTGAAGTTGAACTTGCATTGTCTGAAGTCCAATATCCTTCGTTGTGAAG
64 CAGCGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCTGAAGTCCAATATCCTTCGTTGTGAAG
*
1233620 TTGAAATTGGCTCTGAAATTGAGAAGTTGTTGTTGACAAGAAGCGGTCCCTTCGTCGTGAAGTTG
129 TTGAAATTGGCTCTGAAATTGAGAAGTTGTTGTTGACAAGCAGCGGTCCCTTCGTCGTGAAGTTG
1233685 AACTTGCGTTGTCTG
194 AACTTGCGTTGTCTG
* ** * * *
1233700 AAGTCCAATATCCTTTATTGTGAAGTTGAAATTGGTTATGAAATTGAGAA-GTTGTTGACAGGCA
1 GAGTCCAATATCCTTCGTTGTGAAGTTGAAATTGGCTCTGAAATTGAGAATGTTGTTGACAAGCA
* *
1233764 GCGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTTTGAAGTCCAATATCCTTCATTGTGAAGTT
66 GCGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCTGAAGTCCAATATCCTTCGTTGTGAAGTT
*
1233829 GAAATTGGCTCTGAAATTGAGAAGTTGTTGTTGACAGGCAGCGGTCCCTTCGTCGTGAAGTTGAA
131 GAAATTGGCTCTGAAATTGAGAAGTTGTTGTTGACAAGCAGCGGTCCCTTCGTCGTGAAGTTGAA
1233894 CTTGCGTTGTCTG
196 CTTGCGTTGTCTG
1233907 GAGTCCAATATCCTTCGTTGTGAAGTTGAAATTGGCTCTGAAATTGAGAATTTGTTTGTTGACAA
1 GAGTCCAATATCCTTCGTTGTGAAGTTGAAATTGGCTCTGAAATTGAGAA--TG-TTGTTGACAA
* ** * * *
1233972 CCAGTTGTCCCTTCTTTGTGAAGTTGAACTTGTGTTG
63 GCAGCGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTG
1234009 CCTCGAGTGC
Statistics
Matches: 469, Mismatches: 41, Indels: 12
0.90 0.08 0.02
Matches are distributed among these distances:
205 37 0.08
206 1 0.00
207 197 0.42
208 2 0.00
210 192 0.41
211 40 0.09
ACGTcount: A:0.23, C:0.16, G:0.26, T:0.35
Consensus pattern (208 bp):
GAGTCCAATATCCTTCGTTGTGAAGTTGAAATTGGCTCTGAAATTGAGAATGTTGTTGACAAGCA
GCGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCTGAAGTCCAATATCCTTCGTTGTGAAGTT
GAAATTGGCTCTGAAATTGAGAAGTTGTTGTTGACAAGCAGCGGTCCCTTCGTCGTGAAGTTGAA
CTTGCGTTGTCTG
Found at i:1233860 original size:312 final size:312
Alignment explanation
Indices: 1233286--1234008 Score: 1096
Period size: 312 Copynumber: 2.3 Consensus size: 312
1233276 CATTGTTCAG
* **
1233286 AGTCCAATATCCTCCGTTGTGAAGTTGAAATTGAATCTG-AA-TGA-AATT-TTGTTGACAAGCA
1 AGTCCAATATCCTTCGTTGTGAAGTTGAAATTGGCTCTGAAATTGAGAATTGTTGTTGACAAGCA
* *
1233347 GCGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCTGGAGTCCAATATCCTTCGTTGTGAAGTT
66 GCGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCTGAAGTCCAATATCCTTCATTGTGAAGTT
* * * *
1233412 GAAATTGGCTCTGAGATTGGGAAGTTGTTGTTGACAAGCAGCGGTCCTTTCGTCGTGAAGTTGAA
131 GAAATTGGCTATGAAATTGAGAA--TGTTGTTGACAAGCAGCGGTCCCTTCGTCGTGAAGTTGAA
* * ** *
1233477 CTTGCATTGTCTGGAGTCCAATATCCTTCGTTGTGAAGTTGAAATTGGCTCTGCGATTGGGAAGT
194 CTTGCATTGTCTGAAGTCCAATATCCTTCATTGTGAAGTTGAAATTGGCTCTGAAATTGAGAAGT
1233542 TGTTGTTGACAAGCAACGGTCCCTTCGTCGTGAAGTTGAACTTGCATTGTCTGA
259 TGTTGTTGACAAGCAACGGTCCCTTCGTCGTGAAGTTGAACTTGCATTGTCTGA
*
1233596 AGTCCAATATCCTTCGTTGTGAAGTTGAAATTGGCTCTGAAATTGAGAAGTTGTTGTTGACAAGA
1 AGTCCAATATCCTTCGTTGTGAAGTTGAAATTGGCTCTGAAATTGAGAA-TTGTTGTTGACAAGC
*
1233661 AGCGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCTGAAGTCCAATATCCTTTATTGTGAAGT
65 AGCGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCTGAAGTCCAATATCCTTCATTGTGAAGT
* *
1233726 TGAAATTGGTTATGAAATTGAGAA-GTTGTTGACAGGCAGCGGTCCCTTCGTCGTGAAGTTGAAC
130 TGAAATTGGCTATGAAATTGAGAATGTTGTTGACAAGCAGCGGTCCCTTCGTCGTGAAGTTGAAC
* *
1233790 TTGCGTTGTTTGAAGTCCAATATCCTTCATTGTGAAGTTGAAATTGGCTCTGAAATTGAGAAGTT
195 TTGCATTGTCTGAAGTCCAATATCCTTCATTGTGAAGTTGAAATTGGCTCTGAAATTGAGAAGTT
* * * *
1233855 GTTGTTGACAGGCAGCGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCTGG
260 GTTGTTGACAAGCAACGGTCCCTTCGTCGTGAAGTTGAACTTGCATTGTCTGA
*
1233908 AGTCCAATATCCTTCGTTGTGAAGTTGAAATTGGCTCTGAAATTGAGAATTTGTTTGTTGACAAC
1 AGTCCAATATCCTTCGTTGTGAAGTTGAAATTGGCTCTGAAATTGAGAA-TTG-TTGTTGACAAG
** * * *
1233973 CAGTTGTCCCTTCTTTGTGAAGTTGAACTTGTGTTG
64 CAGCGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTG
1234009 CCTCGAGTGC
Statistics
Matches: 375, Mismatches: 32, Indels: 9
0.90 0.08 0.02
Matches are distributed among these distances:
310 36 0.10
311 2 0.01
312 200 0.53
313 42 0.11
314 2 0.01
315 93 0.25
ACGTcount: A:0.23, C:0.16, G:0.26, T:0.35
Consensus pattern (312 bp):
AGTCCAATATCCTTCGTTGTGAAGTTGAAATTGGCTCTGAAATTGAGAATTGTTGTTGACAAGCA
GCGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCTGAAGTCCAATATCCTTCATTGTGAAGTT
GAAATTGGCTATGAAATTGAGAATGTTGTTGACAAGCAGCGGTCCCTTCGTCGTGAAGTTGAACT
TGCATTGTCTGAAGTCCAATATCCTTCATTGTGAAGTTGAAATTGGCTCTGAAATTGAGAAGTTG
TTGTTGACAAGCAACGGTCCCTTCGTCGTGAAGTTGAACTTGCATTGTCTGA
Found at i:1234786 original size:67 final size:66
Alignment explanation
Indices: 1234651--1234808 Score: 203
Period size: 68 Copynumber: 2.4 Consensus size: 66
1234641 AAGATATCTG
* * **
1234651 TTGTTTCATGAGAAACGGTCTCAAGGGAAACAAAATTATGTTTTAAGGGAAATAAATTTGAAGAT
1 TTGTTTCAAGAGAAACTGTCTCAAGGGAAACAAAATTATGTTTTAAGGGAAATAAATTCAAAGA-
1234716 TT
65 TT
* *
1234718 TGTGTTTCAAGAGTAACTGTCTCAAGGGAGAA-AAAATT-TGTTTTAGGGGAAATAAATTCAAAG
1 T-TGTTTCAAGAGAAACTGTCTCAAGGGA-AACAAAATTATGTTTTAAGGGAAATAAATTCAAAG
*
1234781 GTT
64 ATT
*
1234784 TTGTTTCAAGGGAAACTGTCTCAAG
1 TTGTTTCAAGAGAAACTGTCTCAAG
1234809 ATAGACGAAA
Statistics
Matches: 80, Mismatches: 9, Indels: 6
0.84 0.09 0.06
Matches are distributed among these distances:
65 22 0.28
66 3 0.04
67 23 0.29
68 30 0.38
69 2 0.03
ACGTcount: A:0.36, C:0.09, G:0.23, T:0.32
Consensus pattern (66 bp):
TTGTTTCAAGAGAAACTGTCTCAAGGGAAACAAAATTATGTTTTAAGGGAAATAAATTCAAAGAT
T
Found at i:1234835 original size:36 final size:36
Alignment explanation
Indices: 1234784--1234907 Score: 160
Period size: 36 Copynumber: 3.4 Consensus size: 36
1234774 TTCAAAGGTT
*
1234784 TTGTTTCAAGGGAAACTGTCTCAAGATAGACGAAAA
1 TTGTTTCAAGGGAAACTGTCTCAAGAGAGACGAAAA
* *
1234820 TTGTTTCAAGAGAAACTGTCTTAAGAGAGAC-AAAA
1 TTGTTTCAAGGGAAACTGTCTCAAGAGAGACGAAAA
* * *
1234855 CTTAGTTCCAAGGGAAACTATCTCAAGAGAGACGAAAT
1 -TT-GTTTCAAGGGAAACTGTCTCAAGAGAGACGAAAA
*
1234893 TTATTTCAAGGGAAA
1 TTGTTTCAAGGGAAA
1234908 TGTTTTCAAT
Statistics
Matches: 75, Mismatches: 10, Indels: 6
0.82 0.11 0.07
Matches are distributed among these distances:
35 4 0.05
36 41 0.55
37 27 0.36
38 3 0.04
ACGTcount: A:0.40, C:0.14, G:0.21, T:0.25
Consensus pattern (36 bp):
TTGTTTCAAGGGAAACTGTCTCAAGAGAGACGAAAA
Found at i:1235897 original size:22 final size:22
Alignment explanation
Indices: 1235872--1235915 Score: 72
Period size: 22 Copynumber: 2.0 Consensus size: 22
1235862 CATTTTTGTT
1235872 CATTTGATGCT-AAATGGTTTGA
1 CATTTGATGCTCAAA-GGTTTGA
1235894 CATTTGATGCTCAAAGGTTTGA
1 CATTTGATGCTCAAAGGTTTGA
1235916 TGGGGTAGCT
Statistics
Matches: 21, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
22 18 0.86
23 3 0.14
ACGTcount: A:0.27, C:0.11, G:0.23, T:0.39
Consensus pattern (22 bp):
CATTTGATGCTCAAAGGTTTGA
Found at i:1236539 original size:16 final size:15
Alignment explanation
Indices: 1236520--1236577 Score: 55
Period size: 15 Copynumber: 3.7 Consensus size: 15
1236510 TTTTTTATCC
1236520 CTTTTTATTTTTTGTT
1 CTTTTT-TTTTTTGTT
*
1236536 CTTTCTTTTTTTGTT
1 CTTTTTTTTTTTGTT
*
1236551 -TTCTTCTTTTTTGCTT
1 CTT-TTTTTTTTTG-TT
1236567 CTTTCTTTTTT
1 CTTT-TTTTTT
1236578 GGTTTTTGCC
Statistics
Matches: 34, Mismatches: 4, Indels: 7
0.76 0.09 0.16
Matches are distributed among these distances:
14 2 0.06
15 17 0.50
16 8 0.24
17 7 0.21
ACGTcount: A:0.02, C:0.14, G:0.05, T:0.79
Consensus pattern (15 bp):
CTTTTTTTTTTTGTT
Found at i:1236544 original size:31 final size:31
Alignment explanation
Indices: 1236509--1236577 Score: 79
Period size: 31 Copynumber: 2.2 Consensus size: 31
1236499 TTTGCATGTG
1236509 CTTTTTTATCCCTTT-TTATTTTTTG-TTCTTT
1 CTTTTTT-T-CCTTTCTTATTTTTTGCTTCTTT
** *
1236540 CTTTTTTTGTTTTCTTCTTTTTTGCTTCTTT
1 CTTTTTTTCCTTTCTTATTTTTTGCTTCTTT
1236571 CTTTTTT
1 CTTTTTT
1236578 GGTTTTTGCC
Statistics
Matches: 33, Mismatches: 3, Indels: 4
0.82 0.08 0.10
Matches are distributed among these distances:
29 3 0.09
30 10 0.30
31 20 0.61
ACGTcount: A:0.03, C:0.16, G:0.04, T:0.77
Consensus pattern (31 bp):
CTTTTTTTCCTTTCTTATTTTTTGCTTCTTT
Found at i:1236545 original size:20 final size:20
Alignment explanation
Indices: 1236520--1236559 Score: 55
Period size: 20 Copynumber: 2.0 Consensus size: 20
1236510 TTTTTTATCC
*
1236520 CTTTTTATT-TTTTGTTCTTT
1 CTTTTT-TTGTTTTCTTCTTT
1236540 CTTTTTTTGTTTTCTTCTTT
1 CTTTTTTTGTTTTCTTCTTT
1236560 TTTGCTTCTT
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
19 2 0.11
20 16 0.89
ACGTcount: A:0.03, C:0.12, G:0.05, T:0.80
Consensus pattern (20 bp):
CTTTTTTTGTTTTCTTCTTT
Found at i:1236578 original size:15 final size:14
Alignment explanation
Indices: 1236527--1236578 Score: 68
Period size: 15 Copynumber: 3.5 Consensus size: 14
1236517 TCCCTTTTTA
1236527 TTTTTTGTTCTTTC
1 TTTTTTGTTCTTTC
*
1236541 TTTTTTTGTTTTCTTC
1 -TTTTTTGTTCT-TTC
1236557 TTTTTTGCTTCTTTC
1 TTTTTTG-TTCTTTC
1236572 TTTTTTG
1 TTTTTTG
1236579 GTTTTTGCCC
Statistics
Matches: 33, Mismatches: 2, Indels: 4
0.85 0.05 0.10
Matches are distributed among these distances:
15 27 0.82
16 6 0.18
ACGTcount: A:0.00, C:0.13, G:0.08, T:0.79
Consensus pattern (14 bp):
TTTTTTGTTCTTTC
Found at i:1237775 original size:8 final size:8
Alignment explanation
Indices: 1237759--1237797 Score: 53
Period size: 8 Copynumber: 5.0 Consensus size: 8
1237749 AATGTAGATG
1237759 AAAATGCA
1 AAAATGCA
*
1237767 AAAAGGCA
1 AAAATGCA
1237775 AAAATGC-
1 AAAATGCA
1237782 AAAATGCA
1 AAAATGCA
*
1237790 AGAATGCA
1 AAAATGCA
1237798 TGAAATGTTC
Statistics
Matches: 27, Mismatches: 3, Indels: 2
0.84 0.09 0.06
Matches are distributed among these distances:
7 7 0.26
8 20 0.74
ACGTcount: A:0.59, C:0.13, G:0.18, T:0.10
Consensus pattern (8 bp):
AAAATGCA
Found at i:1237785 original size:15 final size:15
Alignment explanation
Indices: 1237759--1237797 Score: 51
Period size: 15 Copynumber: 2.5 Consensus size: 15
1237749 AATGTAGATG
1237759 AAAATGCAAAAAGGCA
1 AAAATGC-AAAAGGCA
*
1237775 AAAATGCAAAATGCA
1 AAAATGCAAAAGGCA
*
1237790 AGAATGCA
1 AAAATGCA
1237798 TGAAATGTTC
Statistics
Matches: 21, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
15 14 0.67
16 7 0.33
ACGTcount: A:0.59, C:0.13, G:0.18, T:0.10
Consensus pattern (15 bp):
AAAATGCAAAAGGCA
Found at i:1239163 original size:5 final size:5
Alignment explanation
Indices: 1239153--1239184 Score: 57
Period size: 5 Copynumber: 6.6 Consensus size: 5
1239143 GCAAGTGATG
1239153 AAAAT AAAAT AAAAT -AAAT AAAAT AAAAT AAA
1 AAAAT AAAAT AAAAT AAAAT AAAAT AAAAT AAA
1239185 GATGAAAAGA
Statistics
Matches: 26, Mismatches: 0, Indels: 2
0.93 0.00 0.07
Matches are distributed among these distances:
4 4 0.15
5 22 0.85
ACGTcount: A:0.81, C:0.00, G:0.00, T:0.19
Consensus pattern (5 bp):
AAAAT
Found at i:1239173 original size:14 final size:14
Alignment explanation
Indices: 1239154--1239184 Score: 62
Period size: 14 Copynumber: 2.2 Consensus size: 14
1239144 CAAGTGATGA
1239154 AAATAAAATAAAAT
1 AAATAAAATAAAAT
1239168 AAATAAAATAAAAT
1 AAATAAAATAAAAT
1239182 AAA
1 AAA
1239185 GATGAAAAGA
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 17 1.00
ACGTcount: A:0.81, C:0.00, G:0.00, T:0.19
Consensus pattern (14 bp):
AAATAAAATAAAAT
Found at i:1240369 original size:2 final size:2
Alignment explanation
Indices: 1240358--1240403 Score: 83
Period size: 2 Copynumber: 23.0 Consensus size: 2
1240348 AAAGGAAAAA
*
1240358 AT AT AA AT AT 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 AT AT AT AT AT
1240400 AT AT
1 AT AT
1240404 CAAAGTATTA
Statistics
Matches: 42, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
2 42 1.00
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (2 bp):
AT
Found at i:1240923 original size:18 final size:17
Alignment explanation
Indices: 1240900--1240942 Score: 61
Period size: 18 Copynumber: 2.5 Consensus size: 17
1240890 ATATATACAT
1240900 ATAATAATAATAACATGA
1 ATAATAATAATAA-ATGA
*
1240918 ATAATAAAAATAAATGA
1 ATAATAATAATAAATGA
1240935 ATAA-AATA
1 ATAATAATA
1240943 TCCATATAAT
Statistics
Matches: 23, Mismatches: 2, Indels: 2
0.85 0.07 0.07
Matches are distributed among these distances:
16 3 0.13
17 8 0.35
18 12 0.52
ACGTcount: A:0.67, C:0.02, G:0.05, T:0.26
Consensus pattern (17 bp):
ATAATAATAATAAATGA
Found at i:1241972 original size:36 final size:36
Alignment explanation
Indices: 1241932--1242073 Score: 230
Period size: 36 Copynumber: 3.9 Consensus size: 36
1241922 AAACCAAAAG
*
1241932 ATAAGTCTATTCACCAAGTGGCATAACTTATTATTA
1 ATAAGTCTATTCACCAAGTGACATAACTTATTATTA
*
1241968 ATAAGTCTATTCACCAAGTAACATAACTTATTATTA
1 ATAAGTCTATTCACCAAGTGACATAACTTATTATTA
*
1242004 ATAAGTCTATTCACCAAGTGGCATAACTTATTATTA
1 ATAAGTCTATTCACCAAGTGACATAACTTATTATTA
* * *
1242040 ATAAGTCTTTTCACCAAGTGACATGATTTATTAT
1 ATAAGTCTATTCACCAAGTGACATAACTTATTAT
1242074 AAAGAGCATC
Statistics
Matches: 98, Mismatches: 8, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
36 98 1.00
ACGTcount: A:0.37, C:0.16, G:0.10, T:0.37
Consensus pattern (36 bp):
ATAAGTCTATTCACCAAGTGACATAACTTATTATTA
Found at i:1243523 original size:57 final size:55
Alignment explanation
Indices: 1243432--1243581 Score: 140
Period size: 57 Copynumber: 2.6 Consensus size: 55
1243422 ATATAAAAAT
* * * * * *
1243432 AGATGAGAAATTGAGA-ATTTTATAGAGTTGAAAAATTCAGGAGCCCTCACTTATAA
1 AGAT-AGAAAATGAGATATTTTATAAAATTAAAAAATTAAGG-GCCCTCAATTATAA
*
1243488 AGATAGAAAGTGAGATGATTTTATAAAATTAAAAAAATTAAGGGCCCTCAATTATAA
1 AGATAGAAAATGAGAT-ATTTTATAAAATT-AAAAAATTAAGGGCCCTCAATTATAA
* * **
1243545 AGGTAGAAAATGGGGATAATTTTATATGATTAAAAAA
1 AGATAGAAAAT-GAGAT-ATTTTATAAAATTAAAAAA
1243582 GTGAGAGGCC
Statistics
Matches: 78, Mismatches: 12, Indels: 7
0.80 0.12 0.07
Matches are distributed among these distances:
55 10 0.13
56 4 0.05
57 39 0.50
58 25 0.32
ACGTcount: A:0.46, C:0.07, G:0.19, T:0.29
Consensus pattern (55 bp):
AGATAGAAAATGAGATATTTTATAAAATTAAAAAATTAAGGGCCCTCAATTATAA
Found at i:1243577 original size:58 final size:57
Alignment explanation
Indices: 1243447--1243640 Score: 183
Period size: 58 Copynumber: 3.4 Consensus size: 57
1243437 AGAAATTGAG
* * * * * * *
1243447 AATTTTATAGAGTTGAAAAATTCAGGAGCCCTCACTTATAAAGATAGAAAGT-GAGAT
1 AATTTTATAAAATTAAAAAATTAAGG-GCCCTCAATTATAAAGGTAGAAAGTGGGGAT
* *
1243504 GATTTTATAAAATTAAAAAAATTAAGGGCCCTCAATTATAAAGGTAGAAAATGGGGAT
1 AATTTTATAAAATT-AAAAAATTAAGGGCCCTCAATTATAAAGGTAGAAAGTGGGGAT
** * * * * * * *
1243562 AATTTTATATGATTAAAAAAGTGAGAGGCCCTTAATAATTAAGGTACAAAGTGGGGAC
1 AATTTTATAAAATTAAAAAATTAAG-GGCCCTCAATTATAAAGGTAGAAAGTGGGGAT
*
1243620 AATTTTAAAAAATTAAAAAAT
1 AATTTTATAAAATTAAAAAAT
1243641 ATATATATAG
Statistics
Matches: 110, Mismatches: 24, Indels: 5
0.79 0.17 0.04
Matches are distributed among these distances:
57 42 0.38
58 68 0.62
ACGTcount: A:0.46, C:0.08, G:0.18, T:0.28
Consensus pattern (57 bp):
AATTTTATAAAATTAAAAAATTAAGGGCCCTCAATTATAAAGGTAGAAAGTGGGGAT
Found at i:1244691 original size:18 final size:19
Alignment explanation
Indices: 1244668--1244712 Score: 51
Period size: 17 Copynumber: 2.5 Consensus size: 19
1244658 AAATTTATGA
*
1244668 AATTAAATTGAA-ATT-AG
1 AATTAAATTAAAGATTAAG
1244685 AACTT-AATTAAAGATTAAG
1 AA-TTAAATTAAAGATTAAG
1244704 AATTAAATT
1 AATTAAATT
1244713 TAATCTTGGC
Statistics
Matches: 23, Mismatches: 1, Indels: 6
0.77 0.03 0.20
Matches are distributed among these distances:
17 8 0.35
18 7 0.30
19 8 0.35
ACGTcount: A:0.53, C:0.02, G:0.09, T:0.36
Consensus pattern (19 bp):
AATTAAATTAAAGATTAAG
Found at i:1247055 original size:21 final size:22
Alignment explanation
Indices: 1247019--1247060 Score: 59
Period size: 21 Copynumber: 2.0 Consensus size: 22
1247009 ATAAATAAAT
*
1247019 ATTAAATTTATTTTAAAATTAA
1 ATTAAATATATTTTAAAATTAA
*
1247041 ATTAAATAT-TTTTAATATTA
1 ATTAAATATATTTTAAAATTA
1247061 TATAAACTAG
Statistics
Matches: 18, Mismatches: 2, Indels: 1
0.86 0.10 0.05
Matches are distributed among these distances:
21 10 0.56
22 8 0.44
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (22 bp):
ATTAAATATATTTTAAAATTAA
Found at i:1248287 original size:13 final size:14
Alignment explanation
Indices: 1248252--1248301 Score: 64
Period size: 14 Copynumber: 3.6 Consensus size: 14
1248242 TCAGATAGAA
*
1248252 ATTTAAAAATATTT
1 ATTTAAAAATAATT
1248266 ATTTAAAAATAATT
1 ATTTAAAAATAATT
* *
1248280 ATTCAAAAATAGTT
1 ATTTAAAAATAATT
*
1248294 ATATAAAA
1 ATTTAAAA
1248302 CAGAAGGAAT
Statistics
Matches: 31, Mismatches: 5, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
14 31 1.00
ACGTcount: A:0.56, C:0.02, G:0.02, T:0.40
Consensus pattern (14 bp):
ATTTAAAAATAATT
Found at i:1249578 original size:29 final size:30
Alignment explanation
Indices: 1249541--1249606 Score: 82
Period size: 31 Copynumber: 2.2 Consensus size: 30
1249531 GGTTAGTGAC
*
1249541 CAAAATATAAA-TTTTG-AAAGTTAAGTGGA
1 CAAAGTATAAAGTTTTGAAAAGTTAAG-GGA
*
1249570 CAAAGTATAAAGTTTTGAAAAGTTCAGGGA
1 CAAAGTATAAAGTTTTGAAAAGTTAAGGGA
1249600 CTAAAGT
1 C-AAAGT
1249607 GTAATTTAAA
Statistics
Matches: 32, Mismatches: 2, Indels: 4
0.84 0.05 0.11
Matches are distributed among these distances:
29 10 0.31
30 9 0.28
31 13 0.41
ACGTcount: A:0.45, C:0.06, G:0.20, T:0.29
Consensus pattern (30 bp):
CAAAGTATAAAGTTTTGAAAAGTTAAGGGA
Found at i:1259436 original size:21 final size:20
Alignment explanation
Indices: 1259395--1259451 Score: 60
Period size: 21 Copynumber: 2.8 Consensus size: 20
1259385 TATAATTAGC
* *
1259395 AATAAATAAATTAGTAGTATG
1 AATAAATAAATTA-AACTATG
1259416 AATAAATAATATTAAACTATG
1 AATAAATAA-ATTAAACTATG
**
1259437 CTTAAATAAATTAAA
1 AATAAATAAATTAAA
1259452 TTTGGGTTTT
Statistics
Matches: 31, Mismatches: 4, Indels: 3
0.82 0.11 0.08
Matches are distributed among these distances:
20 6 0.19
21 21 0.68
22 4 0.13
ACGTcount: A:0.56, C:0.04, G:0.07, T:0.33
Consensus pattern (20 bp):
AATAAATAAATTAAACTATG
Found at i:1260181 original size:2 final size:2
Alignment explanation
Indices: 1260174--1260204 Score: 62
Period size: 2 Copynumber: 15.5 Consensus size: 2
1260164 ATAATGTATG
1260174 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
1260205 TATTTTGTAT
Statistics
Matches: 29, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 29 1.00
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (2 bp):
TA
Found at i:1260820 original size:18 final size:17
Alignment explanation
Indices: 1260787--1260822 Score: 56
Period size: 17 Copynumber: 2.1 Consensus size: 17
1260777 AGTTTAGGGA
1260787 CCAAAATGGTAATTTTT
1 CCAAAATGGTAATTTTT
1260804 CCAAAATAGGT-ATTTTT
1 CCAAAAT-GGTAATTTTT
1260821 CC
1 CC
1260823 TGTGAATGAA
Statistics
Matches: 18, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
17 15 0.83
18 3 0.17
ACGTcount: A:0.33, C:0.17, G:0.11, T:0.39
Consensus pattern (17 bp):
CCAAAATGGTAATTTTT
Found at i:1265362 original size:29 final size:29
Alignment explanation
Indices: 1265322--1265469 Score: 151
Period size: 29 Copynumber: 5.2 Consensus size: 29
1265312 CTTGCTTGTT
*
1265322 CTTTATTGTAATTTATAAATAGTTTTGTC
1 CTTTATTGTAATTTATAAATAGTTTTATC
* *
1265351 CTTTATTATAATTTATAAATACTTTTATC
1 CTTTATTGTAATTTATAAATAGTTTTATC
** *
1265380 CTTTATTGTGGTTTTTAAGA-AGTTTTATC
1 CTTTATTGTAATTTATAA-ATAGTTTTATC
* * *
1265409 TTTTATTGTAA-TT-TAAAT-TTTTTTTC
1 CTTTATTGTAATTTATAAATAGTTTTATC
* * *
1265435 CTTTATTTTAATTTCTAAAAAGTTTTATC
1 CTTTATTGTAATTTATAAATAGTTTTATC
1265464 CTTTAT
1 CTTTAT
1265470 AATAAATTTC
Statistics
Matches: 96, Mismatches: 18, Indels: 10
0.77 0.15 0.08
Matches are distributed among these distances:
26 16 0.17
27 5 0.05
28 6 0.06
29 68 0.71
30 1 0.01
ACGTcount: A:0.27, C:0.08, G:0.07, T:0.58
Consensus pattern (29 bp):
CTTTATTGTAATTTATAAATAGTTTTATC
Found at i:1265722 original size:2 final size:2
Alignment explanation
Indices: 1265715--1265752 Score: 76
Period size: 2 Copynumber: 19.0 Consensus size: 2
1265705 ACGATGAAAT
1265715 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
1265753 GTCATATTTG
Statistics
Matches: 36, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 36 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
TA
Found at i:1267490 original size:54 final size:54
Alignment explanation
Indices: 1267413--1267577 Score: 231
Period size: 54 Copynumber: 3.1 Consensus size: 54
1267403 ATTACGTGGG
* ** *
1267413 GTTGCACACATAGTGCCAATACGGAAATTCATAAACACATTATGAATTTCTTAA
1 GTTGCACACACAGTGCCAATACGGAAATTCATAAACTTATTATGAATTTTTTAA
**
1267467 GTTGCACACACAGTGTTAATACGGAAATTCATAAACTTATTATGAATTTTTTAA
1 GTTGCACACACAGTGCCAATACGGAAATTCATAAACTTATTATGAATTTTTTAA
** * * *
1267521 ACTGCACAGACAGTGCCAATACGAAAATTCATAAACTTGTTATGAATTTTTTAA
1 GTTGCACACACAGTGCCAATACGGAAATTCATAAACTTATTATGAATTTTTTAA
1267575 GTT
1 GTT
1267578 TAAGGTTATG
Statistics
Matches: 96, Mismatches: 15, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
54 96 1.00
ACGTcount: A:0.38, C:0.16, G:0.13, T:0.33
Consensus pattern (54 bp):
GTTGCACACACAGTGCCAATACGGAAATTCATAAACTTATTATGAATTTTTTAA
Found at i:1267633 original size:77 final size:77
Alignment explanation
Indices: 1267506--1267654 Score: 217
Period size: 77 Copynumber: 1.9 Consensus size: 77
1267496 CATAAACTTA
* * * ** *
1267506 TTATGAATTTTTTAAACTGCACAGACAGTGCCAATACGAAAATTCATAAACTTGTTATGAATTTT
1 TTATGAATTTCTTAAACTGCACACACAATGCCAATACGAAAATTCATAAACTCATTATGAATTTC
1267571 TTAAGTTTAAGG
66 TTAAGTTTAAGG
** *
1267583 TTATGAATTTCTTAAGTTGCACACACAATTCCAATACGAAAATTCATAAACTCATTATGAATTTC
1 TTATGAATTTCTTAAACTGCACACACAATGCCAATACGAAAATTCATAAACTCATTATGAATTTC
1267648 TTAAGTT
66 TTAAGTT
1267655 GCACACACAG
Statistics
Matches: 63, Mismatches: 9, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
77 63 1.00
ACGTcount: A:0.37, C:0.14, G:0.11, T:0.38
Consensus pattern (77 bp):
TTATGAATTTCTTAAACTGCACACACAATGCCAATACGAAAATTCATAAACTCATTATGAATTTC
TTAAGTTTAAGG
Found at i:1267680 original size:54 final size:54
Alignment explanation
Indices: 1267583--1267711 Score: 206
Period size: 54 Copynumber: 2.4 Consensus size: 54
1267573 AAGTTTAAGG
1267583 TTATGAATTTCTTAAGTTGCACACACAATTCCAATACGAAAATTCATAAACTCA
1 TTATGAATTTCTTAAGTTGCACACACAATTCCAATACGAAAATTCATAAACTCA
* * * *
1267637 TTATGAATTTCTTAAGTTGCACACACAGTGT-CACTATGGAAATTCATAAACTCA
1 TTATGAATTTCTTAAGTTGCACACACAAT-TCCAATACGAAAATTCATAAACTCA
1267691 TTATGAATTTCTTAAGTTGCA
1 TTATGAATTTCTTAAGTTGCA
1267712 TATATAGTGC
Statistics
Matches: 70, Mismatches: 4, Indels: 2
0.92 0.05 0.03
Matches are distributed among these distances:
54 69 0.99
55 1 0.01
ACGTcount: A:0.36, C:0.18, G:0.11, T:0.35
Consensus pattern (54 bp):
TTATGAATTTCTTAAGTTGCACACACAATTCCAATACGAAAATTCATAAACTCA
Found at i:1267686 original size:131 final size:131
Alignment explanation
Indices: 1267452--1267708 Score: 363
Period size: 131 Copynumber: 2.0 Consensus size: 131
1267442 CATAAACACA
* * * * *
1267452 TTATGAATTTCTTAAGTTGCACACACAGTGTTAATACGGAAATTCATAAACTTATTATGAATTTT
1 TTATGAATTTCTTAAGTTGCACACACAATGTCAATACGAAAATTCATAAACTCATTATGAATTTC
* ** *
1267517 TTAAACTGCACAGACAGTGCCAATACGAAAATTCATAAACTTGTTATGAATTTTTTAAGTTTAAG
66 TTAAACTGCACACACAGTGCCAATACGAAAATTCATAAACTCATTATGAATTTCTTAAGTTTAAG
1267582 G
131 G
1267583 TTATGAATTTCTTAAGTTGCACACACAAT-TCCAATACGAAAATTCATAAACTCATTATGAATTT
1 TTATGAATTTCTTAAGTTGCACACACAATGT-CAATACGAAAATTCATAAACTCATTATGAATTT
** * * * *
1267647 CTTAAGTTGCACACACAGTGTCACTATGGAAATTCATAAACTCATTATGAATTTCTTAAGTT
65 CTTAAACTGCACACACAGTGCCAATACGAAAATTCATAAACTCATTATGAATTTCTTAAGTT
1267709 GCATATATAG
Statistics
Matches: 110, Mismatches: 15, Indels: 2
0.87 0.12 0.02
Matches are distributed among these distances:
130 1 0.01
131 109 0.99
ACGTcount: A:0.37, C:0.15, G:0.12, T:0.36
Consensus pattern (131 bp):
TTATGAATTTCTTAAGTTGCACACACAATGTCAATACGAAAATTCATAAACTCATTATGAATTTC
TTAAACTGCACACACAGTGCCAATACGAAAATTCATAAACTCATTATGAATTTCTTAAGTTTAAG
G
Found at i:1268362 original size:14 final size:14
Alignment explanation
Indices: 1268339--1268376 Score: 51
Period size: 14 Copynumber: 2.7 Consensus size: 14
1268329 TCTGTCTATA
*
1268339 TGCAGAGATTT-TT
1 TGCAGGGATTTATT
1268352 TCGCAGGGATTTATT
1 T-GCAGGGATTTATT
1268367 TGCAGGGATT
1 TGCAGGGATT
1268377 ACTTCCCATT
Statistics
Matches: 22, Mismatches: 1, Indels: 3
0.85 0.04 0.12
Matches are distributed among these distances:
13 1 0.05
14 18 0.82
15 3 0.14
ACGTcount: A:0.21, C:0.11, G:0.29, T:0.39
Consensus pattern (14 bp):
TGCAGGGATTTATT
Found at i:1275027 original size:54 final size:54
Alignment explanation
Indices: 1274891--1275394 Score: 672
Period size: 54 Copynumber: 9.3 Consensus size: 54
1274881 ATTCTATGGT
** * * ***
1274891 TTGCACACGTAGTGCCAATAC-GATAATTCAAAAACTCATTATGAATTATGTGGGG
1 TTGCACACACAGTGCCAATACAGA-AATTCATAAACTCATTATGAATT-TCTTAAG
*
1274946 TTGCACACATAGTGCCAATACAGAAATTCATAAACTCATTATGAATTTCTTAAG
1 TTGCACACACAGTGCCAATACAGAAATTCATAAACTCATTATGAATTTCTTAAG
* * * *
1275000 TTGCACACACAATGCCAATATATAAATTCATAAACTTATTATGAATTTCTTAAG
1 TTGCACACACAGTGCCAATACAGAAATTCATAAACTCATTATGAATTTCTTAAG
* *
1275054 TTGCACACACAGTGTCAATAC-GAAAATTCATAAACTTATTATGAATTTCTTAAG
1 TTGCACACACAGTGCCAATACAG-AAATTCATAAACTCATTATGAATTTCTTAAG
* * *
1275108 TTGTACACACAGTGCCAATACGGAAATTCATAAACTTATTATGAATTTCTTAAG
1 TTGCACACACAGTGCCAATACAGAAATTCATAAACTCATTATGAATTTCTTAAG
* * *
1275162 TTGCACACACAGTGCCAATACGGAAATTCATAAACTTTATTATGAATTACTTAAG
1 TTGCACACACAGTGCCAATACAGAAATTCATAAAC-TCATTATGAATTTCTTAAG
* * * *
1275217 TTGCACACACAGAGCCAATACGGAAATTCATAACCTCATTATGAAATTCTTAAG
1 TTGCACACACAGTGCCAATACAGAAATTCATAAACTCATTATGAATTTCTTAAG
* * *
1275271 TTGCACACACAATGCCAATA-AGGAAATTCATATACTCATTATGAATTTCATAAG
1 TTGCACACACAGTGCCAATACA-GAAATTCATAAACTCATTATGAATTTCTTAAG
* *
1275325 TTGCACAAACAGTGCCAATACGGAAATTCATAAACTCATTATGAATTTCTTAAG
1 TTGCACACACAGTGCCAATACAGAAATTCATAAACTCATTATGAATTTCTTAAG
*
1275379 TTGCACACATAGTGCC
1 TTGCACACACAGTGCC
1275395 CATTTAGTAA
Statistics
Matches: 405, Mismatches: 38, Indels: 13
0.89 0.08 0.03
Matches are distributed among these distances:
54 309 0.76
55 94 0.23
56 2 0.00
ACGTcount: A:0.38, C:0.18, G:0.13, T:0.31
Consensus pattern (54 bp):
TTGCACACACAGTGCCAATACAGAAATTCATAAACTCATTATGAATTTCTTAAG
Found at i:1275276 original size:217 final size:216
Alignment explanation
Indices: 1274901--1275394 Score: 713
Period size: 217 Copynumber: 2.3 Consensus size: 216
1274891 TTGCACACGT
* * ***
1274901 AGTGCCAATAC-GATAATTCAAAAACTCATTATGAATTATGTGGGGTTGCACACATAGTGCCAAT
1 AGTGCCAATACGGA-AATTCATAAACTCATTATGAATT-TCTTAAGTTGCACACATAGTGCCAAT
* * *
1274965 ACAGAAATTCATAAACTCATTATGAATTTCTTAAGTTGCACACACAATGCCAATATATAAATTCA
64 ACAGAAATTCATAAACTCATTATGAATTACTTAAGTTGCACACACAATGCCAATACAGAAATTCA
* * * * * *
1275030 TAAACTTATTATGAATTTCTTAAGTTGCACACACAGTGTCAATACGAAAATTCATAAACTTATTA
129 TAAACTCATTATGAAATTCTTAAGTTGCACACACAATGCCAATAAGAAAATTCATAAACTCATTA
* * *
1275095 TGAATTTCTTAAGTTGTACACAC
194 TGAATTTCATAAGTTGCACAAAC
* *
1275118 AGTGCCAATACGGAAATTCATAAACTTATTATGAATTTCTTAAGTTGCACACACAGTGCCAATAC
1 AGTGCCAATACGGAAATTCATAAACTCATTATGAATTTCTTAAGTTGCACACATAGTGCCAATAC
* * *
1275183 GGAAATTCATAAACTTTATTATGAATTACTTAAGTTGCACACACAGA-GCCAATACGGAAATTCA
66 AGAAATTCATAAAC-TCATTATGAATTACTTAAGTTGCACACACA-ATGCCAATACAGAAATTCA
* * *
1275247 TAACCTCATTATGAAATTCTTAAGTTGCACACACAATGCCAATAAGGAAATTCATATACTCATTA
129 TAAACTCATTATGAAATTCTTAAGTTGCACACACAATGCCAATAAGAAAATTCATAAACTCATTA
1275312 TGAATTTCATAAGTTGCACAAAC
194 TGAATTTCATAAGTTGCACAAAC
1275335 AGTGCCAATACGGAAATTCATAAACTCATTATGAATTTCTTAAGTTGCACACATAGTGCC
1 AGTGCCAATACGGAAATTCATAAACTCATTATGAATTTCTTAAGTTGCACACATAGTGCC
1275395 CATTTAGTAA
Statistics
Matches: 247, Mismatches: 27, Indels: 6
0.88 0.10 0.02
Matches are distributed among these distances:
216 36 0.15
217 208 0.84
218 3 0.01
ACGTcount: A:0.38, C:0.18, G:0.13, T:0.31
Consensus pattern (216 bp):
AGTGCCAATACGGAAATTCATAAACTCATTATGAATTTCTTAAGTTGCACACATAGTGCCAATAC
AGAAATTCATAAACTCATTATGAATTACTTAAGTTGCACACACAATGCCAATACAGAAATTCATA
AACTCATTATGAAATTCTTAAGTTGCACACACAATGCCAATAAGAAAATTCATAAACTCATTATG
AATTTCATAAGTTGCACAAAC
Found at i:1282215 original size:32 final size:31
Alignment explanation
Indices: 1282165--1282242 Score: 81
Period size: 32 Copynumber: 2.5 Consensus size: 31
1282155 GTTCGAGTCA
* *
1282165 AGTCAAAAAA-ATAAAATTTTCAAGTTGAGTTT-
1 AGTCAAAAAATAT-CAATTTTCAA-TCGA-TTTG
*
1282197 AGTCAAAAAATATCAATTTTTAATCGATTTG
1 AGTCAAAAAATATCAATTTTCAATCGATTTG
1282228 AGT-AAAAAATATCAA
1 AGTCAAAAAATATCAA
1282243 AATTTTTAGT
Statistics
Matches: 41, Mismatches: 3, Indels: 6
0.82 0.06 0.12
Matches are distributed among these distances:
30 15 0.37
31 6 0.15
32 18 0.44
33 2 0.05
ACGTcount: A:0.49, C:0.08, G:0.10, T:0.33
Consensus pattern (31 bp):
AGTCAAAAAATATCAATTTTCAATCGATTTG
Found at i:1285033 original size:128 final size:128
Alignment explanation
Indices: 1284805--1285061 Score: 496
Period size: 128 Copynumber: 2.0 Consensus size: 128
1284795 TCCTTCTCAC
*
1284805 TGTTTACATAATGTCCTATATGTCCATTCATTTACTCACAATTTGTTGTGTATTTCCAAGTTGAC
1 TGTTTACATAATGTCCTATATGCCCATTCATTTACTCACAATTTGTTGTGTATTTCCAAGTTGAC
*
1284870 CATTGACTTAAATTGTGTTGTTCAGTTTTATCCTGATTTTTGTATCTTTCAGGATCTCTCCAG
66 CATTGACTGAAATTGTGTTGTTCAGTTTTATCCTGATTTTTGTATCTTTCAGGATCTCTCCAG
1284933 TGTTTACATAATGTCCTATATGCCCATTCATTTACTCACAATTTGTTGTGTATTTCCAAGTTGAC
1 TGTTTACATAATGTCCTATATGCCCATTCATTTACTCACAATTTGTTGTGTATTTCCAAGTTGAC
1284998 CATTGACTGAAATTGTGTTGTTCAGTTTTATCCTGATTTTTGTATCTTTCAGGATCTCTCCAG
66 CATTGACTGAAATTGTGTTGTTCAGTTTTATCCTGATTTTTGTATCTTTCAGGATCTCTCCAG
1285061 T
1 T
1285062 AGATGCTGGG
Statistics
Matches: 127, Mismatches: 2, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
128 127 1.00
ACGTcount: A:0.22, C:0.18, G:0.14, T:0.46
Consensus pattern (128 bp):
TGTTTACATAATGTCCTATATGCCCATTCATTTACTCACAATTTGTTGTGTATTTCCAAGTTGAC
CATTGACTGAAATTGTGTTGTTCAGTTTTATCCTGATTTTTGTATCTTTCAGGATCTCTCCAG
Found at i:1291331 original size:61 final size:60
Alignment explanation
Indices: 1291261--1291414 Score: 184
Period size: 60 Copynumber: 2.5 Consensus size: 60
1291251 TTTCATATGG
* * *
1291261 AATTGAAATGTTTAAAAAGTTTAAGGACCAATTTAGAATGA-AGGTTAGAGTTTGGGGATAA
1 AATTGAAATGTTT-AAAAGTTTAAGGACCAATTTAGAATGATA-GATAGAGTTTAGGAATAA
* * * *
1291322 AATTGAAATGTTCAAAAGTTTAAGGACTAATTTAGAATGATAGATATAGTTTAGGAATGA
1 AATTGAAATGTTTAAAAGTTTAAGGACCAATTTAGAATGATAGATAGAGTTTAGGAATAA
* * * *
1291382 AATTGAAATATTTATAATTTTAGGGACCAATTT
1 AATTGAAATGTTTAAAAGTTTAAGGACCAATTT
1291415 GAAATGAGAG
Statistics
Matches: 79, Mismatches: 13, Indels: 3
0.83 0.14 0.03
Matches are distributed among these distances:
60 66 0.84
61 13 0.16
ACGTcount: A:0.42, C:0.04, G:0.20, T:0.34
Consensus pattern (60 bp):
AATTGAAATGTTTAAAAGTTTAAGGACCAATTTAGAATGATAGATAGAGTTTAGGAATAA
Found at i:1291668 original size:3 final size:3
Alignment explanation
Indices: 1291660--1291686 Score: 54
Period size: 3 Copynumber: 9.0 Consensus size: 3
1291650 GATGTTTTTA
1291660 TAT TAT TAT TAT TAT TAT TAT TAT TAT
1 TAT TAT TAT TAT TAT TAT TAT TAT TAT
1291687 GCTTTTATAT
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 24 1.00
ACGTcount: A:0.33, C:0.00, G:0.00, T:0.67
Consensus pattern (3 bp):
TAT
Found at i:1293986 original size:130 final size:131
Alignment explanation
Indices: 1293769--1294094 Score: 458
Period size: 131 Copynumber: 2.5 Consensus size: 131
1293759 TTCATTTTGG
* * * *
1293769 TTGGAGTAATAAATGACTGCTCTAAGGCATGAGAGGTCATTTATTCTCAATTGGAAATAATTTGA
1 TTGGAGTAATAAATGACTGCTTTAAGGTATGAGAGGTCATTTATTCTCGATTGGAAATAATTAGA
* * **
1293834 TATTATCATTCTCTCTCGAATCAATATTG-ATTTTAAGATGGAA-TAGTGATATATCTTCATTTC
66 TATTATCATTCTCACTCAAATCAATATTGAATTTTAAGACCGAATTA-TGATATATCTTCATTTC
1293897 AA
130 AA
* * *
1293899 TTGGAGCAATAAATTACTGCTTTAAGGTATGAGAGGTCATTTATTCTCGATTGGAAATCATTAGA
1 TTGGAGTAATAAATGACTGCTTTAAGGTATGAGAGGTCATTTATTCTCGATTGGAAATAATTAGA
* * * * *
1293964 TATTATCGTTTTCACTCAAATCAATATTGAATTTTAAGACCGAATTATGATATCTCTTTATTTCG
66 TATTATCATTCTCACTCAAATCAATATTGAATTTTAAGACCGAATTATGATATATCTTCATTTCA
1294029 A
131 A
* * *
1294030 TTGGAGTAATAAATGAATGCTTTAAAGTATGAGAGGTCATTTATTCTCGATTAGAAATAATTAGA
1 TTGGAGTAATAAATGACTGCTTTAAGGTATGAGAGGTCATTTATTCTCGATTGGAAATAATTAGA
1294095 CAATATTGTT
Statistics
Matches: 172, Mismatches: 22, Indels: 3
0.87 0.11 0.02
Matches are distributed among these distances:
130 83 0.48
131 87 0.51
132 2 0.01
ACGTcount: A:0.34, C:0.11, G:0.17, T:0.38
Consensus pattern (131 bp):
TTGGAGTAATAAATGACTGCTTTAAGGTATGAGAGGTCATTTATTCTCGATTGGAAATAATTAGA
TATTATCATTCTCACTCAAATCAATATTGAATTTTAAGACCGAATTATGATATATCTTCATTTCA
A
Found at i:1302920 original size:24 final size:24
Alignment explanation
Indices: 1302876--1302922 Score: 60
Period size: 24 Copynumber: 2.0 Consensus size: 24
1302866 ATAAAGAACC
*
1302876 AAAATAAACTTAAATATACCATTA
1 AAAATAAACTTAAACATACCATTA
*
1302900 AAAATAAAGTTTAAACA-ACCATT
1 AAAATAAA-CTTAAACATACCATT
1302923 CGACCAACCA
Statistics
Matches: 20, Mismatches: 2, Indels: 2
0.83 0.08 0.08
Matches are distributed among these distances:
24 14 0.70
25 6 0.30
ACGTcount: A:0.57, C:0.13, G:0.02, T:0.28
Consensus pattern (24 bp):
AAAATAAACTTAAACATACCATTA
Found at i:1308346 original size:20 final size:20
Alignment explanation
Indices: 1308299--1308353 Score: 92
Period size: 20 Copynumber: 2.8 Consensus size: 20
1308289 CAAAAAGATG
*
1308299 ATAAGTCATTCGGGCCATCC
1 ATAAGTCCTTCGGGCCATCC
1308319 ATAAGTCCTTCGGGCCATCC
1 ATAAGTCCTTCGGGCCATCC
*
1308339 ATAAGTCCTTTGGGC
1 ATAAGTCCTTCGGGC
1308354 AGGATGTTTT
Statistics
Matches: 33, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
20 33 1.00
ACGTcount: A:0.22, C:0.29, G:0.22, T:0.27
Consensus pattern (20 bp):
ATAAGTCCTTCGGGCCATCC
Found at i:1309641 original size:134 final size:134
Alignment explanation
Indices: 1308633--1309745 Score: 1006
Period size: 134 Copynumber: 8.2 Consensus size: 134
1308623 GCGAATCAAA
* *
1308633 CTCGATTCAATCTTCCCTGAAG-AATAGTGGAATGAATCAATGTCCCCA-GATCTAATTTTCCCT
1 CTCGATTCAATCTTCCCTG-AGTAATAGTGGAATGAATCAACGTCCCCATG-TCTGATTTTCCCT
* * * *
1308696 CAAGAAAAAGCAAAAAAAATCCCTCTCTTTCAAGATTTGATATTCCCTGAGTAACAGTGGAACAA
64 CAAGAAGAAGCAGAACAATTCCCTCTCTTTCAAGATTTGATATTCCCTGAGTAACAGTGGAACAA
***
1308761 GTCAAA
129 GTCTGC
* * * ** * **
1308767 CTCGATTCAATCTTCCCTGAAG-AACAGTGGAATGAATTAACTTTTCTAAATCTGATTTTCCCTA
1 CTCGATTCAATCTTCCCTG-AGTAATAGTGGAATGAATCAACGTCCCCATGTCTGATTTTCCCT-
* * * * *
1308831 AAACAAATAAGCAGAAC-ATATCCCTTTCTTTCAAGATTTGATATTCCCTGAGTAACTGTGGAAC
64 CAA-GAAGAAGCAGAACAAT-TCCCTCTCTTTCAAGATTTGATATTCCCTGAGTAACAGTGGAAC
* *
1308895 AAGTGTAC
127 AAGTCTGC
* * * * ** * * *
1308903 TTCCATTCAA-CATTCCCTGAGTAATAGTGGAATTAATCAACATATCCATATCTAATTTTCCCTT
1 CTCGATTCAATC-TTCCCTGAGTAATAGTGGAATGAATCAACGTCCCCATGTCTGATTTTCCCTC
*
1308967 AAGAAGTA--A-AACAGA-TCCCTCTCTTTCAAGATTTGATATTCCCTGAGTAACAGTGGAACAA
65 AAGAAGAAGCAGAACA-ATTCCCTCTCTTTCAAGATTTGATATTCCCTGAGTAACAGTGGAACAA
1309028 GTCTGC
129 GTCTGC
* * * ** *
1309034 CTCGATTCAATCTTCCTTGAGTAACAATGGAATGAATCAAAATCCCCATATCTGA-TTTCCCTCA
1 CTCGATTCAATCTTCCCTGAGTAATAGTGGAATGAATCAACGTCCCCATGTCTGATTTTCCCTCA
* * * * * * *
1309098 GGAAGAAGCGGAACAGA-TCCATCCCTTTCAAGATTTGACAATCCCTGAGTAAAAGTGGAACAAG
66 AGAAGAAGCAGAACA-ATTCCCTCTCTTTCAAGATTTGATATTCCCTGAGTAACAGTGGAACAAG
*
1309162 TC-GAA
130 TCTG-C
* * * *
1309167 CTCGATTTAATCTTCCCTGAAG-AATAGTGGAATGAATCAACGTCCACA-GATTTGA-TTTACCT
1 CTCGATTCAATCTTCCCTG-AGTAATAGTGGAATGAATCAACGTCCCCATG-TCTGATTTTCCCT
* * * ** *
1309229 TAAGGAGAAG-AGGAAC-ATATCCCTCTCTTTCAAGATTTGTTATTCTTTGAGTAATAGTGGAAC
64 CAAGAAGAAGCA-GAACAAT-TCCCTCTCTTTCAAGATTTGATATTCCCTGAGTAACAGTGGAAC
*
1309292 AAGTCTGT
127 AAGTCTGC
* * * *
1309300 CTCAATTCAATCTTCCCTGATTTCCCTGAGTAATAGTGGAATGAATCAATGTCCCAATATCTGAT
1 CTCGATTCAA---T--C----TTCCCTGAGTAATAGTGGAATGAATCAACGTCCCCATGTCTGAT
** *
1309365 TTTCCCTCAAGAAGAAGTGGAACAAATCTCTCTCTCTTTCAA-ACTTTGATATTCCCTGAGTAAC
57 TTTCCCTCAAGAAGAAGCAGAAC-AAT-TCCCTCTCTTTCAAGA-TTTGATATTCCCTGAGTAAC
* *
1309429 AATGGAACAAGTTTGC
119 AGTGGAACAAGTCTGC
* * * * *
1309445 CTCAATTCAATCTTCCTTGAGTAACAGTGGAATGAATCAACATCCCCA-GATTTGATTTTCCCTC
1 CTCGATTCAATCTTCCCTGAGTAATAGTGGAATGAATCAACGTCCCCATG-TCTGATTTTCCCTC
* * * * *
1309509 AAGAATAAGCAGTACAATTCCCTCTCTTTCAAGATTTAATATTCCCTAAGTAGCAGTGGAACAAG
65 AAGAAGAAGCAGAACAATTCCCTCTCTTTCAAGATTTGATATTCCCTGAGTAACAGTGGAACAAG
1309574 TCTGC
130 TCTGC
* * * * * *
1309579 CTCAATTCAATCTTCCCTGAGTAACAGTGGAATTAATCAACGTCCCTATGTATGATTCTCCCTCA
1 CTCGATTCAATCTTCCCTGAGTAATAGTGGAATGAATCAACGTCCCCATGTCTGATTTTCCCTCA
* *** * *
1309644 AAAAGAAGCAGGATTGA-TCCCTCTCTTTCAAGATTTGATCTTCCTTGAGTAACAGTGGAACAAG
66 AGAAGAAGCA-GAACAATTCCCTCTCTTTCAAGATTTGATATTCCCTGAGTAACAGTGGAACAAG
*
1309708 TCTAC
130 TCTGC
*
1309713 CTCGATTCAATCTTCCCTGAATAATAGTGGAAT
1 CTCGATTCAATCTTCCCTGAGTAATAGTGGAAT
1309746 CAGTAGACAT
Statistics
Matches: 801, Mismatches: 139, Indels: 78
0.79 0.14 0.08
Matches are distributed among these distances:
130 13 0.02
131 95 0.12
132 3 0.00
133 159 0.20
134 244 0.30
135 15 0.02
136 160 0.20
138 1 0.00
140 1 0.00
141 2 0.00
142 35 0.04
143 18 0.02
144 1 0.00
145 54 0.07
ACGTcount: A:0.32, C:0.22, G:0.15, T:0.30
Consensus pattern (134 bp):
CTCGATTCAATCTTCCCTGAGTAATAGTGGAATGAATCAACGTCCCCATGTCTGATTTTCCCTCA
AGAAGAAGCAGAACAATTCCCTCTCTTTCAAGATTTGATATTCCCTGAGTAACAGTGGAACAAGT
CTGC
Found at i:1311307 original size:134 final size:134
Alignment explanation
Indices: 1310972--1311472 Score: 558
Period size: 134 Copynumber: 3.7 Consensus size: 134
1310962 GAAGAGGAAC
* ** * *
1310972 ATATCCCTCTCTTTCAAGATTTGTTATTCTTTGAGTAATAGTGGAACAAGTCTGTCTCAATTCAA
1 ATATCCCTCTCTTTCAAGATTTGATATTCCCTGAGTAACAGTGGAACAAGTCTGCCTCAATTCAA
* *
1311037 TCTTCCCTGATTTCCCTGAGTACTAGTGAAATGAATCAACGTCCCAATATCTGATTTTCCCTCAA
66 TCTTCCCTGA-----GT-A--AC-AGTGGAATGAATCAACGTCCCAATATCTGATTTTCCCTCAA
* **
1311102 GAAGAAGTGGAACA
122 GAAAAAGCAG-ACA
* *
1311116 A-ATCTCTCTCTCTTTCAAAATTTGATATTCCCTGAGTAACAGTGGAACAAGTTTGCCTCAATTC
1 ATATC-C-CTCTCTTTCAAGATTTGATATTCCCTGAGTAACAGTGGAACAAGTCTGCCTCAATTC
* * * * * * *
1311180 GATCTTCCTTGAGTAACAGTGGAATGAATCAACATCCCCAGATTTGATTTTCCCTCAAGAATAAG
64 AATCTTCCCTGAGTAACAGTGGAATGAATCAACGTCCCAATATCTGATTTTCCCTCAAGAAAAAG
1311245 CAGTACA
129 CAG-ACA
* *
1311252 AT-TCCCTCTCTTTCAAGATTTGATATTCCCTAAGTAGCAGTGGAACAAGTCTGCCTCAATTCAA
1 ATATCCCTCTCTTTCAAGATTTGATATTCCCTGAGTAACAGTGGAACAAGTCTGCCTCAATTCAA
* * * *
1311316 TCTTCCCTGAGTAACAGTGGAATTAATCAACGTCCCTATATCTGATTCTCCCTCAAAAAAAAGCA
66 TCTTCCCTGAGTAACAGTGGAATGAATCAACGTCCCAATATCTGATTTTCCCTCAAGAAAAAGCA
1311381 GA-A
131 GACA
* * * * *
1311384 TTGATCCCTCTCTTTCAAGATTTGATCTTCCTTGAGTAACAGTGGAACAAGTCTACCTCGATTCA
1 AT-ATCCCTCTCTTTCAAGATTTGATATTCCCTGAGTAACAGTGGAACAAGTCTGCCTCAATTCA
* * *
1311449 ATATTCCCTGAATAATAGTGGAAT
65 ATCTTCCCTGAGTAACAGTGGAAT
1311473 CAGTAGACAT
Statistics
Matches: 309, Mismatches: 43, Indels: 20
0.83 0.12 0.05
Matches are distributed among these distances:
132 2 0.01
133 1 0.00
134 187 0.61
135 1 0.00
136 49 0.16
137 2 0.01
139 1 0.00
140 1 0.00
143 3 0.01
144 2 0.01
145 60 0.19
ACGTcount: A:0.30, C:0.23, G:0.15, T:0.32
Consensus pattern (134 bp):
ATATCCCTCTCTTTCAAGATTTGATATTCCCTGAGTAACAGTGGAACAAGTCTGCCTCAATTCAA
TCTTCCCTGAGTAACAGTGGAATGAATCAACGTCCCAATATCTGATTTTCCCTCAAGAAAAAGCA
GACA
Found at i:1318510 original size:3 final size:3
Alignment explanation
Indices: 1318502--1318543 Score: 84
Period size: 3 Copynumber: 14.0 Consensus size: 3
1318492 AATATTTTAT
1318502 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA
1318544 CAAATACGTG
Statistics
Matches: 39, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 39 1.00
ACGTcount: A:0.33, C:0.00, G:0.00, T:0.67
Consensus pattern (3 bp):
TTA
Found at i:1318752 original size:21 final size:21
Alignment explanation
Indices: 1318714--1318753 Score: 53
Period size: 21 Copynumber: 1.9 Consensus size: 21
1318704 TGGTTTATGT
* **
1318714 AAAAATAAATATTTAAATTTA
1 AAAAATAAAAATAAAAATTTA
1318735 AAAAATAAAAATAAAAATT
1 AAAAATAAAAATAAAAATT
1318754 ATTAAATATT
Statistics
Matches: 16, Mismatches: 3, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
21 16 1.00
ACGTcount: A:0.70, C:0.00, G:0.00, T:0.30
Consensus pattern (21 bp):
AAAAATAAAAATAAAAATTTA
Found at i:1319132 original size:23 final size:23
Alignment explanation
Indices: 1319106--1319150 Score: 63
Period size: 23 Copynumber: 2.0 Consensus size: 23
1319096 AGTCTAATAT
*
1319106 TCTGGCCTCTATTAATATTTAAC
1 TCTGGCCTCGATTAATATTTAAC
**
1319129 TCTGGGTTCGATTAATATTTAA
1 TCTGGCCTCGATTAATATTTAA
1319151 TTATGGCTTC
Statistics
Matches: 19, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
23 19 1.00
ACGTcount: A:0.27, C:0.16, G:0.13, T:0.44
Consensus pattern (23 bp):
TCTGGCCTCGATTAATATTTAAC
Found at i:1319161 original size:23 final size:23
Alignment explanation
Indices: 1319116--1319161 Score: 65
Period size: 23 Copynumber: 2.0 Consensus size: 23
1319106 TCTGGCCTCT
* *
1319116 ATTAATATTTAACTCTGGGTTCG
1 ATTAATATTTAACTATGGCTTCG
*
1319139 ATTAATATTTAATTATGGCTTCG
1 ATTAATATTTAACTATGGCTTCG
1319162 TCCCTATAAT
Statistics
Matches: 20, Mismatches: 3, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
23 20 1.00
ACGTcount: A:0.28, C:0.11, G:0.15, T:0.46
Consensus pattern (23 bp):
ATTAATATTTAACTATGGCTTCG
Found at i:1319328 original size:19 final size:19
Alignment explanation
Indices: 1319281--1319329 Score: 89
Period size: 19 Copynumber: 2.6 Consensus size: 19
1319271 AAATAAACTC
*
1319281 TTCATCAAAAGTAAGTCTT
1 TTCATCAAATGTAAGTCTT
1319300 TTCATCAAATGTAAGTCTT
1 TTCATCAAATGTAAGTCTT
1319319 TTCATCAAATG
1 TTCATCAAATG
1319330 GTCTTAACAT
Statistics
Matches: 29, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
19 29 1.00
ACGTcount: A:0.35, C:0.16, G:0.10, T:0.39
Consensus pattern (19 bp):
TTCATCAAATGTAAGTCTT
Found at i:1319689 original size:5 final size:5
Alignment explanation
Indices: 1319653--1319699 Score: 58
Period size: 5 Copynumber: 9.0 Consensus size: 5
1319643 GAGTGAACAA
* *
1319653 TTATT TTACT CTATT TTAATT TTATAT TTATT TTATT TTATT TTATT
1 TTATT TTATT TTATT TT-ATT TTAT-T TTATT TTATT TTATT TTATT
1319700 CAATAATAGT
Statistics
Matches: 36, Mismatches: 4, Indels: 4
0.82 0.09 0.09
Matches are distributed among these distances:
5 26 0.72
6 10 0.28
ACGTcount: A:0.23, C:0.04, G:0.00, T:0.72
Consensus pattern (5 bp):
TTATT
Found at i:1321990 original size:25 final size:25
Alignment explanation
Indices: 1321962--1322027 Score: 132
Period size: 25 Copynumber: 2.6 Consensus size: 25
1321952 AAATGGTAGA
1321962 AGCATTATTAATTATAAATTCATCT
1 AGCATTATTAATTATAAATTCATCT
1321987 AGCATTATTAATTATAAATTCATCT
1 AGCATTATTAATTATAAATTCATCT
1322012 AGCATTATTAATTATA
1 AGCATTATTAATTATA
1322028 TATAAAAATT
Statistics
Matches: 41, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
25 41 1.00
ACGTcount: A:0.41, C:0.11, G:0.05, T:0.44
Consensus pattern (25 bp):
AGCATTATTAATTATAAATTCATCT
Found at i:1323284 original size:16 final size:17
Alignment explanation
Indices: 1323246--1323287 Score: 61
Period size: 16 Copynumber: 2.6 Consensus size: 17
1323236 AATCCTCAAG
1323246 AAAAAA-ATTAAAAATA
1 AAAAAATATTAAAAATA
1323262 AAAAAATATTAAAAAT-
1 AAAAAATATTAAAAATA
*
1323278 ATAAAATATT
1 AAAAAATATT
1323288 TATTTAAAAT
Statistics
Matches: 24, Mismatches: 1, Indels: 2
0.89 0.04 0.07
Matches are distributed among these distances:
16 15 0.62
17 9 0.38
ACGTcount: A:0.74, C:0.00, G:0.00, T:0.26
Consensus pattern (17 bp):
AAAAAATATTAAAAATA
Found at i:1325164 original size:20 final size:19
Alignment explanation
Indices: 1325135--1325202 Score: 93
Period size: 20 Copynumber: 3.4 Consensus size: 19
1325125 CCAAACATAA
1325135 CCGAACCGAGTTGATCTGAC
1 CCGAACCGAGTTGA-CTGAC
1325155 CC-ACACCGAGTTGACTCGAC
1 CCGA-ACCGAGTTGACT-GAC
1325175 CCGAACCGAGTTGACCTGAC
1 CCGAACCGAGTTGA-CTGAC
1325195 CCGAACCG
1 CCGAACCG
1325203 CTGACCGGTC
Statistics
Matches: 44, Mismatches: 0, Indels: 8
0.85 0.00 0.15
Matches are distributed among these distances:
19 3 0.07
20 38 0.86
21 3 0.07
ACGTcount: A:0.25, C:0.37, G:0.24, T:0.15
Consensus pattern (19 bp):
CCGAACCGAGTTGACTGAC
Found at i:1325229 original size:22 final size:22
Alignment explanation
Indices: 1325204--1325250 Score: 94
Period size: 22 Copynumber: 2.1 Consensus size: 22
1325194 CCCGAACCGC
1325204 TGACCGGTCTGACCATTGACTT
1 TGACCGGTCTGACCATTGACTT
1325226 TGACCGGTCTGACCATTGACTT
1 TGACCGGTCTGACCATTGACTT
1325248 TGA
1 TGA
1325251 TTTTGATAGA
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
22 25 1.00
ACGTcount: A:0.19, C:0.26, G:0.23, T:0.32
Consensus pattern (22 bp):
TGACCGGTCTGACCATTGACTT
Found at i:1344696 original size:2 final size:2
Alignment explanation
Indices: 1344689--1344732 Score: 88
Period size: 2 Copynumber: 22.0 Consensus size: 2
1344679 AAGTCATCCT
1344689 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
1344731 TA
1 TA
1344733 ATTAAAATGC
Statistics
Matches: 42, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 42 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
TA
Found at i:1370889 original size:12 final size:12
Alignment explanation
Indices: 1370872--1370897 Score: 52
Period size: 12 Copynumber: 2.2 Consensus size: 12
1370862 AAATTCGTTG
1370872 GTTGATATTAGA
1 GTTGATATTAGA
1370884 GTTGATATTAGA
1 GTTGATATTAGA
1370896 GT
1 GT
1370898 GGACTTTGAT
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 14 1.00
ACGTcount: A:0.31, C:0.00, G:0.27, T:0.42
Consensus pattern (12 bp):
GTTGATATTAGA
Found at i:1375438 original size:35 final size:35
Alignment explanation
Indices: 1375387--1375457 Score: 115
Period size: 35 Copynumber: 2.0 Consensus size: 35
1375377 CAGGACCTCC
*
1375387 TCTGCCTCTGTGATCGATGGGATGCTGAATATAAG
1 TCTGACTCTGTGATCGATGGGATGCTGAATATAAG
* *
1375422 TCTGACTCTGTGATCGATGGGATGTTGATTATAAG
1 TCTGACTCTGTGATCGATGGGATGCTGAATATAAG
1375457 T
1 T
1375458 TTTCTGATGG
Statistics
Matches: 33, Mismatches: 3, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
35 33 1.00
ACGTcount: A:0.23, C:0.14, G:0.28, T:0.35
Consensus pattern (35 bp):
TCTGACTCTGTGATCGATGGGATGCTGAATATAAG
Found at i:1376773 original size:14 final size:14
Alignment explanation
Indices: 1376754--1376792 Score: 60
Period size: 14 Copynumber: 2.8 Consensus size: 14
1376744 TCTGTGTATA
1376754 TTCGTTTATATCTG
1 TTCGTTTATATCTG
*
1376768 TTCGTTTATGTCTG
1 TTCGTTTATATCTG
*
1376782 TTCCTTTATAT
1 TTCGTTTATAT
1376793 TTAGTCCAAT
Statistics
Matches: 22, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
14 22 1.00
ACGTcount: A:0.13, C:0.15, G:0.13, T:0.59
Consensus pattern (14 bp):
TTCGTTTATATCTG
Found at i:1376872 original size:17 final size:18
Alignment explanation
Indices: 1376832--1376872 Score: 52
Period size: 17 Copynumber: 2.4 Consensus size: 18
1376822 AATAAGATCC
1376832 AATC-ATTTTGAAACCCA
1 AATCAATTTTGAAACCCA
*
1376849 AAT-AATTTT-AAACTCA
1 AATCAATTTTGAAACCCA
1376865 AATCAATT
1 AATCAATT
1376873 AAAGAAAAAA
Statistics
Matches: 21, Mismatches: 1, Indels: 4
0.81 0.04 0.15
Matches are distributed among these distances:
16 9 0.43
17 12 0.57
ACGTcount: A:0.46, C:0.17, G:0.02, T:0.34
Consensus pattern (18 bp):
AATCAATTTTGAAACCCA
Found at i:1377094 original size:34 final size:33
Alignment explanation
Indices: 1377021--1377096 Score: 89
Period size: 33 Copynumber: 2.3 Consensus size: 33
1377011 ATTTTTGTGC
* * * *
1377021 ATGTTCGTTTATGTTCATTTATTGTGTTCGCTT
1 ATGTTTGTTTATGTTCATTTAATCTGTTCGATT
* *
1377054 ACGTTTGTTTATGTTCGTTTACATCTGTTCGATT
1 ATGTTTGTTTATGTTCATTTA-ATCTGTTCGATT
1377088 ATGTTTGTT
1 ATGTTTGTT
1377097 CATTTGTGTC
Statistics
Matches: 35, Mismatches: 7, Indels: 1
0.81 0.16 0.02
Matches are distributed among these distances:
33 18 0.51
34 17 0.49
ACGTcount: A:0.13, C:0.12, G:0.18, T:0.57
Consensus pattern (33 bp):
ATGTTTGTTTATGTTCATTTAATCTGTTCGATT
Found at i:1378307 original size:147 final size:145
Alignment explanation
Indices: 1378034--1378330 Score: 506
Period size: 147 Copynumber: 2.0 Consensus size: 145
1378024 GAATTTATGA
*
1378034 ATTCACCACCTTCAGGAGAAACGTTAGACCAGTTAACTCCATTCAAGAAAGCATTGAAGGATAAA
1 ATTCACCACCTTCAGGAGAAACGTTAGACCAGCTAACTCCATTCAAGAAAGCATTGAAGGATAAA
1378099 GAAACAATGTCAGAAGATGCAATTCCTATGCCTCTCCATGTACCAGTCCCAATGGCTTATATTTC
66 GAAACAATGTCAGAAGATGCAATTCCTATGCCTCTCCATGTACCAGTCCCAATGGCTTATATTTC
1378164 AGCCTTTTTATCAGTCG
131 AG-C-TTTTATCAGTCG
*
1378181 ATTCACCACCTTCAGGAGAAATGTTAGACCAGCTAACTCCATTCAAGAAAGCATTGAAGGATAAA
1 ATTCACCACCTTCAGGAGAAACGTTAGACCAGCTAACTCCATTCAAGAAAGCATTGAAGGATAAA
* * * *
1378246 GAAACAATGTCAGTAGATGCATTTCCTATGCTTCTCCATGTACCAGTCCTAATGG-TGTATATTT
66 GAAACAATGTCAGAAGATGCAATTCCTATGCCTCTCCATGTACCAGTCCCAATGGCT-TATATTT
1378310 CAGCTTTTATCAGTCG
130 CAGCTTTTATCAGTCG
1378326 ATTCA
1 ATTCA
1378331 ACTGTCGGAG
Statistics
Matches: 143, Mismatches: 6, Indels: 4
0.93 0.04 0.03
Matches are distributed among these distances:
145 17 0.12
146 2 0.01
147 124 0.87
ACGTcount: A:0.32, C:0.23, G:0.16, T:0.29
Consensus pattern (145 bp):
ATTCACCACCTTCAGGAGAAACGTTAGACCAGCTAACTCCATTCAAGAAAGCATTGAAGGATAAA
GAAACAATGTCAGAAGATGCAATTCCTATGCCTCTCCATGTACCAGTCCCAATGGCTTATATTTC
AGCTTTTATCAGTCG
Found at i:1379918 original size:12 final size:12
Alignment explanation
Indices: 1379885--1379917 Score: 59
Period size: 12 Copynumber: 2.8 Consensus size: 12
1379875 TCTCGTAATT
1379885 GTGGTTAAAATC
1 GTGGTTAAAATC
1379897 GTGGTTAAAATC
1 GTGGTTAAAATC
1379909 GTGG-TAAAA
1 GTGGTTAAAA
1379918 AAAATGTGCT
Statistics
Matches: 21, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
11 5 0.24
12 16 0.76
ACGTcount: A:0.36, C:0.06, G:0.27, T:0.30
Consensus pattern (12 bp):
GTGGTTAAAATC
Found at i:1380561 original size:65 final size:59
Alignment explanation
Indices: 1380441--1380566 Score: 198
Period size: 65 Copynumber: 2.0 Consensus size: 59
1380431 CTCAAATACT
1380441 CTCTCGTTTAAGGTATATTATAATTTTTAATATATGTTTTAATTTATTTAAGTATTTTA
1 CTCTCGTTTAAGGTATATTATAATTTTTAATATATGTTTTAATTTATTTAAGTATTTTA
1380500 CTCTCGTTTAAGGTATATTTTATAATATTTTTAATATTATGTATTTAATTTATTTAAGTATTTTA
1 CTCTCGTTTAAGGTATA--TTAT-A-ATTTTTAATA-TATGT-TTTAATTTATTTAAGTATTTTA
1380565 CT
1 CT
1380567 TTATTTAATA
Statistics
Matches: 61, Mismatches: 0, Indels: 6
0.91 0.00 0.09
Matches are distributed among these distances:
59 17 0.28
61 4 0.07
62 1 0.02
63 10 0.16
64 5 0.08
65 24 0.39
ACGTcount: A:0.30, C:0.06, G:0.08, T:0.56
Consensus pattern (59 bp):
CTCTCGTTTAAGGTATATTATAATTTTTAATATATGTTTTAATTTATTTAAGTATTTTA
Found at i:1380580 original size:17 final size:18
Alignment explanation
Indices: 1380543--1380583 Score: 66
Period size: 18 Copynumber: 2.3 Consensus size: 18
1380533 ATATTATGTA
*
1380543 TTTAATTTATTTAAGTAT
1 TTTACTTTATTTAAGTAT
1380561 TTTACTTTATTTAA-TAT
1 TTTACTTTATTTAAGTAT
1380578 TTTACT
1 TTTACT
1380584 AATATAAATT
Statistics
Matches: 22, Mismatches: 1, Indels: 1
0.92 0.04 0.04
Matches are distributed among these distances:
17 9 0.41
18 13 0.59
ACGTcount: A:0.29, C:0.05, G:0.02, T:0.63
Consensus pattern (18 bp):
TTTACTTTATTTAAGTAT
Found at i:1383265 original size:15 final size:16
Alignment explanation
Indices: 1383229--1383268 Score: 64
Period size: 15 Copynumber: 2.6 Consensus size: 16
1383219 GGTGTGCAAA
1383229 TCCGGGTACCCGGATT
1 TCCGGGTACCCGGATT
*
1383245 TTCGGGTACCC-GATT
1 TCCGGGTACCCGGATT
1383260 TCCGGGTAC
1 TCCGGGTAC
1383269 ACAGAACTTC
Statistics
Matches: 22, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
15 12 0.55
16 10 0.45
ACGTcount: A:0.12, C:0.30, G:0.30, T:0.28
Consensus pattern (16 bp):
TCCGGGTACCCGGATT
Found at i:1386291 original size:15 final size:15
Alignment explanation
Indices: 1386256--1386295 Score: 53
Period size: 15 Copynumber: 2.6 Consensus size: 15
1386246 TCAAATAATC
*
1386256 ATAATAAATAATAAGT
1 ATAATAAA-AAAAAGT
*
1386272 ATAATAAAAAAAATT
1 ATAATAAAAAAAAGT
1386287 ATAATAAAA
1 ATAATAAAA
1386296 TTACCTTATA
Statistics
Matches: 22, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
15 14 0.64
16 8 0.36
ACGTcount: A:0.70, C:0.00, G:0.03, T:0.28
Consensus pattern (15 bp):
ATAATAAAAAAAAGT
Found at i:1386646 original size:51 final size:50
Alignment explanation
Indices: 1386538--1386664 Score: 112
Period size: 51 Copynumber: 2.5 Consensus size: 50
1386528 AAATACACAG
* * * * *
1386538 ATATAGCGCGGTTCAGGGAGCGTGCTATACCCCACGTGTAACCCAGTCAGC
1 ATATAGCGCGGTGCAGGGAGCGCGATATACCCCACGTG-AACCCAATCAAC
* *
1386589 AAATAGCGCGGTGCAGGGGGCGCGATATACCCCACGTG-ACGCCAAATCAAC
1 ATATAGCGCGGTGCAGGGAGCGCGATATACCCCACGTGAAC-CC-AATCAAC
* * *
1386640 GTATAGCACGGGTCCAGGGACGCGC
1 ATATAGCGC-GGTGCAGGGA-GCGC
1386665 TTTACTACTA
Statistics
Matches: 60, Mismatches: 12, Indels: 6
0.77 0.15 0.08
Matches are distributed among these distances:
49 2 0.03
50 2 0.03
51 44 0.73
52 8 0.13
53 4 0.07
ACGTcount: A:0.25, C:0.29, G:0.31, T:0.15
Consensus pattern (50 bp):
ATATAGCGCGGTGCAGGGAGCGCGATATACCCCACGTGAACCCAATCAAC
Found at i:1392921 original size:17 final size:16
Alignment explanation
Indices: 1392880--1392951 Score: 63
Period size: 17 Copynumber: 4.2 Consensus size: 16
1392870 ATTCATGCAT
1392880 CTAGTTCATTGAATAAA
1 CTAGTTCATT-AATAAA
*
1392897 GTTAGTTCATTAATTAAA
1 -CTAGTTCATTAA-TAAA
* * *
1392915 CTAGTTCGTTCATCAAC
1 CTAGTTCATTAAT-AAA
1392932 CTAGTTCATTTAATAAA
1 CTAGTTCA-TTAATAAA
1392949 CTA
1 CTA
1392952 ACTCTTAATT
Statistics
Matches: 43, Mismatches: 8, Indels: 7
0.74 0.14 0.12
Matches are distributed among these distances:
16 1 0.02
17 25 0.58
18 17 0.40
ACGTcount: A:0.36, C:0.15, G:0.10, T:0.39
Consensus pattern (16 bp):
CTAGTTCATTAATAAA
Found at i:1394575 original size:11 final size:12
Alignment explanation
Indices: 1394559--1394589 Score: 55
Period size: 12 Copynumber: 2.7 Consensus size: 12
1394549 TAATTAAGAA
1394559 TGTTTCAT-ATT
1 TGTTTCATCATT
1394570 TGTTTCATCATT
1 TGTTTCATCATT
1394582 TGTTTCAT
1 TGTTTCAT
1394590 TATCTTTACG
Statistics
Matches: 19, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
11 8 0.42
12 11 0.58
ACGTcount: A:0.16, C:0.13, G:0.10, T:0.61
Consensus pattern (12 bp):
TGTTTCATCATT
Found at i:1396340 original size:17 final size:16
Alignment explanation
Indices: 1396271--1396342 Score: 81
Period size: 17 Copynumber: 4.2 Consensus size: 16
1396261 ATTCATGAAT
1396271 CTAGTTCATTGAATAAA
1 CTAGTTCATT-AATAAA
*
1396288 GTTAGTTCATTAATTAAA
1 -CTAGTTCATTAA-TAAA
*
1396306 CTAGTTCATTCATCAAA
1 CTAGTTCATTAAT-AAA
1396323 CTAGTTCATTTAATAAA
1 CTAGTTCA-TTAATAAA
1396340 CTA
1 CTA
1396343 ACTCTTAATT
Statistics
Matches: 47, Mismatches: 4, Indels: 7
0.81 0.07 0.12
Matches are distributed among these distances:
16 1 0.02
17 29 0.62
18 17 0.36
ACGTcount: A:0.39, C:0.14, G:0.08, T:0.39
Consensus pattern (16 bp):
CTAGTTCATTAATAAA
Found at i:1396778 original size:24 final size:25
Alignment explanation
Indices: 1396751--1396798 Score: 71
Period size: 24 Copynumber: 2.0 Consensus size: 25
1396741 TCAAGTCTGT
*
1396751 TTTAATCATCCAAA-CTAGGGCTGA
1 TTTAATCATCCAAACCAAGGGCTGA
*
1396775 TTTAATCATTCAAACCAAGGGCTG
1 TTTAATCATCCAAACCAAGGGCTG
1396799 TTCATATTCT
Statistics
Matches: 21, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
24 13 0.62
25 8 0.38
ACGTcount: A:0.33, C:0.21, G:0.17, T:0.29
Consensus pattern (25 bp):
TTTAATCATCCAAACCAAGGGCTGA
Found at i:1397921 original size:21 final size:21
Alignment explanation
Indices: 1397883--1397922 Score: 55
Period size: 21 Copynumber: 1.9 Consensus size: 21
1397873 TCAAATACAC
*
1397883 TAAATATTATTTATTAAAAAA
1 TAAATATTATTTACTAAAAAA
1397904 TAAATTATTATTT-CTAAAA
1 TAAA-TATTATTTACTAAAA
1397923 TATTAGAATA
Statistics
Matches: 17, Mismatches: 1, Indels: 2
0.85 0.05 0.10
Matches are distributed among these distances:
21 9 0.53
22 8 0.47
ACGTcount: A:0.53, C:0.03, G:0.00, T:0.45
Consensus pattern (21 bp):
TAAATATTATTTACTAAAAAA
Found at i:1398054 original size:30 final size:33
Alignment explanation
Indices: 1398018--1398107 Score: 98
Period size: 34 Copynumber: 2.8 Consensus size: 33
1398008 ATTTCTAAAT
1398018 TTTATTAAAATAA-AA-AAT-TATTATAAATTA
1 TTTATTAAAATAAGAATAATATATTATAAATTA
*
1398048 TTTATTAAAATAAGAATAATATATTATTAATTA
1 TTTATTAAAATAAGAATAATATATTATAAATTA
* * *
1398081 TATTAATGATACTAA-AATAATATATTA
1 T-TT-ATTAAAATAAGAATAATATATTA
1398108 ATATTAAATA
Statistics
Matches: 51, Mismatches: 4, Indels: 6
0.84 0.07 0.10
Matches are distributed among these distances:
30 13 0.25
31 2 0.04
32 3 0.06
33 12 0.24
34 14 0.27
35 7 0.14
ACGTcount: A:0.53, C:0.01, G:0.02, T:0.43
Consensus pattern (33 bp):
TTTATTAAAATAAGAATAATATATTATAAATTA
Found at i:1399272 original size:21 final size:24
Alignment explanation
Indices: 1399219--1399272 Score: 62
Period size: 21 Copynumber: 2.4 Consensus size: 24
1399209 TTCATATTCA
*
1399219 AATAATAATATATAGATAATTAAT
1 AATAATAATAAATAGATAATTAAT
*
1399243 AATAA-AATAAATA-TTAA-TAAT
1 AATAATAATAAATAGATAATTAAT
1399264 -ATAATAATA
1 AATAATAATA
1399273 TGAATTAAAG
Statistics
Matches: 27, Mismatches: 2, Indels: 5
0.79 0.06 0.15
Matches are distributed among these distances:
20 4 0.15
21 8 0.30
22 3 0.11
23 7 0.26
24 5 0.19
ACGTcount: A:0.63, C:0.00, G:0.02, T:0.35
Consensus pattern (24 bp):
AATAATAATAAATAGATAATTAAT
Found at i:1399279 original size:21 final size:19
Alignment explanation
Indices: 1399221--1399280 Score: 70
Period size: 18 Copynumber: 3.2 Consensus size: 19
1399211 CATATTCAAA
*
1399221 TAATAATAT-ATAGATAAT
1 TAATAATATAATAAATAAT
*
1399239 TAATAATAAAATAAAT-AT
1 TAATAATATAATAAATAAT
1399257 TAATAATATAATAATATGAAT
1 TAATAATATAATAA-AT-AAT
1399278 TAA
1 TAA
1399281 AGAAAAATAA
Statistics
Matches: 35, Mismatches: 3, Indels: 5
0.81 0.07 0.12
Matches are distributed among these distances:
18 23 0.66
19 7 0.20
21 5 0.14
ACGTcount: A:0.60, C:0.00, G:0.03, T:0.37
Consensus pattern (19 bp):
TAATAATATAATAAATAAT
Found at i:1403317 original size:21 final size:21
Alignment explanation
Indices: 1403291--1403333 Score: 59
Period size: 21 Copynumber: 2.0 Consensus size: 21
1403281 TTTCTGGGTT
* *
1403291 AGGGGAATCGGTACCCATTCA
1 AGGGGAACCGATACCCATTCA
*
1403312 AGGGGAACCGATACCCCTTCA
1 AGGGGAACCGATACCCATTCA
1403333 A
1 A
1403334 CGAATATGAT
Statistics
Matches: 19, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
21 19 1.00
ACGTcount: A:0.30, C:0.28, G:0.26, T:0.16
Consensus pattern (21 bp):
AGGGGAACCGATACCCATTCA
Found at i:1403394 original size:66 final size:68
Alignment explanation
Indices: 1403313--1403463 Score: 198
Period size: 66 Copynumber: 2.2 Consensus size: 68
1403303 ACCCATTCAA
* * * *
1403313 GGGGAACCGATACCCCTTCAACGAATATG-ATTTCCAGAATGCTAGAGGGGAATCGGTA-CCCCA
1 GGGGAACCGATACCCCCTCAACGAATAGGAAATTCCAGAATGCTAGAGGGGAATCGATACCCCCA
1403376 GGG
66 GGG
* * * *
1403379 GGGGAACCGATACCCCCTCATCGTATAGGAAATTCCAGATTGCTTGAGGGGAATCGATACCCCCA
1 GGGGAACCGATACCCCCTCAACGAATAGGAAATTCCAGAATGCTAGAGGGGAATCGATACCCCCA
1403444 GGG
66 GGG
* *
1403447 GAGGAACCGATTCCCCC
1 GGGGAACCGATACCCCC
1403464 ATGAGAAAAA
Statistics
Matches: 73, Mismatches: 10, Indels: 2
0.86 0.12 0.02
Matches are distributed among these distances:
66 25 0.34
67 25 0.34
68 23 0.32
ACGTcount: A:0.27, C:0.27, G:0.28, T:0.18
Consensus pattern (68 bp):
GGGGAACCGATACCCCCTCAACGAATAGGAAATTCCAGAATGCTAGAGGGGAATCGATACCCCCA
GGG
Found at i:1403800 original size:29 final size:29
Alignment explanation
Indices: 1403766--1403837 Score: 117
Period size: 29 Copynumber: 2.5 Consensus size: 29
1403756 CATATTATGA
**
1403766 TACATGACATGAATTTGTATTAAATGTAT
1 TACATGACATGAATTCATATTAAATGTAT
*
1403795 TACATGACATGAATTCATATTATATGTAT
1 TACATGACATGAATTCATATTAAATGTAT
1403824 TACATGACATGAAT
1 TACATGACATGAAT
1403838 ATGCAGAAAA
Statistics
Matches: 40, Mismatches: 3, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
29 40 1.00
ACGTcount: A:0.39, C:0.10, G:0.12, T:0.39
Consensus pattern (29 bp):
TACATGACATGAATTCATATTAAATGTAT
Found at i:1403894 original size:30 final size:31
Alignment explanation
Indices: 1403852--1403911 Score: 88
Period size: 30 Copynumber: 2.0 Consensus size: 31
1403842 AGAAAAAGTT
*
1403852 ATATGCACTATGTGAT-AAAGGTATGTAAATG
1 ATATGCACTATGTG-TGAAAGGTATGGAAATG
1403883 ATATGC-CTATGTGTGAAAGGTATGGAAAT
1 ATATGCACTATGTGTGAAAGGTATGGAAAT
1403912 ACTATGTCTA
Statistics
Matches: 27, Mismatches: 1, Indels: 3
0.87 0.03 0.10
Matches are distributed among these distances:
29 1 0.04
30 20 0.74
31 6 0.22
ACGTcount: A:0.37, C:0.07, G:0.25, T:0.32
Consensus pattern (31 bp):
ATATGCACTATGTGTGAAAGGTATGGAAATG
Found at i:1404205 original size:22 final size:22
Alignment explanation
Indices: 1404131--1404197 Score: 134
Period size: 22 Copynumber: 3.0 Consensus size: 22
1404121 TTATGGACAT
1404131 AATTCTACGGGCACTTCGGTGC
1 AATTCTACGGGCACTTCGGTGC
1404153 AATTCTACGGGCACTTCGGTGC
1 AATTCTACGGGCACTTCGGTGC
1404175 AATTCTACGGGCACTTCGGTGC
1 AATTCTACGGGCACTTCGGTGC
1404197 A
1 A
1404198 TTTATACGAG
Statistics
Matches: 45, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
22 45 1.00
ACGTcount: A:0.19, C:0.27, G:0.27, T:0.27
Consensus pattern (22 bp):
AATTCTACGGGCACTTCGGTGC
Found at i:1410244 original size:21 final size:21
Alignment explanation
Indices: 1410220--1410260 Score: 55
Period size: 21 Copynumber: 2.0 Consensus size: 21
1410210 TTCTGGGTTA
* *
1410220 GGGAATCGGTACCCATTCAAG
1 GGGAACCGATACCCATTCAAG
*
1410241 GGGAACCGATACCCCTTCAA
1 GGGAACCGATACCCATTCAA
1410261 CGAATATGAT
Statistics
Matches: 17, Mismatches: 3, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
21 17 1.00
ACGTcount: A:0.29, C:0.29, G:0.24, T:0.17
Consensus pattern (21 bp):
GGGAACCGATACCCATTCAAG
Found at i:1410318 original size:64 final size:67
Alignment explanation
Indices: 1410240--1410388 Score: 187
Period size: 64 Copynumber: 2.3 Consensus size: 67
1410230 ACCCATTCAA
* * * *
1410240 GGGGAACCGATACCCCTTCAACGAATATG-ATTTCCAGAATGCTAGA-GGGAATCGGTA-CCCCA
1 GGGGAACCGATACCCCCTCAACGAATAGGAAATTCCAGAATGCTAGAGGGGAATCGATACCCCCA
1410302 GG
66 GG
* * * *
1410304 GGGGAACCGATACCCCCTCATCGTATAGGAAATTCCAGATTGCTTGAGGGGAATCGATACCCCCA
1 GGGGAACCGATACCCCCTCAACGAATAGGAAATTCCAGAATGCTAGAGGGGAATCGATACCCCCA
1410369 GG
66 GG
*
1410371 GGAGGAACCGATTCCCCC
1 GG-GGAACCGATACCCCC
1410389 ATGAGAAAAG
Statistics
Matches: 72, Mismatches: 9, Indels: 4
0.85 0.11 0.05
Matches are distributed among these distances:
64 25 0.35
65 14 0.19
66 10 0.14
67 9 0.12
68 14 0.19
ACGTcount: A:0.28, C:0.28, G:0.27, T:0.18
Consensus pattern (67 bp):
GGGGAACCGATACCCCCTCAACGAATAGGAAATTCCAGAATGCTAGAGGGGAATCGATACCCCCA
GG
Found at i:1410721 original size:29 final size:27
Alignment explanation
Indices: 1410687--1410756 Score: 95
Period size: 29 Copynumber: 2.5 Consensus size: 27
1410677 CATATTATGA
**
1410687 TACATGACATGAATTTGTATTAAATGTAT
1 TACATGACATGAATTCATATTAAATG--T
*
1410716 TACATGACATGAATTCATATTATATGT
1 TACATGACATGAATTCATATTAAATGT
1410743 TACATGACATGAAT
1 TACATGACATGAAT
1410757 AATGCAGAAA
Statistics
Matches: 38, Mismatches: 3, Indels: 2
0.88 0.07 0.05
Matches are distributed among these distances:
27 15 0.39
29 23 0.61
ACGTcount: A:0.39, C:0.10, G:0.13, T:0.39
Consensus pattern (27 bp):
TACATGACATGAATTCATATTAAATGT
Found at i:1411123 original size:22 final size:22
Alignment explanation
Indices: 1411049--1411115 Score: 134
Period size: 22 Copynumber: 3.0 Consensus size: 22
1411039 TTATGGACAT
1411049 AATTCTACGGGCACTTCGGTGC
1 AATTCTACGGGCACTTCGGTGC
1411071 AATTCTACGGGCACTTCGGTGC
1 AATTCTACGGGCACTTCGGTGC
1411093 AATTCTACGGGCACTTCGGTGC
1 AATTCTACGGGCACTTCGGTGC
1411115 A
1 A
1411116 TTTATACGAG
Statistics
Matches: 45, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
22 45 1.00
ACGTcount: A:0.19, C:0.27, G:0.27, T:0.27
Consensus pattern (22 bp):
AATTCTACGGGCACTTCGGTGC
Found at i:1424205 original size:40 final size:39
Alignment explanation
Indices: 1424161--1424328 Score: 124
Period size: 40 Copynumber: 4.2 Consensus size: 39
1424151 AGTTTCCAAT
*
1424161 TTCGCAACACGAATCTGTAAATCGCAACATAGAAGTCAAA
1 TTCGCAACACGAAT-TGTAAATCGCAACACAGAAGTCAAA
* * * ** * * *
1424201 TTCGCAACGCG-ATAGTCAAATTCACAATGCGGTAGTTAAA
1 TTCGCAACACGAATTGT-AAA-TCGCAACACAGAAGTCAAA
* *
1424241 TTCGCAACGCGAATTTGTAAATCGCAACACAAAAGTCAAA
1 TTCGCAACACGAA-TTGTAAATCGCAACACAGAAGTCAAA
* * * * *
1424281 TTCCCAACACG-ATAGTCAAATTTGCAACACAAAAGTCAAT
1 TTCGCAACACGAATTGT-AAA-TCGCAACACAGAAGTCAAA
1424321 TTCGCAAC
1 TTCGCAAC
1424329 GTGAAATTTC
Statistics
Matches: 99, Mismatches: 23, Indels: 12
0.74 0.17 0.09
Matches are distributed among these distances:
38 5 0.05
39 9 0.09
40 78 0.79
41 4 0.04
42 3 0.03
ACGTcount: A:0.40, C:0.23, G:0.15, T:0.22
Consensus pattern (39 bp):
TTCGCAACACGAATTGTAAATCGCAACACAGAAGTCAAA
Found at i:1424217 original size:20 final size:20
Alignment explanation
Indices: 1424194--1424349 Score: 109
Period size: 20 Copynumber: 7.8 Consensus size: 20
1424184 GCAACATAGA
1424194 AGTCAAATTCGCAACGCGAT
1 AGTCAAATTCGCAACGCGAT
* * *
1424214 AGTCAAATTCACAATGCGGT
1 AGTCAAATTCGCAACGCGAT
*
1424234 AGTTAAATTCGCAACGCGAATT
1 AGTCAAATTCGCAACGCG-A-T
* * * *
1424256 TGT-AAA-TCGCAACACAAA
1 AGTCAAATTCGCAACGCGAT
* *
1424274 AGTCAAATTCCCAACACGAT
1 AGTCAAATTCGCAACGCGAT
* * * *
1424294 AGTCAAATTTGCAACACAAA
1 AGTCAAATTCGCAACGCGAT
* * *
1424314 AGTCAATTTCGCAACGTGAA
1 AGTCAAATTCGCAACGCGAT
*
1424334 ATTTCAAATTCGCAAC
1 A-GTCAAATTCGCAAC
1424350 TAGATTTTCG
Statistics
Matches: 105, Mismatches: 26, Indels: 9
0.75 0.19 0.06
Matches are distributed among these distances:
18 2 0.02
19 4 0.04
20 81 0.77
21 15 0.14
22 3 0.03
ACGTcount: A:0.40, C:0.22, G:0.15, T:0.23
Consensus pattern (20 bp):
AGTCAAATTCGCAACGCGAT
Found at i:1424325 original size:80 final size:80
Alignment explanation
Indices: 1424157--1424329 Score: 211
Period size: 80 Copynumber: 2.2 Consensus size: 80
1424147 ACCCAGTTTC
* * * * *
1424157 CAATTTCGCAACACGAATCTGTAAATCGCAACATAGAAGTCAAATTCGCAACGCGATAGTCAAAT
1 CAATTTCGCAACGCGAATCTGTAAATCGCAACACAAAAGTCAAATTCCCAACACGATAGTCAAAT
** ***
1424222 TCACAATGCGGTAGT
66 TCACAACACAAAAGT
* * *
1424237 TAAATTCGCAACGCGAATTTGTAAATCGCAACACAAAAGTCAAATTCCCAACACGATAGTCAAAT
1 CAATTTCGCAACGCGAATCTGTAAATCGCAACACAAAAGTCAAATTCCCAACACGATAGTCAAAT
**
1424302 TTGCAACACAAAAGT
66 TCACAACACAAAAGT
1424317 CAATTTCGCAACG
1 CAATTTCGCAACG
1424330 TGAAATTTCA
Statistics
Matches: 76, Mismatches: 17, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
80 76 1.00
ACGTcount: A:0.40, C:0.23, G:0.15, T:0.22
Consensus pattern (80 bp):
CAATTTCGCAACGCGAATCTGTAAATCGCAACACAAAAGTCAAATTCCCAACACGATAGTCAAAT
TCACAACACAAAAGT
Found at i:1424974 original size:12 final size:12
Alignment explanation
Indices: 1424953--1424986 Score: 50
Period size: 12 Copynumber: 2.8 Consensus size: 12
1424943 ACCACATTTC
*
1424953 CAATACCAAACA
1 CAATATCAAACA
1424965 CAATATCAAACA
1 CAATATCAAACA
*
1424977 CAATCTCAAA
1 CAATATCAAA
1424987 ACCCACAACC
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
12 20 1.00
ACGTcount: A:0.56, C:0.29, G:0.00, T:0.15
Consensus pattern (12 bp):
CAATATCAAACA
Found at i:1425139 original size:24 final size:24
Alignment explanation
Indices: 1425112--1425165 Score: 81
Period size: 24 Copynumber: 2.2 Consensus size: 24
1425102 GTATTCAAAA
*
1425112 TTTGATCTTGGTCAATACCCGGAC
1 TTTGATCTTGGTAAATACCCGGAC
* *
1425136 TTTGATCTTGGTAAATACTCGGAT
1 TTTGATCTTGGTAAATACCCGGAC
1425160 TTTGAT
1 TTTGAT
1425166 GATGTGATGG
Statistics
Matches: 27, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
24 27 1.00
ACGTcount: A:0.22, C:0.17, G:0.20, T:0.41
Consensus pattern (24 bp):
TTTGATCTTGGTAAATACCCGGAC
Found at i:1428318 original size:20 final size:20
Alignment explanation
Indices: 1428292--1428388 Score: 100
Period size: 20 Copynumber: 5.2 Consensus size: 20
1428282 AAACTTAAAT
1428292 TCGCAACGCGAAAATGAAAA
1 TCGCAACGCGAAAATGAAAA
*
1428312 TCACAA--CG---A-GAAAA
1 TCGCAACGCGAAAATGAAAA
* *
1428326 TTGCAACGCAAAAATGAAAA
1 TCGCAACGCGAAAATGAAAA
*
1428346 TTGCAACGCGAAAATGAAAA
1 TCGCAACGCGAAAATGAAAA
*
1428366 TCGCAACGCGAAACT-AAAA
1 TCGCAACGCGAAAATGAAAA
1428385 TCGC
1 TCGC
1428389 GTTGCGATTT
Statistics
Matches: 64, Mismatches: 7, Indels: 13
0.76 0.08 0.15
Matches are distributed among these distances:
14 9 0.14
15 1 0.02
16 1 0.02
18 2 0.03
19 9 0.14
20 42 0.66
ACGTcount: A:0.49, C:0.21, G:0.18, T:0.12
Consensus pattern (20 bp):
TCGCAACGCGAAAATGAAAA
Found at i:1428332 original size:34 final size:35
Alignment explanation
Indices: 1428288--1428360 Score: 103
Period size: 34 Copynumber: 2.1 Consensus size: 35
1428278 TCTGAAACTT
*
1428288 AAATTCGCAACGCGAAAATGAAAATCACAACGAGA
1 AAATTCGCAACGCAAAAATGAAAATCACAACGAGA
** *
1428323 AAATT-GCAACGCAAAAATGAAAATTGCAACGCGA
1 AAATTCGCAACGCAAAAATGAAAATCACAACGAGA
1428357 AAAT
1 AAAT
1428361 GAAAATCGCA
Statistics
Matches: 34, Mismatches: 4, Indels: 1
0.87 0.10 0.03
Matches are distributed among these distances:
34 29 0.85
35 5 0.15
ACGTcount: A:0.52, C:0.18, G:0.16, T:0.14
Consensus pattern (35 bp):
AAATTCGCAACGCAAAAATGAAAATCACAACGAGA
Found at i:1428440 original size:20 final size:20
Alignment explanation
Indices: 1428401--1428440 Score: 53
Period size: 20 Copynumber: 2.0 Consensus size: 20
1428391 TGCGATTTTG
* * *
1428401 GTGTTGCGATTTTCATTTTC
1 GTGTTGCGAATTTAAGTTTC
1428421 GTGTTGCGAATTTAAGTTTC
1 GTGTTGCGAATTTAAGTTTC
1428441 AAAAACTATT
Statistics
Matches: 17, Mismatches: 3, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
20 17 1.00
ACGTcount: A:0.15, C:0.12, G:0.23, T:0.50
Consensus pattern (20 bp):
GTGTTGCGAATTTAAGTTTC
Found at i:1428959 original size:20 final size:20
Alignment explanation
Indices: 1428934--1429135 Score: 115
Period size: 20 Copynumber: 10.1 Consensus size: 20
1428924 TAATATTGTG
*
1428934 TTTCGTGTTGTGACTTTGAC
1 TTTCGTGTTGTGAATTTGAC
* * *
1428954 TTTCGTATTGTGAATTTAAT
1 TTTCGTGTTGTGAATTTGAC
* *
1428974 TTTCGCGTTGCGAATTTGAC
1 TTTCGTGTTGTGAATTTGAC
* * **
1428994 TTTTGTATTGCAAATTTGAC
1 TTTCGTGTTGTGAATTTGAC
** * *
1429014 TTTTATGTTGCGAATTTGGC
1 TTTCGTGTTGTGAATTTGAC
*
1429034 TATT-GCGTTGTGAATTTGAC
1 T-TTCGTGTTGTGAATTTGAC
**
1429054 -TTCTGTGTTACG-ATTT-AC
1 TTTC-GTGTTGTGAATTTGAC
* *
1429072 AAATTCATGTTGTGAATTTGAC
1 --TTTCGTGTTGTGAATTTGAC
* *
1429094 TTTTGTGTTGCGAATTTGAC
1 TTTCGTGTTGTGAATTTGAC
* * **
1429114 TATCGCGTTGCAAATTTGAC
1 TTTCGTGTTGTGAATTTGAC
1429134 TT
1 TT
1429136 GTGTGTTGCG
Statistics
Matches: 138, Mismatches: 36, Indels: 16
0.73 0.19 0.08
Matches are distributed among these distances:
18 4 0.03
19 4 0.03
20 119 0.86
21 9 0.07
22 2 0.01
ACGTcount: A:0.20, C:0.12, G:0.21, T:0.47
Consensus pattern (20 bp):
TTTCGTGTTGTGAATTTGAC
Found at i:1429024 original size:40 final size:40
Alignment explanation
Indices: 1428980--1429171 Score: 149
Period size: 40 Copynumber: 4.8 Consensus size: 40
1428970 TAATTTTCGC
* * ** *
1428980 GTTGCGAATTTGACTTTTGTATTGCAAATTTGACTTTTAT
1 GTTGCGAATTTGACTATCGCGTTGCAAATTTGACTTTTGT
* * ** *
1429020 GTTGCGAATTTGGCTATTGCGTTGTGAATTTGACTTCTGT
1 GTTGCGAATTTGACTATCGCGTTGCAAATTTGACTTTTGT
* * ** **
1429060 GTTACG-ATTT-ACAAATTCATGTTGTGAATTTGACTTTTGT
1 GTTGCGAATTTGAC-TA-TCGCGTTGCAAATTTGACTTTTGT
*
1429100 GTTGCGAATTTGACTATCGCGTTGCAAATTTGACTTGTGT
1 GTTGCGAATTTGACTATCGCGTTGCAAATTTGACTTTTGT
* *
1429140 GTTGCG-ATTT-ACAGATTCGCGTTGCGAATTTG
1 GTTGCGAATTTGAC-TA-TCGCGTTGCAAATTTG
1429172 GAAAATCGCA
Statistics
Matches: 122, Mismatches: 24, Indels: 12
0.77 0.15 0.08
Matches are distributed among these distances:
38 3 0.02
39 10 0.08
40 102 0.84
41 5 0.04
42 2 0.02
ACGTcount: A:0.20, C:0.12, G:0.23, T:0.44
Consensus pattern (40 bp):
GTTGCGAATTTGACTATCGCGTTGCAAATTTGACTTTTGT
Found at i:1429090 original size:80 final size:80
Alignment explanation
Indices: 1429001--1429171 Score: 234
Period size: 80 Copynumber: 2.1 Consensus size: 80
1428991 GACTTTTGTA
* * * **
1429001 TTGCAAATTTGACTTTTATGTTGCGAATTTGGCTATTGCGTTGTGAATTTGACTTCTGTGTTACG
1 TTGCGAATTTGACTTTTATGTTGCGAATTTGACTATCGCGTTGCAAATTTGACTTCTGTGTTACG
*
1429066 ATTTACAAATTCATG
66 ATTTACAAATTCACG
* * * *
1429081 TTGTGAATTTGACTTTTGTGTTGCGAATTTGACTATCGCGTTGCAAATTTGACTTGTGTGTTGCG
1 TTGCGAATTTGACTTTTATGTTGCGAATTTGACTATCGCGTTGCAAATTTGACTTCTGTGTTACG
* *
1429146 ATTTACAGATTCGCG
66 ATTTACAAATTCACG
1429161 TTGCGAATTTG
1 TTGCGAATTTG
1429172 GAAAATCGCA
Statistics
Matches: 78, Mismatches: 13, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
80 78 1.00
ACGTcount: A:0.20, C:0.13, G:0.23, T:0.44
Consensus pattern (80 bp):
TTGCGAATTTGACTTTTATGTTGCGAATTTGACTATCGCGTTGCAAATTTGACTTCTGTGTTACG
ATTTACAAATTCACG
Found at i:1429163 original size:20 final size:20
Alignment explanation
Indices: 1429140--1429248 Score: 74
Period size: 20 Copynumber: 5.3 Consensus size: 20
1429130 TGACTTGTGT
*
1429140 GTTGCGATTTACAGATTCGC
1 GTTGCGATTTACAAATTCGC
** *
1429160 GTTGCGAATTTGGAAAATCGC
1 GTTGCG-ATTTACAAATTCGC
** *
1429181 AATGCGATTTACAGATTCGC
1 GTTGCGATTTACAAATTCGC
** *
1429201 GTTGCGAATTTGGAAAATCGC
1 GTTGCG-ATTTACAAATTCGC
** * *
1429222 AATGCAATTTACATATTCGC
1 GTTGCGATTTACAAATTCGC
1429242 GTTGCGA
1 GTTGCGA
1429249 AATTGGAAAT
Statistics
Matches: 61, Mismatches: 26, Indels: 4
0.67 0.29 0.04
Matches are distributed among these distances:
20 34 0.56
21 27 0.44
ACGTcount: A:0.28, C:0.17, G:0.24, T:0.31
Consensus pattern (20 bp):
GTTGCGATTTACAAATTCGC
Found at i:1429197 original size:41 final size:41
Alignment explanation
Indices: 1429142--1429257 Score: 205
Period size: 41 Copynumber: 2.8 Consensus size: 41
1429132 ACTTGTGTGT
1429142 TGCGATTTACAGATTCGCGTTGCGAATTTGGAAAATCGCAA
1 TGCGATTTACAGATTCGCGTTGCGAATTTGGAAAATCGCAA
1429183 TGCGATTTACAGATTCGCGTTGCGAATTTGGAAAATCGCAA
1 TGCGATTTACAGATTCGCGTTGCGAATTTGGAAAATCGCAA
* * *
1429224 TGCAATTTACATATTCGCGTTGCGAAATTGGAAA
1 TGCGATTTACAGATTCGCGTTGCGAATTTGGAAA
1429258 TTGGGTTACG
Statistics
Matches: 72, Mismatches: 3, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
41 72 1.00
ACGTcount: A:0.30, C:0.16, G:0.23, T:0.30
Consensus pattern (41 bp):
TGCGATTTACAGATTCGCGTTGCGAATTTGGAAAATCGCAA
Found at i:1431776 original size:29 final size:29
Alignment explanation
Indices: 1431735--1431807 Score: 71
Period size: 29 Copynumber: 2.6 Consensus size: 29
1431725 TTTTTTAATT
* *
1431735 TTAACTTTTGGGACTAAAT-TGAATTT-TAA
1 TTAAATTTAGGGAC-AAATGTGAATTTAT-A
*
1431764 TTAAATTTAGGGACCAATGTGAATTTATA
1 TTAAATTTAGGGACAAATGTGAATTTATA
*
1431793 TTAAATTCA-GGACAA
1 TTAAATTTAGGGACAA
1431808 TTTTATAAAT
Statistics
Matches: 37, Mismatches: 5, Indels: 5
0.79 0.11 0.11
Matches are distributed among these distances:
28 8 0.22
29 28 0.76
30 1 0.03
ACGTcount: A:0.38, C:0.08, G:0.15, T:0.38
Consensus pattern (29 bp):
TTAAATTTAGGGACAAATGTGAATTTATA
Found at i:1437451 original size:26 final size:26
Alignment explanation
Indices: 1437414--1437473 Score: 75
Period size: 26 Copynumber: 2.3 Consensus size: 26
1437404 CTCAAACACT
* * * *
1437414 ATTCAGCAATGATATATTCCCCCTCC
1 ATTCAGCCATGAGACATGCCCCCTCC
*
1437440 TTTCAGCCATGAGACATGCCCCCTCC
1 ATTCAGCCATGAGACATGCCCCCTCC
1437466 ATTCAGCC
1 ATTCAGCC
1437474 GAACCAACAC
Statistics
Matches: 28, Mismatches: 6, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
26 28 1.00
ACGTcount: A:0.23, C:0.38, G:0.12, T:0.27
Consensus pattern (26 bp):
ATTCAGCCATGAGACATGCCCCCTCC
Found at i:1440738 original size:122 final size:122
Alignment explanation
Indices: 1440521--1440890 Score: 677
Period size: 122 Copynumber: 3.0 Consensus size: 122
1440511 TCATACATGA
*
1440521 ACTATACCGATTCTCAGTTTCATACATAATGTTTAAAAATTCTCGATTTTATATATGATGTTTTT
1 ACTATACCGATTCTCAGTTTCATACATAATGTTTAAAAATTCTCGATTTTATACATGATGTTTTT
* * *
1440586 TTCCATTAACGGATTCACCAACTTCCGTCACGGAATATGACGTGGAACCCTACGACC
66 TTCCATTGACGGATTCACCCACTTCTGTCACGGAATATGACGTGGAACCCTACGACC
*
1440643 ACTATACCGATTCTCAGTTTCATACATAATGTTTAAAAATTCTCGATTTTATACATGACGTTTTT
1 ACTATACCGATTCTCAGTTTCATACATAATGTTTAAAAATTCTCGATTTTATACATGATGTTTTT
*
1440708 TGCCATTGACGGATTCACCCACTTCTGTCACGGAATATGACGTGGAACCCTACGACC
66 TTCCATTGACGGATTCACCCACTTCTGTCACGGAATATGACGTGGAACCCTACGACC
1440765 ACTATACCGATTCTCAGTTTCATACATAATGTTTAAAAATTCTCGATTTTATACATGATGTTTTT
1 ACTATACCGATTCTCAGTTTCATACATAATGTTTAAAAATTCTCGATTTTATACATGATGTTTTT
*
1440830 TTCCATTGACGGATTCACCCACTTCTGTCACGGAATATGACGTGGAACCCTATGACC
66 TTCCATTGACGGATTCACCCACTTCTGTCACGGAATATGACGTGGAACCCTACGACC
1440887 ACTA
1 ACTA
1440891 ATAAAATGAC
Statistics
Matches: 239, Mismatches: 9, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
122 239 1.00
ACGTcount: A:0.29, C:0.23, G:0.14, T:0.35
Consensus pattern (122 bp):
ACTATACCGATTCTCAGTTTCATACATAATGTTTAAAAATTCTCGATTTTATACATGATGTTTTT
TTCCATTGACGGATTCACCCACTTCTGTCACGGAATATGACGTGGAACCCTACGACC
Found at i:1441092 original size:40 final size:40
Alignment explanation
Indices: 1441048--1441151 Score: 133
Period size: 38 Copynumber: 2.6 Consensus size: 40
1441038 TAACTATACT
*
1441048 TTATTTTATTAATATTTTTATAACATGGCATC-AGTTAGTA
1 TTATTTTATTAATATTTTTATAACATGACATCTA-TTAGTA
* **
1441088 TTATTTTATT-A-ATTTTTATGATGTGACATCTATTAGTA
1 TTATTTTATTAATATTTTTATAACATGACATCTATTAGTA
*
1441126 TTATTTTATTAATATTTTTATTACAT
1 TTATTTTATTAATATTTTTATAACAT
1441152 AAAATTAAAA
Statistics
Matches: 54, Mismatches: 7, Indels: 6
0.81 0.10 0.09
Matches are distributed among these distances:
38 31 0.57
39 3 0.06
40 20 0.37
ACGTcount: A:0.31, C:0.06, G:0.08, T:0.56
Consensus pattern (40 bp):
TTATTTTATTAATATTTTTATAACATGACATCTATTAGTA
Done.