Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: VEPZ01009625.1 Hibiscus syriacus cultivar Beakdansim tig00117017_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: 6938204
ACGTcount: A:0.33, C:0.17, G:0.17, T:0.33
File 11 of 25
Found at i:3502563 original size:18 final size:19
Alignment explanation
Indices: 3502523--3502561 Score: 69
Period size: 19 Copynumber: 2.1 Consensus size: 19
3502513 CTCCCCGTCT
*
3502523 CCGTCCCCGTTTAAAAAAC
1 CCGTCCCCGCTTAAAAAAC
3502542 CCGTCCCCGCTTAAAAAAC
1 CCGTCCCCGCTTAAAAAAC
3502561 C
1 C
3502562 GTGAGGATTT
Statistics
Matches: 19, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
19 19 1.00
ACGTcount: A:0.31, C:0.41, G:0.10, T:0.18
Consensus pattern (19 bp):
CCGTCCCCGCTTAAAAAAC
Found at i:3502784 original size:12 final size:12
Alignment explanation
Indices: 3502767--3502810 Score: 70
Period size: 12 Copynumber: 3.7 Consensus size: 12
3502757 TTTTAATATT
*
3502767 TATCGGACTGGG
1 TATCGGGCTGGG
*
3502779 TATCGGGCCGGG
1 TATCGGGCTGGG
3502791 TATCGGGCTGGG
1 TATCGGGCTGGG
3502803 TATCGGGC
1 TATCGGGC
3502811 CAGGTAATCG
Statistics
Matches: 29, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
12 29 1.00
ACGTcount: A:0.11, C:0.20, G:0.45, T:0.23
Consensus pattern (12 bp):
TATCGGGCTGGG
Found at i:3502801 original size:24 final size:24
Alignment explanation
Indices: 3502767--3502822 Score: 85
Period size: 24 Copynumber: 2.3 Consensus size: 24
3502757 TTTTAATATT
* *
3502767 TATCGGACTGGGTATCGGGCCGGG
1 TATCGGGCTGGGTATCGGGCCAGG
3502791 TATCGGGCTGGGTATCGGGCCAGG
1 TATCGGGCTGGGTATCGGGCCAGG
3502815 TAATCGGG
1 T-ATCGGG
3502823 GCGAGGATTA
Statistics
Matches: 29, Mismatches: 2, Indels: 1
0.91 0.06 0.03
Matches are distributed among these distances:
24 23 0.79
25 6 0.21
ACGTcount: A:0.14, C:0.20, G:0.45, T:0.21
Consensus pattern (24 bp):
TATCGGGCTGGGTATCGGGCCAGG
Found at i:3502822 original size:13 final size:12
Alignment explanation
Indices: 3502776--3502822 Score: 67
Period size: 12 Copynumber: 3.8 Consensus size: 12
3502766 TTATCGGACT
3502776 GGGTATCGGGCC
1 GGGTATCGGGCC
*
3502788 GGGTATCGGGCT
1 GGGTATCGGGCC
3502800 GGGTATCGGGCC
1 GGGTATCGGGCC
*
3502812 AGGTAATCGGG
1 GGGT-ATCGGG
3502823 GCGAGGATTA
Statistics
Matches: 31, Mismatches: 3, Indels: 1
0.89 0.09 0.03
Matches are distributed among these distances:
12 25 0.81
13 6 0.19
ACGTcount: A:0.13, C:0.19, G:0.49, T:0.19
Consensus pattern (12 bp):
GGGTATCGGGCC
Found at i:3504251 original size:21 final size:21
Alignment explanation
Indices: 3504227--3504275 Score: 71
Period size: 21 Copynumber: 2.3 Consensus size: 21
3504217 TAGTTGTTAA
* *
3504227 TGTTGATTATGTTTTAGAAAT
1 TGTTAATTATGCTTTAGAAAT
*
3504248 TGTTAATTATGCTTTAGTAAT
1 TGTTAATTATGCTTTAGAAAT
3504269 TGTTAAT
1 TGTTAAT
3504276 ATTGAGTATG
Statistics
Matches: 25, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
21 25 1.00
ACGTcount: A:0.29, C:0.02, G:0.16, T:0.53
Consensus pattern (21 bp):
TGTTAATTATGCTTTAGAAAT
Found at i:3504251 original size:27 final size:27
Alignment explanation
Indices: 3504220--3504366 Score: 168
Period size: 27 Copynumber: 5.8 Consensus size: 27
3504210 GGATCAATAG
*
3504220 TTGTTAATGTTGATTATGTTTTAGAAA
1 TTGTTAATGTTGATTATGTTTTAGTAA
*
3504247 TTGTT-A-----ATTATGCTTTAGTAA
1 TTGTTAATGTTGATTATGTTTTAGTAA
* *
3504268 TTGTTAATATTGAGTATGTTTTAGTAA
1 TTGTTAATGTTGATTATGTTTTAGTAA
*
3504295 TTGCTAATGTTGATTATGTTTTAGTAA
1 TTGTTAATGTTGATTATGTTTTAGTAA
*
3504322 TTGCTAATGTTGATTATGTTTTAGT-A
1 TTGTTAATGTTGATTATGTTTTAGTAA
*
3504348 --GTTAATATTGATTATGTTT
1 TTGTTAATGTTGATTATGTTT
3504367 AATTTGAATT
Statistics
Matches: 105, Mismatches: 9, Indels: 15
0.81 0.07 0.12
Matches are distributed among these distances:
21 18 0.17
22 1 0.01
24 17 0.16
26 2 0.02
27 67 0.64
ACGTcount: A:0.27, C:0.02, G:0.18, T:0.53
Consensus pattern (27 bp):
TTGTTAATGTTGATTATGTTTTAGTAA
Found at i:3516954 original size:19 final size:20
Alignment explanation
Indices: 3516932--3516970 Score: 53
Period size: 19 Copynumber: 2.0 Consensus size: 20
3516922 CGTTACATTG
*
3516932 CATTGTGGCTATAA-TTTAA
1 CATTATGGCTATAAGTTTAA
*
3516951 CATTATGGGTATAAGTTTAA
1 CATTATGGCTATAAGTTTAA
3516971 GTTCTCTTTG
Statistics
Matches: 17, Mismatches: 2, Indels: 1
0.85 0.10 0.05
Matches are distributed among these distances:
19 12 0.71
20 5 0.29
ACGTcount: A:0.33, C:0.08, G:0.18, T:0.41
Consensus pattern (20 bp):
CATTATGGCTATAAGTTTAA
Found at i:3521325 original size:5 final size:5
Alignment explanation
Indices: 3521307--3521380 Score: 55
Period size: 5 Copynumber: 14.6 Consensus size: 5
3521297 AAAACTAACC
* *
3521307 ATTTT ATTTT -TTTT ATTTT A-TTC ATTTG ACTTTCT ATTATT ATTTT
1 ATTTT ATTTT ATTTT ATTTT ATTTT ATTTT A-TTT-T ATT-TT ATTTT
* *
3521353 AATTT -TTTT ATTTC ATTATT ATTTT ATT
1 ATTTT ATTTT ATTTT ATT-TT ATTTT ATT
3521381 GTTTTTGTTT
Statistics
Matches: 55, Mismatches: 7, Indels: 14
0.72 0.09 0.18
Matches are distributed among these distances:
4 10 0.18
5 30 0.55
6 13 0.24
7 2 0.04
ACGTcount: A:0.22, C:0.05, G:0.01, T:0.72
Consensus pattern (5 bp):
ATTTT
Found at i:3521374 original size:25 final size:26
Alignment explanation
Indices: 3521308--3521386 Score: 78
Period size: 25 Copynumber: 3.2 Consensus size: 26
3521298 AAACTAACCA
**
3521308 TTTTATTT-T-TT-TTATTTTATTCA
1 TTTTATTTCTATTATTATTTTATTGT
*
3521331 TTTGACTTTCTATTATTATTTTAATT-T
1 TTTTA-TTTCTATTATTATTTT-ATTGT
3521358 TTTTATTTC-ATTATTATTTTATTGT
1 TTTTATTTCTATTATTATTTTATTGT
3521383 TTTT
1 TTTT
3521387 GTTTATTTTC
Statistics
Matches: 47, Mismatches: 3, Indels: 10
0.78 0.05 0.17
Matches are distributed among these distances:
23 4 0.09
24 6 0.13
25 17 0.36
26 6 0.13
27 11 0.23
28 3 0.06
ACGTcount: A:0.19, C:0.05, G:0.03, T:0.73
Consensus pattern (26 bp):
TTTTATTTCTATTATTATTTTATTGT
Found at i:3523057 original size:22 final size:22
Alignment explanation
Indices: 3523032--3523077 Score: 74
Period size: 22 Copynumber: 2.1 Consensus size: 22
3523022 ACTGGTTATT
*
3523032 ATATATATGATTTTTATCATGA
1 ATATATATGATGTTTATCATGA
*
3523054 ATATATATGATGTTTATTATGA
1 ATATATATGATGTTTATCATGA
3523076 AT
1 AT
3523078 GTTACTTCGG
Statistics
Matches: 22, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
22 22 1.00
ACGTcount: A:0.37, C:0.02, G:0.11, T:0.50
Consensus pattern (22 bp):
ATATATATGATGTTTATCATGA
Found at i:3523549 original size:16 final size:15
Alignment explanation
Indices: 3523528--3523559 Score: 55
Period size: 16 Copynumber: 2.1 Consensus size: 15
3523518 CTTATAAAGG
3523528 TGAAAAATATAGTGTA
1 TGAAAAATA-AGTGTA
3523544 TGAAAAATAAGTGTA
1 TGAAAAATAAGTGTA
3523559 T
1 T
3523560 ATTCGAGGGT
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
15 7 0.44
16 9 0.56
ACGTcount: A:0.50, C:0.00, G:0.19, T:0.31
Consensus pattern (15 bp):
TGAAAAATAAGTGTA
Found at i:3525001 original size:22 final size:22
Alignment explanation
Indices: 3524976--3525017 Score: 66
Period size: 22 Copynumber: 1.9 Consensus size: 22
3524966 GTTATTATAT
*
3524976 ATATGATTTTTATCATGAATAC
1 ATATGATGTTTATCATGAATAC
*
3524998 ATATGATGTTTATTATGAAT
1 ATATGATGTTTATCATGAAT
3525018 GTTACTTCGG
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:0.36, C:0.05, G:0.12, T:0.48
Consensus pattern (22 bp):
ATATGATGTTTATCATGAATAC
Found at i:3527333 original size:60 final size:60
Alignment explanation
Indices: 3527201--3527336 Score: 138
Period size: 60 Copynumber: 2.3 Consensus size: 60
3527191 CTGAGGGAAC
* * *
3527201 ACCTT-GGGTCCATAAGGTCTAACCCTAGCCAAAGCATAGGTTCCCACCTGAAGGGAGTG
1 ACCTTAGGGTCCATAAGGACTAACCCAAGCCAAAGCAGAGGTTCCCACCTGAAGGGAGTG
* * * * *
3527260 CCCTCA-GGCCCATAAGGACTTACCCAATGCACACAGCAGAGGTT-CCACCAT-AAGGGAGT-
1 ACCTTAGGGTCCATAAGGACTAACCCAA-GC-CAAAGCAGAGGTTCCCACC-TGAAGGGAGTG
3527319 ACCTTAGGGTCCATAAGG
1 ACCTTAGGGTCCATAAGG
3527337 GAGTACCTTA
Statistics
Matches: 61, Mismatches: 11, Indels: 9
0.75 0.14 0.11
Matches are distributed among these distances:
59 24 0.39
60 25 0.41
61 12 0.20
ACGTcount: A:0.29, C:0.29, G:0.24, T:0.18
Consensus pattern (60 bp):
ACCTTAGGGTCCATAAGGACTAACCCAAGCCAAAGCAGAGGTTCCCACCTGAAGGGAGTG
Found at i:3527387 original size:22 final size:22
Alignment explanation
Indices: 3527307--3527380 Score: 148
Period size: 22 Copynumber: 3.4 Consensus size: 22
3527297 AGAGGTTCCA
3527307 CCATAAGGGAGTACCTTAGGGT
1 CCATAAGGGAGTACCTTAGGGT
3527329 CCATAAGGGAGTACCTTAGGGT
1 CCATAAGGGAGTACCTTAGGGT
3527351 CCATAAGGGAGTACCTTAGGGT
1 CCATAAGGGAGTACCTTAGGGT
3527373 CCATAAGG
1 CCATAAGG
3527381 TCTTACCACT
Statistics
Matches: 52, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
22 52 1.00
ACGTcount: A:0.28, C:0.19, G:0.31, T:0.22
Consensus pattern (22 bp):
CCATAAGGGAGTACCTTAGGGT
Found at i:3527503 original size:35 final size:35
Alignment explanation
Indices: 3527437--3527504 Score: 84
Period size: 35 Copynumber: 1.9 Consensus size: 35
3527427 TTTAGATCAT
* * *
3527437 TAAGGAATTACCAGCTTGATCAGTCTGAACCTATA
1 TAAGAAATTACCAGCTTGACCAGTCTAAACCTATA
*
3527472 TAAGAAATTACCAGTTTGACC-GATCTAAACCTA
1 TAAGAAATTACCAGCTTGACCAG-TCTAAACCTA
3527505 CAGAAACTTC
Statistics
Matches: 28, Mismatches: 4, Indels: 2
0.82 0.12 0.06
Matches are distributed among these distances:
34 1 0.04
35 27 0.96
ACGTcount: A:0.37, C:0.21, G:0.15, T:0.28
Consensus pattern (35 bp):
TAAGAAATTACCAGCTTGACCAGTCTAAACCTATA
Found at i:3528604 original size:27 final size:27
Alignment explanation
Indices: 3528550--3528613 Score: 83
Period size: 27 Copynumber: 2.4 Consensus size: 27
3528540 TCATAAAATA
* *
3528550 TAGTCATTTTACACTTCAAGGGTATTT
1 TAGTCATTTTACACTTCAAAGCTATTT
* *
3528577 TAGTCATTTTACACTTTAAAGCTTTTT
1 TAGTCATTTTACACTTCAAAGCTATTT
*
3528604 TCGTCATTTT
1 TAGTCATTTT
3528614 TACCCCATAA
Statistics
Matches: 32, Mismatches: 5, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
27 32 1.00
ACGTcount: A:0.23, C:0.16, G:0.11, T:0.50
Consensus pattern (27 bp):
TAGTCATTTTACACTTCAAAGCTATTT
Found at i:3533613 original size:20 final size:20
Alignment explanation
Indices: 3533561--3533615 Score: 67
Period size: 20 Copynumber: 2.8 Consensus size: 20
3533551 GAACGGCGAT
* *
3533561 GAAATCACTA-TTTCACGGAT
1 GAAATCA-TATTTTCGCGGAC
*
3533581 GAAACCATATTTTCGCGGAC
1 GAAATCATATTTTCGCGGAC
3533601 GAAATCATATTTTCG
1 GAAATCATATTTTCG
3533616 GACTGTGATT
Statistics
Matches: 30, Mismatches: 4, Indels: 2
0.83 0.11 0.06
Matches are distributed among these distances:
19 2 0.07
20 28 0.93
ACGTcount: A:0.33, C:0.20, G:0.16, T:0.31
Consensus pattern (20 bp):
GAAATCATATTTTCGCGGAC
Found at i:3537780 original size:27 final size:26
Alignment explanation
Indices: 3537742--3537792 Score: 84
Period size: 27 Copynumber: 1.9 Consensus size: 26
3537732 CTGACGTGGT
*
3537742 AGTTTTTAGAAGGTCTAGTCAGCAGC
1 AGTTTTTAGAAGATCTAGTCAGCAGC
3537768 AGTTTTCTAGAAGATCTAGTCAGCA
1 AGTTTT-TAGAAGATCTAGTCAGCA
3537793 CCTTCTAGAA
Statistics
Matches: 23, Mismatches: 1, Indels: 1
0.92 0.04 0.04
Matches are distributed among these distances:
26 6 0.26
27 17 0.74
ACGTcount: A:0.29, C:0.16, G:0.24, T:0.31
Consensus pattern (26 bp):
AGTTTTTAGAAGATCTAGTCAGCAGC
Found at i:3553077 original size:17 final size:15
Alignment explanation
Indices: 3553046--3553083 Score: 58
Period size: 15 Copynumber: 2.4 Consensus size: 15
3553036 TTCCAATCAA
3553046 AAAAAGAAAAAAAAG
1 AAAAAGAAAAAAAAG
3553061 AAAAAGAAAAAGCAAAG
1 AAAAAGAAAAA--AAAG
3553078 AAAAAG
1 AAAAAG
3553084 GGACGAGAAT
Statistics
Matches: 21, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
15 11 0.52
17 10 0.48
ACGTcount: A:0.82, C:0.03, G:0.16, T:0.00
Consensus pattern (15 bp):
AAAAAGAAAAAAAAG
Found at i:3554152 original size:32 final size:32
Alignment explanation
Indices: 3554099--3554185 Score: 93
Period size: 32 Copynumber: 2.7 Consensus size: 32
3554089 AGCAATAGAG
* *
3554099 GGCATCTTTGAATATTCAACATCAAATATTGA
1 GGCATCTTTGGAGATTCAACATCAAATATTGA
* ** *
3554131 GGCATCTTTGGAGATTTAACATTGAATATTGG
1 GGCATCTTTGGAGATTCAACATCAAATATTGA
* * *
3554163 GGTATATTTGGGGATTCAACATC
1 GGCATCTTTGGAGATTCAACATC
3554186 CTGATGCAAA
Statistics
Matches: 44, Mismatches: 11, Indels: 0
0.80 0.20 0.00
Matches are distributed among these distances:
32 44 1.00
ACGTcount: A:0.31, C:0.13, G:0.21, T:0.36
Consensus pattern (32 bp):
GGCATCTTTGGAGATTCAACATCAAATATTGA
Found at i:3554523 original size:63 final size:64
Alignment explanation
Indices: 3554418--3554574 Score: 196
Period size: 64 Copynumber: 2.5 Consensus size: 64
3554408 TGGTGGATGC
* *
3554418 TCAACTTCACAGCGAAGGAGCATCTG--TCAACAAACAACTTTT-CAATTTCATTCAGAGTCAAT
1 TCAACTTCACAGCGAAGGA-TAT-TGACTCAACAAACAACTTTTCCAATTTCATTCAAAGTCAAT
3554480 T
64 T
* *
3554481 TCAACTTCACAGCGAAGGATATTGTACTCAACAAACAA-TTTTCCAGTTTCGTTCAAAGTCAATT
1 TCAACTTCACAGCGAAGGATATTG-ACTCAACAAACAACTTTTCCAATTTCATTCAAAGTCAATT
**
3554545 TCAACTTCACATAGAAGGATATTGAACTCA
1 TCAACTTCACAGCGAAGGATATTG-ACTCA
3554575 CAATTTGCTC
Statistics
Matches: 83, Mismatches: 7, Indels: 7
0.86 0.07 0.07
Matches are distributed among these distances:
61 2 0.02
62 2 0.02
63 23 0.28
64 56 0.67
ACGTcount: A:0.36, C:0.22, G:0.13, T:0.29
Consensus pattern (64 bp):
TCAACTTCACAGCGAAGGATATTGACTCAACAAACAACTTTTCCAATTTCATTCAAAGTCAATT
Found at i:3554862 original size:43 final size:43
Alignment explanation
Indices: 3554771--3554894 Score: 144
Period size: 43 Copynumber: 2.9 Consensus size: 43
3554761 ACGAATGAAC
* *
3554771 CATCCACGATTTTAACTCCACGAAGGAGGATATCGTACCAACG
1 CATCCACGATTTTAACTCCACGATGGAGGATATCGTACCAACA
* * * *
3554814 GATCCACGATTTCAACTCCACGATGGAGGATATCGTGCCCACA
1 CATCCACGATTTTAACTCCACGATGGAGGATATCGTACCAACA
* *
3554857 CATCCACTG-TTTTAACTTCACGATGAAGAGA-ATCGTAC
1 CATCCAC-GATTTTAACTCCACGATGGAG-GATATCGTAC
3554895 ACACAAGCAA
Statistics
Matches: 68, Mismatches: 11, Indels: 4
0.82 0.13 0.05
Matches are distributed among these distances:
43 65 0.96
44 3 0.04
ACGTcount: A:0.31, C:0.27, G:0.19, T:0.23
Consensus pattern (43 bp):
CATCCACGATTTTAACTCCACGATGGAGGATATCGTACCAACA
Found at i:3555196 original size:43 final size:43
Alignment explanation
Indices: 3555105--3555215 Score: 123
Period size: 43 Copynumber: 2.6 Consensus size: 43
3555095 ACGAAGGGGC
* * * *
3555105 CATCCGCGATTTCAACTCCACGATGGACGATATCGTACCCACG
1 CATCCACGATTTCAACTCCACGACGGACGATACCGTACCCACA
* * * *
3555148 GATCCACGATTGCAACTCCACGACGGAGGATACCGTGCCCACA
1 CATCCACGATTTCAACTCCACGACGGACGATACCGTACCCACA
* * *
3555191 CATCCAAGATTTTAACTTCACGACG
1 CATCCACGATTTCAACTCCACGACG
3555216 AAGGGAATCG
Statistics
Matches: 55, Mismatches: 13, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
43 55 1.00
ACGTcount: A:0.28, C:0.33, G:0.19, T:0.20
Consensus pattern (43 bp):
CATCCACGATTTCAACTCCACGACGGACGATACCGTACCCACA
Found at i:3555354 original size:334 final size:335
Alignment explanation
Indices: 3554705--3555486 Score: 1097
Period size: 334 Copynumber: 2.3 Consensus size: 335
3554695 GCAATAGTAC
* *
3554705 ATGCTTGGGTTTCAACTTCACGACGAAGGATATTCAAGTCAAGGCTCAACTTCATAACGAATGAA
1 ATGCTTGGATTTCAACTTCACGACGAAGGATATTCAAGTCAAGGCTCAACTTCA-GACGAATGAA
* * * *
3554770 CCATCCACGATTTTAACTCCACGAAGGAGGATATCGTACCAACGGATCCACGATTTCAACTCCAC
65 CCATCCACGATTTCAACTCCACGATGGAGGATATCGTACCCACGGATCCACGATTGCAACTCCAC
* * * *
3554835 GATGGAGGATATCGTGCCCACACATCCACTGTTTTAACTTCACGATGAAGAGAATCGTACACACA
130 GACGGAGGATACCGTGCCCACACATCCACAGTTTTAACTTCACGACGAAGAGAATCGTACACACA
* * *
3554900 AGCAACATCCATCTCTAGATTGGATTTCAACTTCACGAAGAAGGATTTCGAACTCAAAGAAGGAG
195 AGCAACATCCATCTCTAGATTAGATTTCAACTTCACGAAGAAGGATATCCAACTCAAAGAAGGAG
* * * * *
3554965 TGTCTATCAATAAACTTTACAGTTTGAGAGCCAATTTCAACTTTACGATGAAGGATATTGGATTC
260 TGTCTATCAATAAACTTTACAGTTTCAAAGCCAATTTCAACTTCACGACGAAGGATATTGGACTC
3555030 GAAACAACACA
325 GAAACAACACA
* **
3555041 A-GCTTGGATTTCAACTTCACGACGAAGGAT-TTCAAGTCAAGGCTCAACTTCACGACGAAGGGG
1 ATGCTTGGATTTCAACTTCACGACGAAGGATATTCAAGTCAAGGCTCAACTTCA-GACGAATGAA
* *
3555104 CCATCCGCGATTTCAACTCCACGATGGACGATATCGTACCCACGGATCCACGATTGCAACTCCAC
65 CCATCCACGATTTCAACTCCACGATGGAGGATATCGTACCCACGGATCCACGATTGCAACTCCAC
*
3555169 GACGGAGGATACCGTGCCCACACATCCA-AGATTTTAACTTCACGACGAAGGGAATCGTACACAC
130 GACGGAGGATACCGTGCCCACACATCCACAG-TTTTAACTTCACGACGAAGAGAATCGTACACAC
* *
3555233 AAGCAACATCCATCTCTAGATTAGATTTCAACTTCACGACGAAGGATATCCAACTCAAGGAAGGA
194 AAGCAACATCCATCTCTAGATTAGATTTCAACTTCACGAAGAAGGATATCCAACTCAAAGAAGGA
* * *
3555298 GTGTTCT-TCAATAAACTTTCCAGTTTCAAAGTCAATTTCAACTTCACTG-CGAAGGATATTGGC
259 GTG-TCTATCAATAAACTTTACAGTTTCAAAGCCAATTTCAACTTCAC-GACGAAGGATATTGGA
**
3555361 CTCGAAACAATGCA
322 CTCGAAACAACACA
* * *
3555375 ATTTACATTGGATTTCAACTTCACGACGAAGGATATCCAATTCTAAGGCTCAACTTCAGAACGAA
1 A--TGC-TTGGATTTCAACTTCACGACGAAGGATATTCAAGTC-AAGGCTCAACTTCAG-ACGAA
* * * *
3555440 TGAACCATTCACGATTTCAACTTCACGATGAAGGATATCGTGCCCAC
61 TGAACCATCCACGATTTCAACTCCACGATGGAGGATATCGTACCCAC
3555487 ATTTATTTTT
Statistics
Matches: 392, Mismatches: 44, Indels: 16
0.87 0.10 0.04
Matches are distributed among these distances:
333 1 0.00
334 266 0.68
335 32 0.08
336 1 0.00
337 1 0.00
338 27 0.07
339 7 0.02
340 57 0.15
ACGTcount: A:0.33, C:0.24, G:0.18, T:0.24
Consensus pattern (335 bp):
ATGCTTGGATTTCAACTTCACGACGAAGGATATTCAAGTCAAGGCTCAACTTCAGACGAATGAAC
CATCCACGATTTCAACTCCACGATGGAGGATATCGTACCCACGGATCCACGATTGCAACTCCACG
ACGGAGGATACCGTGCCCACACATCCACAGTTTTAACTTCACGACGAAGAGAATCGTACACACAA
GCAACATCCATCTCTAGATTAGATTTCAACTTCACGAAGAAGGATATCCAACTCAAAGAAGGAGT
GTCTATCAATAAACTTTACAGTTTCAAAGCCAATTTCAACTTCACGACGAAGGATATTGGACTCG
AAACAACACA
Found at i:3555571 original size:117 final size:118
Alignment explanation
Indices: 3555376--3555595 Score: 372
Period size: 117 Copynumber: 1.9 Consensus size: 118
3555366 AACAATGCAA
* *
3555376 TTTACATTGGATTTCAACTTCACGACGAAGGATATCCAATTCTAAGGCTCAACTTCAGAACGAAT
1 TTTACATTGGATTTCAACTTCACGACGAAGGATATCAAATTCTAAAGCTCAACTTCAGAACGAAT
*
3555441 GAACCATTCACGATTTCAACTTCACGATGAAGGATATCGTGCCCACATTTATT
66 GAACCATTCACGATTTCAACTTCACGACGAAGGATATCGTGCCCACATTTATT
* *
3555494 TTTAGATTTGATTTCAACTTCACGACGAAGGATATCAAATT-TAAAGCTCAACTTCAGAACGAAT
1 TTTACATTGGATTTCAACTTCACGACGAAGGATATCAAATTCTAAAGCTCAACTTCAGAACGAAT
3555558 GAACCA-TCAACGATTTCAACTTCACGACGAAGGATATC
66 GAACCATTC-ACGATTTCAACTTCACGACGAAGGATATC
3555596 CAATTCAAGG
Statistics
Matches: 96, Mismatches: 5, Indels: 3
0.92 0.05 0.03
Matches are distributed among these distances:
116 2 0.02
117 56 0.58
118 38 0.40
ACGTcount: A:0.35, C:0.22, G:0.15, T:0.29
Consensus pattern (118 bp):
TTTACATTGGATTTCAACTTCACGACGAAGGATATCAAATTCTAAAGCTCAACTTCAGAACGAAT
GAACCATTCACGATTTCAACTTCACGACGAAGGATATCGTGCCCACATTTATT
Found at i:3555588 original size:32 final size:32
Alignment explanation
Indices: 3555541--3555657 Score: 105
Period size: 32 Copynumber: 3.6 Consensus size: 32
3555531 AATTTAAAGC
*
3555541 TCAACTTCA-GAACGAATGAACCATCAACGATT
1 TCAACTTCACG-ACGAAGGAACCATCAACGATT
**
3555573 TCAACTTCACGACGAAGGATATCCAATTCAA-GGCT
1 TCAACTTCACGACGAAGGA-A-CC-A-TCAACGATT
* ** *
3555608 T-AACTTCACAACGAAGGGGCCATCCACGATT
1 TCAACTTCACGACGAAGGAACCATCAACGATT
3555639 TCAACTTCACGACGAAGGA
1 TCAACTTCACGACGAAGGA
3555658 TATTGTGTCC
Statistics
Matches: 67, Mismatches: 11, Indels: 14
0.73 0.12 0.15
Matches are distributed among these distances:
30 3 0.04
31 4 0.06
32 33 0.49
33 2 0.03
34 17 0.25
35 4 0.06
36 4 0.06
ACGTcount: A:0.36, C:0.26, G:0.17, T:0.21
Consensus pattern (32 bp):
TCAACTTCACGACGAAGGAACCATCAACGATT
Found at i:3555613 original size:34 final size:34
Alignment explanation
Indices: 3555509--3555624 Score: 98
Period size: 34 Copynumber: 3.5 Consensus size: 34
3555499 ATTTGATTTC
* * * *
3555509 AACTTCACGACGAAGGATATCAAATTTAAAGCTC
1 AACTTCACGACGAAGGATATCCAATTCAAGGCTT
* **
3555543 AACTTCA-GAACGAATGA-A-CC-A-TCAACGATTT
1 AACTTCACG-ACGAAGGATATCCAATTCAA-GGCTT
3555574 CAACTTCACGACGAAGGATATCCAATTCAAGGCTT
1 -AACTTCACGACGAAGGATATCCAATTCAAGGCTT
*
3555609 AACTTCACAACGAAGG
1 AACTTCACGACGAAGG
3555625 GGCCATCCAC
Statistics
Matches: 63, Mismatches: 11, Indels: 16
0.70 0.12 0.18
Matches are distributed among these distances:
30 3 0.05
31 2 0.03
32 15 0.24
33 4 0.06
34 31 0.49
35 4 0.06
36 4 0.06
ACGTcount: A:0.40, C:0.23, G:0.16, T:0.22
Consensus pattern (34 bp):
AACTTCACGACGAAGGATATCCAATTCAAGGCTT
Found at i:3555613 original size:66 final size:66
Alignment explanation
Indices: 3555503--3555660 Score: 235
Period size: 66 Copynumber: 2.4 Consensus size: 66
3555493 TTTTAGATTT
* * *
3555503 GATTTCAACTTCACGACGAAGGATATCAAATTTAAAGCTCAACTTCAGAACGAATGAACCATCAA
1 GATTTCAACTTCACGACGAAGGATATCAAATTCAAAGCTCAACTTCACAACGAAGGAACCATCAA
3555568 C
66 C
* * * ** *
3555569 GATTTCAACTTCACGACGAAGGATATCCAATTCAAGGCTTAACTTCACAACGAAGGGGCCATCCA
1 GATTTCAACTTCACGACGAAGGATATCAAATTCAAAGCTCAACTTCACAACGAAGGAACCATCAA
3555634 C
66 C
3555635 GATTTCAACTTCACGACGAAGGATAT
1 GATTTCAACTTCACGACGAAGGATAT
3555661 TGTGTCCACT
Statistics
Matches: 83, Mismatches: 9, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
66 83 1.00
ACGTcount: A:0.37, C:0.24, G:0.16, T:0.23
Consensus pattern (66 bp):
GATTTCAACTTCACGACGAAGGATATCAAATTCAAAGCTCAACTTCACAACGAAGGAACCATCAA
C
Found at i:3556056 original size:84 final size:84
Alignment explanation
Indices: 3555727--3556275 Score: 524
Period size: 84 Copynumber: 6.6 Consensus size: 84
3555717 ATCTAACTCA
* * * *
3555727 AAGAAGGAG-TATCTTTCAACAAAAGACCTTCAAGTTCGATTACTCTCAGCTCAAAGGAACATCA
1 AAGAAGG-GTTATCTGTCAACAAAAGACCTTCGAGTTCGATTACACTCAGCTCAAAGGCACATCA
* * * **
3555791 TTTGCAGTATAACTTATGTT
65 TTTGCAGCATAACTCAAGGC
* * * * * * *
3555811 GAGAATGGTTATCTG-CTAACCAAATACCTTCGAGTTCGATTACACCCATCTTAAAGGCACCATC
1 AAGAAGGGTTATCTGTC-AACAAAAGACCTTCGAGTTCGATTACACTCAGCTCAAAGGCA-CATC
* * *
3555875 ATTTGCAGCATAGCTCAATGA
64 ATTTGCAGCATAACTCAAGGC
* *
3555896 AAGAAGGGTTATC--T--ACCAAAGACCTTCGAGCTCGATTACACTCAGCTCAAAGGCACATCAT
1 AAGAAGGGTTATCTGTCAACAAAAGACCTTCGAGTTCGATTACACTCAGCTCAAAGGCACATCAT
*
3555957 TTACAGCATAACTCAAGGC
66 TTGCAGCATAACTCAAGGC
* * * * * *
3555976 TAGAAGGGTTATCTGTCAACAAAAGACCTTCGAGTTCGACTACGCTCAGCTCCAAGGCATATAAT
1 AAGAAGGGTTATCTGTCAACAAAAGACCTTCGAGTTCGATTACACTCAGCTCAAAGGCACATCAT
* *
3556041 TTGCAACATAGCTCAAGGC
66 TTGCAGCATAACTCAAGGC
** * * * * * * * *
3556060 AAGAAAAGCTATTTGCCAACAAAAGACCTTCGGGTTCGATTACACTCAGTTCTAAGGCATATAAT
1 AAGAAGGGTTATCTGTCAACAAAAGACCTTCGAGTTCGATTACACTCAGCTCAAAGGCACATCAT
* *
3556125 TTACAGTATAACTCAAGGC
66 TTGCAGCATAACTCAAGGC
* * * * *
3556144 TAGAAGGGTTATCTGCCAACAAAAGACCTTTGAGTTCGATTACATTCAGCTCAAAGACACATCAT
1 AAGAAGGGTTATCTGTCAACAAAAGACCTTCGAGTTCGATTACACTCAGCTCAAAGGCACATCAT
* * *
3556209 TTGTAGTATACCTCAAGGC
66 TTGCAGCATAACTCAAGGC
* * *
3556228 AAGAAGGGCTATCTG-C--C-AAAGACCTTCGAGTTCGATTATATTCAGCTC
1 AAGAAGGGTTATCTGTCAACAAAAGACCTTCGAGTTCGATTACACTCAGCTC
3556276 CAAGTCATAT
Statistics
Matches: 382, Mismatches: 75, Indels: 20
0.80 0.16 0.04
Matches are distributed among these distances:
80 62 0.16
81 37 0.10
82 1 0.00
83 3 0.01
84 250 0.65
85 29 0.08
ACGTcount: A:0.34, C:0.23, G:0.18, T:0.26
Consensus pattern (84 bp):
AAGAAGGGTTATCTGTCAACAAAAGACCTTCGAGTTCGATTACACTCAGCTCAAAGGCACATCAT
TTGCAGCATAACTCAAGGC
Found at i:3556649 original size:85 final size:84
Alignment explanation
Indices: 3556293--3556689 Score: 388
Period size: 84 Copynumber: 4.7 Consensus size: 84
3556283 TATCATCAAT
* * * * ** * * *
3556293 AAGGGTTATTTGCCAACCAAGACCTTCGAGTTCAATTATGCTCAGCTCCAAGGTACATC-ATTTA
1 AAGGGTTATCTGTCAACAAAGACCTTCGAGTTCGATTACACTCAGCTCAAAGGCATATCAATTTA
*
3556357 CAGCATAACTTAAGGCTAG
66 CAGCATAACTCAAGGCTAG
* ** * * *
3556376 AAGGGTTATCT-TCAGACAAAAGACCTTCGAGTTCGACTACGGTCACCTCCAAGGCATATC-ATC
1 AAGGGTTATCTGTCA-AC-AAAGACCTTCGAGTTCGATTACACTCAGCTCAAAGGCATATCAATT
** ** * *
3556439 TGTAGCATAACTTTAGGCAAT
64 TACAGCATAACTCAAGGCTAG
* * * * * * * *
3556460 AAAGGCTATCTGTCGACAAAATACCTTTGAGTTCAACTACACTCAGCTTAAAGGCATATCAA-TT
1 AAGGGTTATCTGTCAAC-AAAGACCTTCGAGTTCGATTACACTCAGCTCAAAGGCATATCAATTT
*
3556524 GCAGCATAACTCAAGGCTAG
65 ACAGCATAACTCAAGGCTAG
3556544 AAGGGTTATCTGTCAACAAAGACCTTCGAGTTCGATTACACTCAGCTCAAAGGCATATCAATTTT
1 AAGGGTTATCTGTCAACAAAGACCTTCGAGTTCGATTACACTCAGCTCAAAGGCATATCAA-TTT
* *
3556609 ACAGCATAGCTCAAGGCGAG
65 ACAGCATAACTCAAGGCTAG
* * * * *
3556629 AAGGGTTATCTGTCATCAAAGACCTTCGAGTTCGATTTCATTTAGCTCATAGGCATATCAA
1 AAGGGTTATCTGTCAACAAAGACCTTCGAGTTCGATTACACTCAGCTCAAAGGCATATCAA
3556690 CCGCATGGTA
Statistics
Matches: 259, Mismatches: 49, Indels: 10
0.81 0.15 0.03
Matches are distributed among these distances:
82 2 0.01
83 51 0.20
84 128 0.49
85 78 0.30
ACGTcount: A:0.32, C:0.22, G:0.18, T:0.27
Consensus pattern (84 bp):
AAGGGTTATCTGTCAACAAAGACCTTCGAGTTCGATTACACTCAGCTCAAAGGCATATCAATTTA
CAGCATAACTCAAGGCTAG
Found at i:3559395 original size:10 final size:10
Alignment explanation
Indices: 3559380--3559411 Score: 64
Period size: 10 Copynumber: 3.2 Consensus size: 10
3559370 AAATATTAAC
3559380 CAGATCAAAT
1 CAGATCAAAT
3559390 CAGATCAAAT
1 CAGATCAAAT
3559400 CAGATCAAAT
1 CAGATCAAAT
3559410 CA
1 CA
3559412 AAACCCTTCA
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
10 22 1.00
ACGTcount: A:0.50, C:0.22, G:0.09, T:0.19
Consensus pattern (10 bp):
CAGATCAAAT
Found at i:3560375 original size:12 final size:12
Alignment explanation
Indices: 3560358--3560384 Score: 54
Period size: 12 Copynumber: 2.2 Consensus size: 12
3560348 ATTTCGAATC
3560358 ATTAAAATTGTA
1 ATTAAAATTGTA
3560370 ATTAAAATTGTA
1 ATTAAAATTGTA
3560382 ATT
1 ATT
3560385 TGTATATGAT
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 15 1.00
ACGTcount: A:0.48, C:0.00, G:0.07, T:0.44
Consensus pattern (12 bp):
ATTAAAATTGTA
Found at i:3560458 original size:6 final size:6
Alignment explanation
Indices: 3560447--3560471 Score: 50
Period size: 6 Copynumber: 4.2 Consensus size: 6
3560437 TGAGTCAAAT
3560447 ATCCAA ATCCAA ATCCAA ATCCAA A
1 ATCCAA ATCCAA ATCCAA ATCCAA A
3560472 CAAAAATTTA
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 19 1.00
ACGTcount: A:0.52, C:0.32, G:0.00, T:0.16
Consensus pattern (6 bp):
ATCCAA
Found at i:3560709 original size:19 final size:20
Alignment explanation
Indices: 3560670--3560712 Score: 63
Period size: 19 Copynumber: 2.2 Consensus size: 20
3560660 TATGGGGTTT
*
3560670 TAAT-TAATTAATTTACTAA
1 TAATATAATTAATTTACAAA
3560689 TAATATAATTAATTTA-AAA
1 TAATATAATTAATTTACAAA
3560708 TAATA
1 TAATA
3560713 AAATATTAAA
Statistics
Matches: 22, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
19 11 0.50
20 11 0.50
ACGTcount: A:0.53, C:0.02, G:0.00, T:0.44
Consensus pattern (20 bp):
TAATATAATTAATTTACAAA
Found at i:3560887 original size:18 final size:16
Alignment explanation
Indices: 3560856--3560890 Score: 52
Period size: 18 Copynumber: 2.1 Consensus size: 16
3560846 AATAATGATT
3560856 TTAAATATTAAAATAA
1 TTAAATATTAAAATAA
3560872 TTAAATATAATAAAATAA
1 TTAAATAT--TAAAATAA
3560890 T
1 T
3560891 AAAAATTGTT
Statistics
Matches: 17, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
16 8 0.47
18 9 0.53
ACGTcount: A:0.63, C:0.00, G:0.00, T:0.37
Consensus pattern (16 bp):
TTAAATATTAAAATAA
Found at i:3565404 original size:14 final size:14
Alignment explanation
Indices: 3565385--3565415 Score: 62
Period size: 14 Copynumber: 2.2 Consensus size: 14
3565375 TACAATATAT
3565385 ATAAGAATTATACG
1 ATAAGAATTATACG
3565399 ATAAGAATTATACG
1 ATAAGAATTATACG
3565413 ATA
1 ATA
3565416 TATATCCATC
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:0.52, C:0.06, G:0.13, T:0.29
Consensus pattern (14 bp):
ATAAGAATTATACG
Found at i:3566515 original size:14 final size:14
Alignment explanation
Indices: 3566501--3566544 Score: 56
Period size: 14 Copynumber: 3.3 Consensus size: 14
3566491 ATTTTATAAT
*
3566501 TTAATT-AATTAAA
1 TTAATTAAATTTAA
*
3566514 TTTATTAAATTTAA
1 TTAATTAAATTTAA
3566528 TTAATTAAATTT-A
1 TTAATTAAATTTAA
3566541 TTAA
1 TTAA
3566545 AATTAAATAA
Statistics
Matches: 27, Mismatches: 3, Indels: 2
0.84 0.09 0.06
Matches are distributed among these distances:
13 10 0.37
14 17 0.63
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (14 bp):
TTAATTAAATTTAA
Found at i:3566528 original size:23 final size:23
Alignment explanation
Indices: 3566498--3566556 Score: 100
Period size: 23 Copynumber: 2.6 Consensus size: 23
3566488 TATATTTTAT
3566498 AATTTAATTAATTAAATTTATTA
1 AATTTAATTAATTAAATTTATTA
3566521 AATTTAATTAATTAAATTTATTA
1 AATTTAATTAATTAAATTTATTA
* *
3566544 AAATTAAATAATT
1 AATTTAATTAATT
3566557 TTAATAAATT
Statistics
Matches: 34, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
23 34 1.00
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (23 bp):
AATTTAATTAATTAAATTTATTA
Found at i:3566544 original size:32 final size:32
Alignment explanation
Indices: 3566497--3566577 Score: 92
Period size: 33 Copynumber: 2.5 Consensus size: 32
3566487 TTATATTTTA
* * * *
3566497 TAATTTAATTAATTAAATTTATTAAATTTAAT
1 TAATTAAATTTATTAAATTAAATAAATTTAAT
*
3566529 TAATTAAATTTATTAAAATTAAATAATTTTAAT
1 TAATTAAATTTATT-AAATTAAATAAATTTAAT
*
3566562 AAATTAAA-TTATTAAA
1 TAATTAAATTTATTAAA
3566578 AGTGAAGATT
Statistics
Matches: 42, Mismatches: 6, Indels: 3
0.82 0.12 0.06
Matches are distributed among these distances:
31 3 0.07
32 17 0.40
33 22 0.52
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (32 bp):
TAATTAAATTTATTAAATTAAATAAATTTAAT
Found at i:3568042 original size:110 final size:110
Alignment explanation
Indices: 3567757--3568128 Score: 490
Period size: 110 Copynumber: 3.4 Consensus size: 110
3567747 CACCTTCATA
* * * * * * * *
3567757 TAACTTGCATATTTGACACTTTTCTGTCAAATGCATAGCTA-GTCCATTATTTTTTTTACTCAAC
1 TAACTGGCATAATTGACACTTTTCTGCCAATTGCACAGTTAGGT-TATTA-TTCTTTTACTCAAC
* * * *
3567821 AATGTTTAAACTTTCATCTTTTACTCAATAGTGTTTAACCGTTCTTC
64 AGTGTTTAACCTTTCATCTTTTACTCAACAATGTTTAACCGTTCTTC
3567868 TAACTGGCATAATTG-------TCTGCCAATTGCACAGTTAGGTTATTATTCTTTTACTCAACAG
1 TAACTGGCATAATTGACACTTTTCTGCCAATTGCACAGTTAGGTTATTATTCTTTTACTCAACAG
* *
3567926 TGTTTAACCTTTCATCTTTTACTCAACAATGTTTAATCGTTATTC
66 TGTTTAACCTTTCATCTTTTACTCAACAATGTTTAACCGTTCTTC
* * *
3567971 TAACTGGCATAATTGACACCTTTCTGCCAATTGCAGAGTTAGGTTATTATTCTTTTACTCAACGG
1 TAACTGGCATAATTGACACTTTTCTGCCAATTGCACAGTTAGGTTATTATTCTTTTACTCAACAG
* *
3568036 TATTTAACCTTTAATCTTTTACTCAACAATGTTTAACCGTTCTTC
66 TGTTTAACCTTTCATCTTTTACTCAACAATGTTTAACCGTTCTTC
*
3568081 TAACTGGCATAATTGACACTTTTCTACCAATTGCACAGTTAGGTTATT
1 TAACTGGCATAATTGACACTTTTCTGCCAATTGCACAGTTAGGTTATT
3568129 GACCTGATAT
Statistics
Matches: 230, Mismatches: 23, Indels: 17
0.85 0.09 0.06
Matches are distributed among these distances:
103 69 0.30
104 19 0.08
105 2 0.01
110 127 0.55
111 13 0.06
ACGTcount: A:0.27, C:0.20, G:0.11, T:0.42
Consensus pattern (110 bp):
TAACTGGCATAATTGACACTTTTCTGCCAATTGCACAGTTAGGTTATTATTCTTTTACTCAACAG
TGTTTAACCTTTCATCTTTTACTCAACAATGTTTAACCGTTCTTC
Found at i:3568490 original size:57 final size:58
Alignment explanation
Indices: 3568341--3568534 Score: 268
Period size: 57 Copynumber: 3.4 Consensus size: 58
3568331 TATATTTCTC
* * * * *
3568341 ATACGAAAATTCATACACTTACTATGAATTTCTT-A-GTTCTACACATATAGTGCCCA
1 ATACGAAAATTCATACACTTAGTATGAATTTCTTAACTTTTTACACACAAAGTGCCCA
* *
3568397 ATACGGAAATTCATACACTTAGTATGAATTTCTTAACTTTTTTCACACAAAGTGCCCA
1 ATACGAAAATTCATACACTTAGTATGAATTTCTTAACTTTTTACACACAAAGTGCCCA
* * *
3568455 ATACGAAAATTC-TACATTTAGTATGAATTTCTTAACTTTTTGCACACGAAGTGCCCA
1 ATACGAAAATTCATACACTTAGTATGAATTTCTTAACTTTTTACACACAAAGTGCCCA
*
3568512 TTACGAAAATTCATACACTTAGT
1 ATACGAAAATTCATACACTTAGT
3568535 TAGGCTTGTA
Statistics
Matches: 122, Mismatches: 13, Indels: 4
0.88 0.09 0.03
Matches are distributed among these distances:
56 32 0.26
57 54 0.44
58 36 0.30
ACGTcount: A:0.35, C:0.20, G:0.10, T:0.35
Consensus pattern (58 bp):
ATACGAAAATTCATACACTTAGTATGAATTTCTTAACTTTTTACACACAAAGTGCCCA
Found at i:3568726 original size:14 final size:14
Alignment explanation
Indices: 3568707--3568762 Score: 75
Period size: 14 Copynumber: 4.3 Consensus size: 14
3568697 CGTTCGTGAA
3568707 CGTTCGGTTATGTT
1 CGTTCGGTTATGTT
3568721 CGTTCGG-T-TG-T
1 CGTTCGGTTATGTT
*
3568732 -GTTCGTTTATGTT
1 CGTTCGGTTATGTT
3568745 CGTTCGGTTATGTT
1 CGTTCGGTTATGTT
3568759 CGTT
1 CGTT
3568763 TATGTTCATT
Statistics
Matches: 36, Mismatches: 2, Indels: 8
0.78 0.04 0.17
Matches are distributed among these distances:
10 5 0.14
11 2 0.06
12 4 0.11
13 2 0.06
14 23 0.64
ACGTcount: A:0.05, C:0.14, G:0.29, T:0.52
Consensus pattern (14 bp):
CGTTCGGTTATGTT
Found at i:3568782 original size:24 final size:24
Alignment explanation
Indices: 3568708--3568769 Score: 106
Period size: 24 Copynumber: 2.6 Consensus size: 24
3568698 GTTCGTGAAC
* *
3568708 GTTCGGTTATGTTCGTTCGGTTGT
1 GTTCGTTTATGTTCGTTCGGTTAT
3568732 GTTCGTTTATGTTCGTTCGGTTAT
1 GTTCGTTTATGTTCGTTCGGTTAT
3568756 GTTCGTTTATGTTC
1 GTTCGTTTATGTTC
3568770 ATTCATTTAT
Statistics
Matches: 36, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
24 36 1.00
ACGTcount: A:0.06, C:0.13, G:0.27, T:0.53
Consensus pattern (24 bp):
GTTCGTTTATGTTCGTTCGGTTAT
Found at i:3569180 original size:10 final size:10
Alignment explanation
Indices: 3569165--3569233 Score: 54
Period size: 10 Copynumber: 8.1 Consensus size: 10
3569155 ATTTTTTTTT
3569165 TGTTCGTTTA
1 TGTTCGTTTA
3569175 TGTTCG----
1 TGTTCGTTTA
3569181 TGTTCGTTTA
1 TGTTCGTTTA
3569191 TGTTCG----
1 TGTTCGTTTA
3569197 TGTTCGTTTA
1 TGTTCGTTTA
3569207 TGTTCG----
1 TGTTCGTTTA
3569213 TGTTCGTTTA
1 TGTTCGTTTA
3569223 TGTTCGTTTA
1 TGTTCGTTTA
3569233 T
1 T
3569234 TTATTAAATG
Statistics
Matches: 47, Mismatches: 0, Indels: 24
0.66 0.00 0.34
Matches are distributed among these distances:
6 18 0.38
10 29 0.62
ACGTcount: A:0.07, C:0.12, G:0.23, T:0.58
Consensus pattern (10 bp):
TGTTCGTTTA
Found at i:3569186 original size:16 final size:16
Alignment explanation
Indices: 3569165--3569229 Score: 130
Period size: 16 Copynumber: 4.1 Consensus size: 16
3569155 ATTTTTTTTT
3569165 TGTTCGTTTATGTTCG
1 TGTTCGTTTATGTTCG
3569181 TGTTCGTTTATGTTCG
1 TGTTCGTTTATGTTCG
3569197 TGTTCGTTTATGTTCG
1 TGTTCGTTTATGTTCG
3569213 TGTTCGTTTATGTTCG
1 TGTTCGTTTATGTTCG
3569229 T
1 T
3569230 TTATTTATTA
Statistics
Matches: 49, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 49 1.00
ACGTcount: A:0.06, C:0.12, G:0.25, T:0.57
Consensus pattern (16 bp):
TGTTCGTTTATGTTCG
Found at i:3569364 original size:58 final size:58
Alignment explanation
Indices: 3569294--3569616 Score: 493
Period size: 58 Copynumber: 5.6 Consensus size: 58
3569284 ATTTCAGGCC
*
3569294 TACACTTAGTATGAATTTCTTAACTTTTTGCACACGAAGTGCCCAATACAAAAATTCA
1 TACACTTAGTATGAATTTCTTAACTTTTTGCACACGAAGTGCCCAATACGAAAATTCA
* * *
3569352 TACACTTAGTATGAATTTTTTAACTTTTTGTACAGGAAGTGCCCAATACGAAAATTCA
1 TACACTTAGTATGAATTTCTTAACTTTTTGCACACGAAGTGCCCAATACGAAAATTCA
* * *
3569410 TACACTTAGTATGAATTTCTTAACTTTTTGCACACGAATTACCCAATACAAAAATTCA
1 TACACTTAGTATGAATTTCTTAACTTTTTGCACACGAAGTGCCCAATACGAAAATTCA
* *
3569468 TACACTTAGTATGAATTTCTTAACTTTTTGCACACAAAGTGCCCAATACGGAAATTCA
1 TACACTTAGTATGAATTTCTTAACTTTTTGCACACGAAGTGCCCAATACGAAAATTCA
* * * * * *
3569526 AACACTCAATATGAATTTCTTAACTTTTTGCACACAAACTGCCCAATACGGAAATTCA
1 TACACTTAGTATGAATTTCTTAACTTTTTGCACACGAAGTGCCCAATACGAAAATTCA
* *
3569584 TACACTCAGTATGAATTTCTTAACATTTTGCAC
1 TACACTTAGTATGAATTTCTTAACTTTTTGCAC
3569617 TCTTAGTGCC
Statistics
Matches: 243, Mismatches: 22, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
58 243 1.00
ACGTcount: A:0.36, C:0.20, G:0.10, T:0.34
Consensus pattern (58 bp):
TACACTTAGTATGAATTTCTTAACTTTTTGCACACGAAGTGCCCAATACGAAAATTCA
Found at i:3574239 original size:110 final size:110
Alignment explanation
Indices: 3574058--3574430 Score: 496
Period size: 110 Copynumber: 3.4 Consensus size: 110
3574048 ATGCTCTATT
* * * * * *
3574058 ACATATTTGACACTTTTCTGTCAAATGCAGAACTA-GTTCATTATTCTTTTACTCAACAGTGTTT
1 ACATAATTGACACCTTTCTGCCAATTGCACAATTAGGTT-ATTATTCTTTTACTCAACAGTGTTT
* *
3574122 AATCTTTCATCTTTTACTCAACAATGTTTAACCGTTCTTCTGACTG
65 AACCTTTCATCTTTTACTCAACAATGTTTAACCGTTCTTCTAACTG
* * * * *
3574168 GCATAATTAACACCTTTCTGCCAATTGCACAGTTAGGTTATTATTGTTTTACTCAACAATGTTTA
1 ACATAATTGACACCTTTCTGCCAATTGCACAATTAGGTTATTATTCTTTTACTCAACAGTGTTTA
* * * * *
3574233 ACCTTTCATCTTTTACTCAATAGTGTTTAATCGTTCTTTTAACTA
66 ACCTTTCATCTTTTACTCAACAATGTTTAACCGTTCTTCTAACTG
* * * * *
3574278 ACATAATTGACACCTTTCTGCCAATTGAACAATTATGTTATTATTCTTTTACTTAACGGTATTTA
1 ACATAATTGACACCTTTCTGCCAATTGCACAATTAGGTTATTATTCTTTTACTCAACAGTGTTTA
* *
3574343 ACCTTTCATCTTTTACTCGACGATGTTTAACCGTTCTTCTAACTG
66 ACCTTTCATCTTTTACTCAACAATGTTTAACCGTTCTTCTAACTG
*
3574388 ACATAATTGACACCTTTCTGTCAATTGCACAATTAGGTTATTA
1 ACATAATTGACACCTTTCTGCCAATTGCACAATTAGGTTATTA
3574431 ACCTGGTATT
Statistics
Matches: 224, Mismatches: 38, Indels: 2
0.85 0.14 0.01
Matches are distributed among these distances:
110 221 0.99
111 3 0.01
ACGTcount: A:0.27, C:0.20, G:0.10, T:0.42
Consensus pattern (110 bp):
ACATAATTGACACCTTTCTGCCAATTGCACAATTAGGTTATTATTCTTTTACTCAACAGTGTTTA
ACCTTTCATCTTTTACTCAACAATGTTTAACCGTTCTTCTAACTG
Found at i:3574774 original size:58 final size:58
Alignment explanation
Indices: 3574645--3574975 Score: 435
Period size: 58 Copynumber: 5.8 Consensus size: 58
3574635 TTTCTCATAC
** * *
3574645 GGAAATTCATACACTTAGTACCAATTTCTT-A-GTTCTGCACAC-ATAGTG-CCAATA-
1 GGAAATTCATACACTTAGTATGAATTTCTTAACTTTTTGCACACGA-AGTGCCCAATAT
*
3574699 CGAATATTCATACACTTAGTATGAATTTCTTAACTTTTTGCACAC-AAGGTGCCCAATAT
1 GGAA-ATTCATACACTTAGTATGAATTTCTTAACTTTTTGCACACGAA-GTGCCCAATAT
* *
3574758 AGAAATTCATACACTTAGTATGAATTTCTTAACTTTTTACACACGAAGT-CGCCAATAT
1 GGAAATTCATACACTTAGTATGAATTTCTTAACTTTTTGCACACGAAGTGC-CCAATAT
* *
3574816 GGAAATTCATACACTT-GATATGAATTTCTAAACTTTTTGTACACGAAGTGCCCAATAT
1 GGAAATTCATACACTTAG-TATGAATTTCTTAACTTTTTGCACACGAAGTGCCCAATAT
* * * *
3574874 GGAAATTCATAGACTTAGTATGAATTTCTTAACTTTTTGCACACGAAATGGCCAATAC
1 GGAAATTCATACACTTAGTATGAATTTCTTAACTTTTTGCACACGAAGTGCCCAATAT
*
3574932 GGAAATTCATACACTTAGTATGAATTTCTTAACTTTTTCCACAC
1 GGAAATTCATACACTTAGTATGAATTTCTTAACTTTTTGCACAC
3574976 AAATTGCCGT
Statistics
Matches: 247, Mismatches: 19, Indels: 18
0.87 0.07 0.06
Matches are distributed among these distances:
54 3 0.01
55 24 0.10
56 2 0.01
57 15 0.06
58 196 0.79
59 7 0.03
ACGTcount: A:0.34, C:0.19, G:0.12, T:0.34
Consensus pattern (58 bp):
GGAAATTCATACACTTAGTATGAATTTCTTAACTTTTTGCACACGAAGTGCCCAATAT
Found at i:3583513 original size:8 final size:8
Alignment explanation
Indices: 3583502--3583536 Score: 54
Period size: 8 Copynumber: 4.4 Consensus size: 8
3583492 GAAGAAAAGA
3583502 AAAAAAAT
1 AAAAAAAT
3583510 AAAAAAAT
1 AAAAAAAT
3583518 AGAAAAAAT
1 A-AAAAAAT
3583527 -AAAAAAT
1 AAAAAAAT
3583534 AAA
1 AAA
3583537 TGAGGGTTCA
Statistics
Matches: 25, Mismatches: 0, Indels: 4
0.86 0.00 0.14
Matches are distributed among these distances:
7 7 0.28
8 11 0.44
9 7 0.28
ACGTcount: A:0.86, C:0.00, G:0.03, T:0.11
Consensus pattern (8 bp):
AAAAAAAT
Found at i:3583516 original size:17 final size:17
Alignment explanation
Indices: 3583496--3583532 Score: 56
Period size: 17 Copynumber: 2.2 Consensus size: 17
3583486 ACACTTGAAG
3583496 AAAAGAAAAAAAATAAA
1 AAAAGAAAAAAAATAAA
* *
3583513 AAAATAGAAAAAATAAA
1 AAAAGAAAAAAAATAAA
3583530 AAA
1 AAA
3583533 TAAATGAGGG
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
17 18 1.00
ACGTcount: A:0.86, C:0.00, G:0.05, T:0.08
Consensus pattern (17 bp):
AAAAGAAAAAAAATAAA
Found at i:3588315 original size:44 final size:44
Alignment explanation
Indices: 3588264--3588705 Score: 555
Period size: 44 Copynumber: 10.0 Consensus size: 44
3588254 CTGATCTAAA
* *
3588264 ATAAATGAAAATGCATAACGATGCATTATTGGCAGAAAGGTGCC
1 ATAAATGAAAATGCATAACGGTGCATTATTGGTAGAAAGGTGCC
* *
3588308 ATAAATGAAAATGCATAATGGTGCAATATTGGTAGAAAGGTGCC
1 ATAAATGAAAATGCATAACGGTGCATTATTGGTAGAAAGGTGCC
* * * *
3588352 ATAAATAAAAATGCATAATGGTGCAATATTGGTAGAAAGGTGTC
1 ATAAATGAAAATGCATAACGGTGCATTATTGGTAGAAAGGTGCC
*
3588396 ATAAATGAAAATGCATAACGGTGCATTATTGGTAGAAATGTGCC
1 ATAAATGAAAATGCATAACGGTGCATTATTGGTAGAAAGGTGCC
* * ** **
3588440 ATAAATGAAAATGCATAATGGTGCATTACTGACAGAAAGGTGGA
1 ATAAATGAAAATGCATAACGGTGCATTATTGGTAGAAAGGTGCC
* ** *
3588484 ATAAATGAAAATGTATAACTTTGCATTATTGGTAGAAATGTGCC
1 ATAAATGAAAATGCATAACGGTGCATTATTGGTAGAAAGGTGCC
* ** *
3588528 CTAAATGAAAATGCATAACAATGCATTATTGGTTGAAAGGTGCC
1 ATAAATGAAAATGCATAACGGTGCATTATTGGTAGAAAGGTGCC
* ** *
3588572 ATAAATAAAAATGCATAATAGTGCATTATAGGTAGAAAGGTGCC
1 ATAAATGAAAATGCATAACGGTGCATTATTGGTAGAAAGGTGCC
* * * *
3588616 ATAAAT-ATAAATGCATAATGGTGCATTACTGGTAGAAAGATTCC
1 ATAAATGA-AAATGCATAACGGTGCATTATTGGTAGAAAGGTGCC
*
3588660 ATAAATGAAAATGCATAACGGTACATTATTGGCATA-AAAGGTGCC
1 ATAAATGAAAATGCATAACGGTGCATTATTGG--TAGAAAGGTGCC
3588705 A
1 A
3588706 CTCATGGTAT
Statistics
Matches: 344, Mismatches: 50, Indels: 7
0.86 0.12 0.02
Matches are distributed among these distances:
43 1 0.00
44 332 0.97
45 9 0.03
46 2 0.01
ACGTcount: A:0.41, C:0.11, G:0.21, T:0.26
Consensus pattern (44 bp):
ATAAATGAAAATGCATAACGGTGCATTATTGGTAGAAAGGTGCC
Found at i:3595462 original size:44 final size:44
Alignment explanation
Indices: 3595411--3595793 Score: 478
Period size: 44 Copynumber: 8.7 Consensus size: 44
3595401 CTGCTCTAAA
* * *
3595411 ATAAATGAAAATTCATAATGGTGCATTATTGGCATAAAGGTGCC
1 ATAAATGAAAATGCATAACGGTGCATTATTGGCAGAAAGGTGCC
* * * * *
3595455 ATAAATGAAAATACATAACAGTGCATTGTTGGCAAAAAAGTGCC
1 ATAAATGAAAATGCATAACGGTGCATTATTGGCAGAAAGGTGCC
* *
3595499 ATAAATGAAAATGCATAATGGTGCATTATTGGAAGAAAGGTGCC
1 ATAAATGAAAATGCATAACGGTGCATTATTGGCAGAAAGGTGCC
* * * * *
3595543 ATCAATGAAAATGCTTAATGGTGCATTATTGGCAGAAATGTGTC
1 ATAAATGAAAATGCATAACGGTGCATTATTGGCAGAAAGGTGCC
* **
3595587 ATAAATGAAAATACATAACGGTGCATTATTGGCAGAAATATGCC
1 ATAAATGAAAATGCATAACGGTGCATTATTGGCAGAAAGGTGCC
* * * *
3595631 ATAAATGAAAATGCATAACGATACATTATTAGTAGAAAGGTGCC
1 ATAAATGAAAATGCATAACGGTGCATTATTGGCAGAAAGGTGCC
* * *
3595675 ATAAATGAAAATGCATAACGGTACATTATTGGTAGAAAGGTTCC
1 ATAAATGAAAATGCATAACGGTGCATTATTGGCAGAAAGGTGCC
* * * *
3595719 ATAAATGAAAATGCATAATGGTGTATTACTGGCAGAAAAGTGCC
1 ATAAATGAAAATGCATAACGGTGCATTATTGGCAGAAAGGTGCC
* * *
3595763 ATAAATGAAAAGGTATAACGGTGTATTATTG
1 ATAAATGAAAATGCATAACGGTGCATTATTG
3595794 ACATAAAAGG
Statistics
Matches: 294, Mismatches: 45, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
44 294 1.00
ACGTcount: A:0.41, C:0.11, G:0.21, T:0.27
Consensus pattern (44 bp):
ATAAATGAAAATGCATAACGGTGCATTATTGGCAGAAAGGTGCC
Found at i:3604737 original size:19 final size:18
Alignment explanation
Indices: 3604710--3604745 Score: 54
Period size: 18 Copynumber: 1.9 Consensus size: 18
3604700 AACATAAAAA
*
3604710 AACTTTTTTCTTCTTTTTG
1 AACTATTTT-TTCTTTTTG
3604729 AACTATTTTTTCTTTTT
1 AACTATTTTTTCTTTTT
3604746 TCTTCTTTTT
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
18 8 0.50
19 8 0.50
ACGTcount: A:0.14, C:0.14, G:0.03, T:0.69
Consensus pattern (18 bp):
AACTATTTTTTCTTTTTG
Found at i:3604752 original size:28 final size:31
Alignment explanation
Indices: 3604712--3604778 Score: 95
Period size: 28 Copynumber: 2.2 Consensus size: 31
3604702 CATAAAAAAA
3604712 CTTTTTTCTTC-TTTTT-GAA-CTATTTTTT
1 CTTTTTTCTTCTTTTTTCGAACCTATTTTTT
*
3604740 CTTTTTTCTTCTTTTTTCGAACCTGTTTTTT
1 CTTTTTTCTTCTTTTTTCGAACCTATTTTTT
3604771 CTATTTTT
1 CT-TTTTT
3604779 TCGTGTATAA
Statistics
Matches: 34, Mismatches: 1, Indels: 4
0.87 0.03 0.10
Matches are distributed among these distances:
28 11 0.32
29 5 0.15
30 3 0.09
31 10 0.29
32 5 0.15
ACGTcount: A:0.09, C:0.16, G:0.04, T:0.70
Consensus pattern (31 bp):
CTTTTTTCTTCTTTTTTCGAACCTATTTTTT
Found at i:3607794 original size:81 final size:80
Alignment explanation
Indices: 3607648--3608056 Score: 511
Period size: 81 Copynumber: 5.1 Consensus size: 80
3607638 GTTCTTAACA
* * * *
3607648 TAAAAGATTTATTGCCTAGCTATGCATTTGGCAGAAAAGTGTTAATATTACAAGTTAGATTAAAG
1 TAAAAGATTTATTGCCTAGCTGTGCATTTGGAAG-AAAGTGTCAATATTACAAGTTAGATGAAAG
3607713 GCTAAATGCCTTTGAG
65 GCTAAATGCCTTTGAG
* * * *
3607729 TAAATGATTTATTGCCTAGCTGTGCATTTGGCAGAAATGTATCAATATTACAAGTTACATGAAAG
1 TAAAAGATTTATTGCCTAGCTGTGCATTTGGAAGAAA-GTGTCAATATTACAAGTTAGATGAAAG
*
3607794 GCTAAATGTCTTTGAG
65 GCTAAATGCCTTTGAG
* * * * * *
3607810 TAAAAGATTTATTGCCTAGCTATTCATTTAGTAGAAAGCTGTCAATATTGCAAGTTAGAGGAAAG
1 TAAAAGATTTATTGCCTAGCTGTGCATTTGGAAGAAAG-TGTCAATATTACAAGTTAGATGAAAG
3607875 GCTAAATGCCTTTGAG
65 GCTAAATGCCTTTGAG
* * * *
3607891 TAAAAGATTAATTGCCTAGTTGTGCATTTGGAAGAAAGCTGTCAATATTGCAAGTTAAATGAAAG
1 TAAAAGATTTATTGCCTAGCTGTGCATTTGGAAGAAAG-TGTCAATATTACAAGTTAGATGAAAG
* *
3607956 G--ATA-GCCATTGAG
65 GCTAAATGCCTTTGAG
* * *
3607969 TAAAAGATTAATTGCCTAGTTGTGCATTTGGAATAAAG-GTGCGAATATTACAAGTTAGATGAAA
1 TAAAAGATTTATTGCCTAGCTGTGCATTTGGAAGAAAGTGT-C-AATATTACAAGTTAGATGAAA
*
3608033 GGCTAAATGCATTTGAG
64 GGCTAAATGCCTTTGAG
3608050 TAAAAGA
1 TAAAAGA
3608057 GTAAATGCTT
Statistics
Matches: 288, Mismatches: 33, Indels: 14
0.86 0.10 0.04
Matches are distributed among these distances:
76 2 0.01
77 1 0.00
78 66 0.23
79 2 0.01
80 6 0.02
81 211 0.73
ACGTcount: A:0.36, C:0.11, G:0.21, T:0.32
Consensus pattern (80 bp):
TAAAAGATTTATTGCCTAGCTGTGCATTTGGAAGAAAGTGTCAATATTACAAGTTAGATGAAAGG
CTAAATGCCTTTGAG
Found at i:3622247 original size:175 final size:175
Alignment explanation
Indices: 3621956--3622305 Score: 700
Period size: 175 Copynumber: 2.0 Consensus size: 175
3621946 AGGTGATAGG
3621956 TATATGGGAAAAGCTTTGTGTGATCTCAGCTTAGTGTAAATCTGATACCCAATTCCATATTATTT
1 TATATGGGAAAAGCTTTGTGTGATCTCAGCTTAGTGTAAATCTGATACCCAATTCCATATTATTT
3622021 GATATGAGTATAGGGAATGCAACACCAATTAGTTGATCGATCTTATTTTTAACCGGAATGAAGAA
66 GATATGAGTATAGGGAATGCAACACCAATTAGTTGATCGATCTTATTTTTAACCGGAATGAAGAA
3622086 TAGAAGATGTAGTGGTGAAAGTAGATAAATTCGTTTTCTTAGCTA
131 TAGAAGATGTAGTGGTGAAAGTAGATAAATTCGTTTTCTTAGCTA
3622131 TATATGGGAAAAGCTTTGTGTGATCTCAGCTTAGTGTAAATCTGATACCCAATTCCATATTATTT
1 TATATGGGAAAAGCTTTGTGTGATCTCAGCTTAGTGTAAATCTGATACCCAATTCCATATTATTT
3622196 GATATGAGTATAGGGAATGCAACACCAATTAGTTGATCGATCTTATTTTTAACCGGAATGAAGAA
66 GATATGAGTATAGGGAATGCAACACCAATTAGTTGATCGATCTTATTTTTAACCGGAATGAAGAA
3622261 TAGAAGATGTAGTGGTGAAAGTAGATAAATTCGTTTTCTTAGCTA
131 TAGAAGATGTAGTGGTGAAAGTAGATAAATTCGTTTTCTTAGCTA
3622306 ATGTTCTCAT
Statistics
Matches: 175, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
175 175 1.00
ACGTcount: A:0.33, C:0.12, G:0.21, T:0.34
Consensus pattern (175 bp):
TATATGGGAAAAGCTTTGTGTGATCTCAGCTTAGTGTAAATCTGATACCCAATTCCATATTATTT
GATATGAGTATAGGGAATGCAACACCAATTAGTTGATCGATCTTATTTTTAACCGGAATGAAGAA
TAGAAGATGTAGTGGTGAAAGTAGATAAATTCGTTTTCTTAGCTA
Found at i:3639173 original size:136 final size:136
Alignment explanation
Indices: 3638912--3640085 Score: 1445
Period size: 136 Copynumber: 8.6 Consensus size: 136
3638902 GATTGACCTA
* *
3638912 AGGTTGAACAAGTTCTTCTCATTATGAACTTCTTCTCCCTC-ATCGGATGAGTTCTTCTCATTAT
1 AGGTCGAACAAGCTCTTCTCATTATGAACTTCTTCTCCCTCTATCGGATGAGTTCTTCTCATTAT
* * * * * *** * * * *
3638976 GAACTCTCCATCTAAAACGTCAATCCCTCAAGCTAGGTGTTGTTGATTTGAAGTGTTGTGAATCA
66 GAACTCTCCATTTGAAATGTCAATCCCTCAAGCGAGGCGTCACTGATTCGAAATGTCGTGAATCG
**
3639041 AGCAAT
131 AGTGAT
* * *
3639047 AGGTCGAACAAGCTCTTCTAATTATGAACTTCTTCTCCCTCTGTCGGATGAGTACTTCTCATTAT
1 AGGTCGAACAAGCTCTTCTCATTATGAACTTCTTCTCCCTCTATCGGATGAGTTCTTCTCATTAT
* * * * * * *
3639112 GAACTCTCCATCAT-AAATGTCAATCCCTCAAACGAGACATCACTTATTCAAAATATCGTGAATC
66 GAACTCTCCAT-TTGAAATGTCAATCCCTCAAGCGAGGCGTCACTGATTCGAAATGTCGTGAATC
*
3639176 AAGTGAT
130 GAGTGAT
* * * * * *
3639183 AGGTCAAACAAGCTCTTCTCATTATTAATTTTTTTCTCCCTCTGTTGGATGAGTTCTTCTCATTA
1 AGGTCGAACAAGCTCTTCTCATTATGAA-CTTCTTCTCCCTCTATCGGATGAGTTCTTCTCATTA
* * * *
3639248 TGAACTCTCCATTTAAAATGTCAATCCCTCAAGAGAGGCGTCACTGATTAGAAATGGCGTGAATC
65 TGAACTCTCCATTTGAAATGTCAATCCCTCAAGCGAGGCGTCACTGATTCGAAATGTCGTGAATC
3639313 GAGTGAT
130 GAGTGAT
* * *
3639320 ATGTCAAACAAGCTCTTCTCATTATGAACTTCTTCTCCCTCTATCGAATGAGTTCTTCTCATTAT
1 AGGTCGAACAAGCTCTTCTCATTATGAACTTCTTCTCCCTCTATCGGATGAGTTCTTCTCATTAT
** * * * *
3639385 GGAACTCTCCATCGGAAATGTCAATCCCTCATGCAAGGTGTAACTGATTCGAAATGTCGTGAATC
66 -GAACTCTCCATTTGAAATGTCAATCCCTCAAGCGAGGCGTCACTGATTCGAAATGTCGTGAATC
3639450 GAGTGAT
130 GAGTGAT
* * * * * * * *
3639457 AGGTCGAACAAGTTCTTCTCATTATAAACTTTTTCTCCCTTTGTCGCATGACTTCTTCTCATTAC
1 AGGTCGAACAAGCTCTTCTCATTATGAACTTCTTCTCCCTCTATCGGATGAGTTCTTCTCATTAT
* * * * ** *
3639522 GAACTCTCCATTTGGAATGTTAATACCTCAAGCGTGGCGTCGTTGATTCGAAATATCGTGAATCG
66 GAACTCTCCATTTGAAATGTCAATCCCTCAAGCGAGGCGTCACTGATTCGAAATGTCGTGAATCG
3639587 AGTGAT
131 AGTGAT
* *
3639593 AGGTCGAACAAGCTCTTCTCATTATGAACTTTCTTCTCCCTCTATCGAATGAGTTCTTCTCATTG
1 AGGTCGAACAAGCTCTTCTCATTATGAAC-TTCTTCTCCCTCTATCGGATGAGTTCTTCTCATTA
* * * * * *
3639658 TGAACTTTCCATTTGAAATGGCAATCCCTTAAGTGAGGAGTCACTGATTCAAAATGTCGTGAATC
65 TGAACTCTCCATTTGAAATGTCAATCCCTCAAGCGAGGCGTCACTGATTCGAAATGTCGTGAATC
3639723 GAGTGAT
130 GAGTGAT
* * * * ** * *
3639730 AGGTCTAACAAGCTCTTCTCATTGTGAACTTCTTCTCCCTTTTTCAAATGAGTTCTTCTAATTAC
1 AGGTCGAACAAGCTCTTCTCATTATGAACTTCTTCTCCCTCTATCGGATGAGTTCTTCTCATTAT
* **
3639795 GAACTCTCCATTT-AGAATATCAATCCCTCAAGCGAGGTATCACTGATTCGAAATGTCGTGAATC
66 GAACTCTCCATTTGA-AATGTCAATCCCTCAAGCGAGGCGTCACTGATTCGAAATGTCGTGAATC
3639859 GAGTGAT
130 GAGTGAT
* * * *
3639866 AGGTCGAACAAGCTCTTCTCATTATGAACTTCTTTTCCCTTTTTTGGATGAGTTCTTCTCATTAT
1 AGGTCGAACAAGCTCTTCTCATTATGAACTTCTTCTCCCTCTATCGGATGAGTTCTTCTCATTAT
* * * * * *
3639931 GAACTCTCCATTTGAAATTTCAATCCCTCAAGCGAGACGTCGCTGATTTGAAATGTTGTGAATTG
66 GAACTCTCCATTTGAAATGTCAATCCCTCAAGCGAGGCGTCACTGATTCGAAATGTCGTGAATCG
*
3639996 AGCGAT
131 AGTGAT
3640002 AGGTCGAACAAGCTCTTCTCATTATGAACTTCTTCTCCCTCTATCGGATGAGTTCTTCTCATTAT
1 AGGTCGAACAAGCTCTTCTCATTATGAACTTCTTCTCCCTCTATCGGATGAGTTCTTCTCATTAT
* *
3640067 GAACTCTCCGTTGGAAATG
66 GAACTCTCCATTTGAAATG
3640086 ATGATCGGTT
Statistics
Matches: 888, Mismatches: 143, Indels: 15
0.85 0.14 0.01
Matches are distributed among these distances:
135 39 0.04
136 500 0.56
137 349 0.39
ACGTcount: A:0.26, C:0.22, G:0.17, T:0.35
Consensus pattern (136 bp):
AGGTCGAACAAGCTCTTCTCATTATGAACTTCTTCTCCCTCTATCGGATGAGTTCTTCTCATTAT
GAACTCTCCATTTGAAATGTCAATCCCTCAAGCGAGGCGTCACTGATTCGAAATGTCGTGAATCG
AGTGAT
Found at i:3639492 original size:273 final size:272
Alignment explanation
Indices: 3638912--3640075 Score: 1461
Period size: 273 Copynumber: 4.3 Consensus size: 272
3638902 GATTGACCTA
* *
3638912 AGGTTGAACAAGTTCTTCTCATTATGAACTTCTTCTCCCTC-ATCGGATGAGTTCTTCTCATTAT
1 AGGTCGAACAAGCTCTTCTCATTATGAACTTCTTCTCCCTCTATCGGATGAGTTCTTCTCATTAT
* * * * *** * * * *
3638976 GAACTCTCCATCTAAAACGTCAATCCCTCAAGCTAGGTGTTGTTGATTTGAAGTGTTGTGAATCA
66 GAACTCTCCATTTAAAATGTCAATCCCTCAAGCGAGGCGTCACTGATTCGAAATGTCGTGAATCG
** * * * *
3639041 AGCAATAGGTCGAACAAGCTCTTCTAATTATGAACTTCTTCTCCCTCTGTCGGATGAGTACTTCT
131 AGTGATAGGTCGAACAAGCTCTTCTCATTATGAACTTCTTCTCCCTCTATCGAATGAGTTCTTCT
* * * *
3639106 CATTATGAACTCTCCATCAT-AAATGTCAATCCCTCAAACGAGACATCACTTATTCAAAATATCG
196 CATTATGAACTCTCCATC-TGAAATGTCAATCCCTCAAGCGAGACGTCACTGATTCAAAATGTCG
*
3639170 TGAATCAAGTGAT
260 TGAATCGAGTGAT
* * * * * *
3639183 AGGTCAAACAAGCTCTTCTCATTATTAATTTTTTTCTCCCTCTGTTGGATGAGTTCTTCTCATTA
1 AGGTCGAACAAGCTCTTCTCATTATGAA-CTTCTTCTCCCTCTATCGGATGAGTTCTTCTCATTA
* * *
3639248 TGAACTCTCCATTTAAAATGTCAATCCCTCAAGAGAGGCGTCACTGATTAGAAATGGCGTGAATC
65 TGAACTCTCCATTTAAAATGTCAATCCCTCAAGCGAGGCGTCACTGATTCGAAATGTCGTGAATC
* *
3639313 GAGTGATATGTCAAACAAGCTCTTCTCATTATGAACTTCTTCTCCCTCTATCGAATGAGTTCTTC
130 GAGTGATAGGTCGAACAAGCTCTTCTCATTATGAACTTCTTCTCCCTCTATCGAATGAGTTCTTC
* * * ** * *
3639378 TCATTATGGAACTCTCCATCGGAAATGTCAATCCCTCATGCAAGGTGTAACTGATTCGAAATGTC
195 TCATTAT-GAACTCTCCATCTGAAATGTCAATCCCTCAAGCGAGACGTCACTGATTCAAAATGTC
3639443 GTGAATCGAGTGAT
259 GTGAATCGAGTGAT
* * * * * * * *
3639457 AGGTCGAACAAGTTCTTCTCATTATAAACTTTTTCTCCCTTTGTCGCATGACTTCTTCTCATTAC
1 AGGTCGAACAAGCTCTTCTCATTATGAACTTCTTCTCCCTCTATCGGATGAGTTCTTCTCATTAT
** * * * ** *
3639522 GAACTCTCCATTTGGAATGTTAATACCTCAAGCGTGGCGTCGTTGATTCGAAATATCGTGAATCG
66 GAACTCTCCATTTAAAATGTCAATCCCTCAAGCGAGGCGTCACTGATTCGAAATGTCGTGAATCG
3639587 AGTGATAGGTCGAACAAGCTCTTCTCATTATGAACTTTCTTCTCCCTCTATCGAATGAGTTCTTC
131 AGTGATAGGTCGAACAAGCTCTTCTCATTATGAAC-TTCTTCTCCCTCTATCGAATGAGTTCTTC
* * * * * *
3639652 TCATTGTGAACTTTCCATTTGAAATGGCAATCCCTTAAGTGAGGA-GTCACTGATTCAAAATGTC
195 TCATTATGAACTCTCCATCTGAAATGTCAATCCCTCAAGCGA-GACGTCACTGATTCAAAATGTC
3639716 GTGAATCGAGTGAT
259 GTGAATCGAGTGAT
* * * * ** * *
3639730 AGGTCTAACAAGCTCTTCTCATTGTGAACTTCTTCTCCCTTTTTCAAATGAGTTCTTCTAATTAC
1 AGGTCGAACAAGCTCTTCTCATTATGAACTTCTTCTCCCTCTATCGGATGAGTTCTTCTCATTAT
* * **
3639795 GAACTCTCCATTTAGAATATCAATCCCTCAAGCGAGGTATCACTGATTCGAAATGTCGTGAATCG
66 GAACTCTCCATTTAAAATGTCAATCCCTCAAGCGAGGCGTCACTGATTCGAAATGTCGTGAATCG
* * * * *
3639860 AGTGATAGGTCGAACAAGCTCTTCTCATTATGAACTTCTTTTCCCTTTTTTGGATGAGTTCTTCT
131 AGTGATAGGTCGAACAAGCTCTTCTCATTATGAACTTCTTCTCCCTCTATCGAATGAGTTCTTCT
* * * ** *
3639925 CATTATGAACTCTCCATTTGAAATTTCAATCCCTCAAGCGAGACGTCGCTGATTTGAAATGTTGT
196 CATTATGAACTCTCCATCTGAAATGTCAATCCCTCAAGCGAGACGTCACTGATTCAAAATGTCGT
* *
3639990 GAATTGAGCGAT
261 GAATCGAGTGAT
3640002 AGGTCGAACAAGCTCTTCTCATTATGAACTTCTTCTCCCTCTATCGGATGAGTTCTTCTCATTAT
1 AGGTCGAACAAGCTCTTCTCATTATGAACTTCTTCTCCCTCTATCGGATGAGTTCTTCTCATTAT
3640067 GAACTCTCC
66 GAACTCTCC
3640076 GTTGGAAATG
Statistics
Matches: 766, Mismatches: 120, Indels: 13
0.85 0.13 0.01
Matches are distributed among these distances:
271 26 0.03
272 164 0.21
273 457 0.60
274 119 0.16
ACGTcount: A:0.26, C:0.22, G:0.16, T:0.35
Consensus pattern (272 bp):
AGGTCGAACAAGCTCTTCTCATTATGAACTTCTTCTCCCTCTATCGGATGAGTTCTTCTCATTAT
GAACTCTCCATTTAAAATGTCAATCCCTCAAGCGAGGCGTCACTGATTCGAAATGTCGTGAATCG
AGTGATAGGTCGAACAAGCTCTTCTCATTATGAACTTCTTCTCCCTCTATCGAATGAGTTCTTCT
CATTATGAACTCTCCATCTGAAATGTCAATCCCTCAAGCGAGACGTCACTGATTCAAAATGTCGT
GAATCGAGTGAT
Found at i:3646691 original size:22 final size:21
Alignment explanation
Indices: 3646635--3646692 Score: 98
Period size: 21 Copynumber: 2.8 Consensus size: 21
3646625 CCTTTAAATA
* *
3646635 GGAACCGATTCCCCCTACAGG
1 GGAATCGATACCCCCTACAGG
3646656 GGAATCGATACCCCCTACAGG
1 GGAATCGATACCCCCTACAGG
3646677 GGAATCGATACCCCCT
1 GGAATCGATACCCCCT
3646693 GGGGTTCTGT
Statistics
Matches: 35, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
21 35 1.00
ACGTcount: A:0.26, C:0.36, G:0.22, T:0.16
Consensus pattern (21 bp):
GGAATCGATACCCCCTACAGG
Found at i:3648644 original size:15 final size:16
Alignment explanation
Indices: 3648626--3648655 Score: 53
Period size: 15 Copynumber: 1.9 Consensus size: 16
3648616 TTGGAATGTT
3648626 TGAATTTG-TGGATTG
1 TGAATTTGTTGGATTG
3648641 TGAATTTGTTGGATT
1 TGAATTTGTTGGATT
3648656 ATGGATGGTG
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
15 8 0.57
16 6 0.43
ACGTcount: A:0.20, C:0.00, G:0.30, T:0.50
Consensus pattern (16 bp):
TGAATTTGTTGGATTG
Found at i:3652921 original size:8 final size:8
Alignment explanation
Indices: 3652908--3652970 Score: 55
Period size: 8 Copynumber: 8.4 Consensus size: 8
3652898 ATCGGTTTTC
3652908 TTTCTTCT
1 TTTCTTCT
*
3652916 TTTCTTTT
1 TTTCTTCT
3652924 TTTCTT-T
1 TTTCTTCT
3652931 TTTCTT-T
1 TTTCTTCT
3652938 TTT-TTCTT
1 TTTCTTC-T
*
3652946 TTTTTTCT
1 TTTCTTCT
*
3652954 TTT-TTCC
1 TTTCTTCT
3652961 TTTCTT-T
1 TTTCTTCT
3652968 TTT
1 TTT
3652971 ATGTTTTTTT
Statistics
Matches: 48, Mismatches: 3, Indels: 9
0.80 0.05 0.15
Matches are distributed among these distances:
6 2 0.04
7 20 0.42
8 23 0.48
9 3 0.06
ACGTcount: A:0.00, C:0.16, G:0.00, T:0.84
Consensus pattern (8 bp):
TTTCTTCT
Found at i:3652940 original size:9 final size:9
Alignment explanation
Indices: 3652912--3652990 Score: 79
Period size: 9 Copynumber: 8.3 Consensus size: 9
3652902 GTTTTCTTTC
3652912 TTCTTTTCTT
1 TTCTTTT-TT
*
3652922 TTTTTCTTTT
1 TTCTT-TTTT
3652932 TTCTTTTTT
1 TTCTTTTTT
3652941 TTCTTTTTT
1 TTCTTTTTT
3652950 TTCTTTTTTCCT
1 TTC-TTTTT--T
3652962 TTCTTTTTT
1 TTCTTTTTT
* *
3652971 AT-GTTTTT
1 TTCTTTTTT
3652979 TTCTTTTTT
1 TTCTTTTTT
3652988 TTC
1 TTC
3652991 CATGTCTTTC
Statistics
Matches: 58, Mismatches: 6, Indels: 11
0.77 0.08 0.15
Matches are distributed among these distances:
8 6 0.10
9 26 0.45
10 15 0.26
11 7 0.12
12 4 0.07
ACGTcount: A:0.01, C:0.14, G:0.01, T:0.84
Consensus pattern (9 bp):
TTCTTTTTT
Found at i:3652944 original size:29 final size:28
Alignment explanation
Indices: 3652903--3652987 Score: 83
Period size: 26 Copynumber: 3.1 Consensus size: 28
3652893 ATTTGATCGG
*
3652903 TTTT-CTTTCTTCTT-TTCTTTTTTTCTT
1 TTTTCCTTTCTT-TTCTTTTTTTTTTCTT
*
3652930 TTTT-CTTTTTTTTC-TTT-TTTTTCTT
1 TTTTCCTTTCTTTTCTTTTTTTTTTCTT
3652955 TTTTCCTTTCTTTT-TTATGTTTTTTTCTT
1 TTTTCCTTTCTTTTCTT-T-TTTTTTTCTT
3652984 TTTT
1 TTTT
3652988 TTCCATGTCT
Statistics
Matches: 49, Mismatches: 3, Indels: 10
0.79 0.05 0.16
Matches are distributed among these distances:
25 12 0.24
26 13 0.27
27 11 0.22
28 1 0.02
29 12 0.24
ACGTcount: A:0.01, C:0.14, G:0.01, T:0.84
Consensus pattern (28 bp):
TTTTCCTTTCTTTTCTTTTTTTTTTCTT
Found at i:3652967 original size:30 final size:29
Alignment explanation
Indices: 3652903--3652987 Score: 101
Period size: 25 Copynumber: 3.1 Consensus size: 29
3652893 ATTTGATCGG
* *
3652903 TTTT-CTTTCTTCTTT-TCTTTTTTTCTT
1 TTTTCCTTTCTTTTTTATGTTTTTTTCTT
*
3652930 TTTT-C-TT-TTTTTTCT-TTTTTTTCTT
1 TTTTCCTTTCTTTTTTATGTTTTTTTCTT
3652955 TTTTCCTTTCTTTTTTATGTTTTTTTCTT
1 TTTTCCTTTCTTTTTTATGTTTTTTTCTT
3652984 TTTT
1 TTTT
3652988 TTCCATGTCT
Statistics
Matches: 51, Mismatches: 2, Indels: 8
0.84 0.03 0.13
Matches are distributed among these distances:
25 19 0.37
26 4 0.08
27 7 0.14
28 7 0.14
29 14 0.27
ACGTcount: A:0.01, C:0.14, G:0.01, T:0.84
Consensus pattern (29 bp):
TTTTCCTTTCTTTTTTATGTTTTTTTCTT
Found at i:3652985 original size:8 final size:8
Alignment explanation
Indices: 3652903--3652988 Score: 75
Period size: 9 Copynumber: 9.9 Consensus size: 8
3652893 ATTTGATCGG
3652903 TTTTCTTTC
1 TTTT-TTTC
*
3652912 TTCTTTTC
1 TTTTTTTC
3652920 TTTTTTTC
1 TTTTTTTC
3652928 -TTTTTTC
1 TTTTTTTC
3652935 TTTTTTTTC
1 -TTTTTTTC
3652944 TTTTTTTTC
1 -TTTTTTTC
3652953 TTTTTTCCTTTC
1 --TTTT--TTTC
*
3652965 TTTTTTATG
1 TTTTTT-TC
3652974 TTTTTTTC
1 TTTTTTTC
3652982 TTTTTTT
1 TTTTTTT
3652989 TCCATGTCTT
Statistics
Matches: 67, Mismatches: 4, Indels: 13
0.80 0.05 0.15
Matches are distributed among these distances:
7 7 0.10
8 21 0.31
9 26 0.39
10 9 0.13
12 4 0.06
ACGTcount: A:0.01, C:0.14, G:0.01, T:0.84
Consensus pattern (8 bp):
TTTTTTTC
Found at i:3652995 original size:21 final size:20
Alignment explanation
Indices: 3652920--3652995 Score: 67
Period size: 21 Copynumber: 4.0 Consensus size: 20
3652910 TCTTCTTTTC
3652920 TTTTTTTC--TTTTTTC-T-
1 TTTTTTTCTTTTTTTTCATG
3652936 TTTTTTTCTTTTTTTTC---
1 TTTTTTTCTTTTTTTTCATG
* *
3652953 TTTTTTCCTTTCTTTTTTATG
1 TTTTTTTCTTT-TTTTTCATG
3652974 TTTTTTTCTTTTTTTTCCATG
1 TTTTTTTCTTTTTTTT-CATG
3652995 T
1 T
3652996 CTTTCATTTT
Statistics
Matches: 49, Mismatches: 4, Indels: 9
0.79 0.06 0.15
Matches are distributed among these distances:
16 8 0.16
17 10 0.20
18 12 0.24
20 5 0.10
21 14 0.29
ACGTcount: A:0.03, C:0.13, G:0.03, T:0.82
Consensus pattern (20 bp):
TTTTTTTCTTTTTTTTCATG
Found at i:3653006 original size:1 final size:1
Alignment explanation
Indices: 3652915--3652989 Score: 51
Period size: 1 Copynumber: 75.0 Consensus size: 1
3652905 TTCTTTCTTC
* * * * * ** * * *
3652915 TTTTCTTTTTTTCTTTTTTCTTTTTTTTCTTTTTTTTCTTTTTTCCTTTCTTTTTTATGTTTTTT
1 TTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTT
*
3652980 TCTTTTTTTT
1 TTTTTTTTTT
3652990 CCATGTCTTT
Statistics
Matches: 54, Mismatches: 20, Indels: 0
0.73 0.27 0.00
Matches are distributed among these distances:
1 54 1.00
ACGTcount: A:0.01, C:0.12, G:0.01, T:0.85
Consensus pattern (1 bp):
T
Found at i:3653006 original size:37 final size:37
Alignment explanation
Indices: 3652924--3653006 Score: 98
Period size: 38 Copynumber: 2.3 Consensus size: 37
3652914 CTTTTCTTTT
* ** *
3652924 TTTCTTTTTTCTTTTTTTTCTTTTTTTTCTTTTTTCC
1 TTTCTTTTTTATTTTTTTTCTTTTTTTTCTCATGTCC
3652961 TTTCTTTTTTATGTTTTTTTCTTTTTTTTC-CATGT-C
1 TTTCTTTTTTAT-TTTTTTTCTTTTTTTTCTCATGTCC
*
3652997 TTTCATTTTT
1 TTTCTTTTTT
3653007 CTCTTTTTAT
Statistics
Matches: 40, Mismatches: 5, Indels: 3
0.83 0.10 0.06
Matches are distributed among these distances:
36 10 0.25
37 13 0.32
38 17 0.43
ACGTcount: A:0.04, C:0.14, G:0.02, T:0.80
Consensus pattern (37 bp):
TTTCTTTTTTATTTTTTTTCTTTTTTTTCTCATGTCC
Found at i:3654380 original size:14 final size:15
Alignment explanation
Indices: 3654358--3654394 Score: 51
Period size: 13 Copynumber: 2.6 Consensus size: 15
3654348 GAAAATGCAA
3654358 AGATGCAAAAATGGG
1 AGATGCAAAAATGGG
*
3654373 AG-TGC-AAAATGTG
1 AGATGCAAAAATGGG
3654386 AGATGCAAA
1 AGATGCAAA
3654395 TGCAACAAGG
Statistics
Matches: 19, Mismatches: 1, Indels: 4
0.79 0.04 0.17
Matches are distributed among these distances:
13 9 0.47
14 6 0.32
15 4 0.21
ACGTcount: A:0.46, C:0.08, G:0.30, T:0.16
Consensus pattern (15 bp):
AGATGCAAAAATGGG
Found at i:3661453 original size:40 final size:40
Alignment explanation
Indices: 3661392--3661496 Score: 167
Period size: 40 Copynumber: 2.6 Consensus size: 40
3661382 CGTTTATGTT
* * *
3661392 CGTTTATTT-ATTAAATGAACGAACATGAATAAGATTTTG
1 CGTTCATTTAATTAAATAAACGAACATGAATAAGATTTTA
*
3661431 CGTTCATTTAATTAAATAAACGAATATGAATAAGATTTTA
1 CGTTCATTTAATTAAATAAACGAACATGAATAAGATTTTA
3661471 CGTTCATTTAATTAAATAAACGAACA
1 CGTTCATTTAATTAAATAAACGAACA
3661497 CGAACAAAGG
Statistics
Matches: 60, Mismatches: 5, Indels: 1
0.91 0.08 0.02
Matches are distributed among these distances:
39 8 0.13
40 52 0.87
ACGTcount: A:0.43, C:0.10, G:0.11, T:0.36
Consensus pattern (40 bp):
CGTTCATTTAATTAAATAAACGAACATGAATAAGATTTTA
Found at i:3661566 original size:14 final size:14
Alignment explanation
Indices: 3661547--3661573 Score: 54
Period size: 14 Copynumber: 1.9 Consensus size: 14
3661537 TCGATTATAT
3661547 GTTCATTTATGTTC
1 GTTCATTTATGTTC
3661561 GTTCATTTATGTT
1 GTTCATTTATGTT
3661574 GGAACAGAGG
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 13 1.00
ACGTcount: A:0.15, C:0.11, G:0.15, T:0.59
Consensus pattern (14 bp):
GTTCATTTATGTTC
Found at i:3661859 original size:22 final size:23
Alignment explanation
Indices: 3661833--3661885 Score: 81
Period size: 23 Copynumber: 2.3 Consensus size: 23
3661823 GTTTTTGTGT
*
3661833 TTGTG-TCGTTTATGTTTATTTA
1 TTGTGTTCGTTTATGTTCATTTA
3661855 TTGTGTTCGTTTATGTTCATTTA
1 TTGTGTTCGTTTATGTTCATTTA
*
3661878 TTATGTTC
1 TTGTGTTC
3661886 ATTCATTTTG
Statistics
Matches: 28, Mismatches: 2, Indels: 1
0.90 0.06 0.03
Matches are distributed among these distances:
22 5 0.18
23 23 0.82
ACGTcount: A:0.13, C:0.08, G:0.17, T:0.62
Consensus pattern (23 bp):
TTGTGTTCGTTTATGTTCATTTA
Found at i:3661926 original size:10 final size:10
Alignment explanation
Indices: 3661896--3661926 Score: 53
Period size: 10 Copynumber: 3.1 Consensus size: 10
3661886 ATTCATTTTG
3661896 TGTTCGTTTA
1 TGTTCGTTTA
*
3661906 CGTTCGTTTA
1 TGTTCGTTTA
3661916 TGTTCGTTTA
1 TGTTCGTTTA
3661926 T
1 T
3661927 CATTTAAATG
Statistics
Matches: 19, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
10 19 1.00
ACGTcount: A:0.10, C:0.13, G:0.19, T:0.58
Consensus pattern (10 bp):
TGTTCGTTTA
Found at i:3662022 original size:16 final size:16
Alignment explanation
Indices: 3662001--3662033 Score: 66
Period size: 16 Copynumber: 2.1 Consensus size: 16
3661991 AAAAAAAAAT
3662001 TGTTCGTTTATGTTCG
1 TGTTCGTTTATGTTCG
3662017 TGTTCGTTTATGTTCG
1 TGTTCGTTTATGTTCG
3662033 T
1 T
3662034 TTATTTATTA
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 17 1.00
ACGTcount: A:0.06, C:0.12, G:0.24, T:0.58
Consensus pattern (16 bp):
TGTTCGTTTATGTTCG
Found at i:3665298 original size:27 final size:26
Alignment explanation
Indices: 3665268--3665319 Score: 79
Period size: 27 Copynumber: 2.0 Consensus size: 26
3665258 TTTATTATTT
3665268 TGAAGT-ATATATGATATTTTAATGTTC
1 TGAAGTAAT-TATGATATTTT-ATGTTC
3665295 TGAAGTAATTATGATATTTTATGTT
1 TGAAGTAATTATGATATTTTATGTT
3665320 TTATTCTACC
Statistics
Matches: 24, Mismatches: 0, Indels: 3
0.89 0.00 0.11
Matches are distributed among these distances:
26 5 0.21
27 17 0.71
28 2 0.08
ACGTcount: A:0.33, C:0.02, G:0.15, T:0.50
Consensus pattern (26 bp):
TGAAGTAATTATGATATTTTATGTTC
Found at i:3667072 original size:44 final size:44
Alignment explanation
Indices: 3666963--3667122 Score: 248
Period size: 44 Copynumber: 3.6 Consensus size: 44
3666953 CTCTTACCAT
* * *
3666963 TTATCCCATAAGCTCGTAAGCTTATTTTACCAATATACTTATTA
1 TTATTCCATAAGCTCGTAAGCTTATTTTACCAATATACTTGTCA
*
3667007 TTTATTCCATAAGCTCATAAGCTTATTTTACCAATATACTTGTCA
1 -TTATTCCATAAGCTCGTAAGCTTATTTTACCAATATACTTGTCA
* *
3667052 TTATTCCATAAGCTTGTAAGCTTATTTTACCAATATACTTGCCA
1 TTATTCCATAAGCTCGTAAGCTTATTTTACCAATATACTTGTCA
*
3667096 TTATTCCATATGCTCGTAAGCTTATTT
1 TTATTCCATAAGCTCGTAAGCTTATTT
3667123 GCCAATTTAT
Statistics
Matches: 106, Mismatches: 9, Indels: 1
0.91 0.08 0.01
Matches are distributed among these distances:
44 66 0.62
45 40 0.38
ACGTcount: A:0.29, C:0.20, G:0.08, T:0.42
Consensus pattern (44 bp):
TTATTCCATAAGCTCGTAAGCTTATTTTACCAATATACTTGTCA
Found at i:3667282 original size:40 final size:40
Alignment explanation
Indices: 3667227--3667425 Score: 362
Period size: 40 Copynumber: 5.0 Consensus size: 40
3667217 ACCATAGTTC
*
3667227 TACACATAAGGTCGTGCCCACCATATACACTGAAGTGTAT
1 TACACATAAGGTCGTGCCCACCATATACACCGAAGTGTAT
3667267 TACACATAAGGTCGTGCCCACCATATACACCGAAGTGTAT
1 TACACATAAGGTCGTGCCCACCATATACACCGAAGTGTAT
*
3667307 TACACATAAGGTCGTGCCCACTATATACACCGAAGTGTAT
1 TACACATAAGGTCGTGCCCACCATATACACCGAAGTGTAT
*
3667347 TACACATAAGGTCGTGCCCACCATATACATCGAAGTGTAT
1 TACACATAAGGTCGTGCCCACCATATACACCGAAGTGTAT
*
3667387 TACACATAAGGTCATGCCCACCATATACACCGAAGTGTA
1 TACACATAAGGTCGTGCCCACCATATACACCGAAGTGTA
3667426 CTATAAACCT
Statistics
Matches: 153, Mismatches: 6, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
40 153 1.00
ACGTcount: A:0.33, C:0.26, G:0.17, T:0.24
Consensus pattern (40 bp):
TACACATAAGGTCGTGCCCACCATATACACCGAAGTGTAT
Found at i:3691662 original size:17 final size:17
Alignment explanation
Indices: 3691640--3691682 Score: 68
Period size: 17 Copynumber: 2.5 Consensus size: 17
3691630 TAATTTAATA
3691640 AATGAACTAGTTTCATG
1 AATGAACTAGTTTCATG
* *
3691657 AATGAACTAGTTTGATT
1 AATGAACTAGTTTCATG
3691674 AATGAACTA
1 AATGAACTA
3691683 CATGATTTAA
Statistics
Matches: 24, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
17 24 1.00
ACGTcount: A:0.40, C:0.09, G:0.16, T:0.35
Consensus pattern (17 bp):
AATGAACTAGTTTCATG
Found at i:3696580 original size:21 final size:21
Alignment explanation
Indices: 3696556--3696609 Score: 60
Period size: 21 Copynumber: 2.7 Consensus size: 21
3696546 ATGGTCACAA
**
3696556 AATTAGGTTTTTATTCTTTTT
1 AATTAGGTTTTTATTAATTTT
*
3696577 AATTTGGTTTTT-TTAATTTT
1 AATTAGGTTTTTATTAATTTT
3696597 AATTA--TTTTTATT
1 AATTAGGTTTTTATT
3696610 TTAGTCATTA
Statistics
Matches: 28, Mismatches: 4, Indels: 4
0.78 0.11 0.11
Matches are distributed among these distances:
18 5 0.18
19 2 0.07
20 10 0.36
21 11 0.39
ACGTcount: A:0.22, C:0.02, G:0.07, T:0.69
Consensus pattern (21 bp):
AATTAGGTTTTTATTAATTTT
Found at i:3696667 original size:16 final size:16
Alignment explanation
Indices: 3696648--3696693 Score: 56
Period size: 16 Copynumber: 2.9 Consensus size: 16
3696638 AGGTAAAATC
*
3696648 ATATATTTAGTCCTTT
1 ATATTTTTAGTCCTTT
* **
3696664 ATATTTTTAATAGTTT
1 ATATTTTTAGTCCTTT
3696680 ATATTTTTAGTCCT
1 ATATTTTTAGTCCT
3696694 ATTCGTAATA
Statistics
Matches: 23, Mismatches: 7, Indels: 0
0.77 0.23 0.00
Matches are distributed among these distances:
16 23 1.00
ACGTcount: A:0.26, C:0.09, G:0.07, T:0.59
Consensus pattern (16 bp):
ATATTTTTAGTCCTTT
Found at i:3700488 original size:20 final size:20
Alignment explanation
Indices: 3700463--3700520 Score: 80
Period size: 20 Copynumber: 2.9 Consensus size: 20
3700453 ATCCTATTCC
*
3700463 CTGATAATCTTACATTTTTA
1 CTGATAATCTTACATTTTCA
**
3700483 CTGATAATCTTACATTCCCA
1 CTGATAATCTTACATTTTCA
*
3700503 CTGATGATCTTACATTTT
1 CTGATAATCTTACATTTT
3700521 GTGAACCAAA
Statistics
Matches: 32, Mismatches: 6, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
20 32 1.00
ACGTcount: A:0.28, C:0.21, G:0.07, T:0.45
Consensus pattern (20 bp):
CTGATAATCTTACATTTTCA
Found at i:3701129 original size:21 final size:24
Alignment explanation
Indices: 3701096--3701140 Score: 69
Period size: 22 Copynumber: 2.0 Consensus size: 24
3701086 TTATGAATTT
3701096 TCATCTTATATTATT-AAAATATA
1 TCATCTTATATTATTAAAAATATA
3701119 TCAT-TTA-ATTATTAAAAATATA
1 TCATCTTATATTATTAAAAATATA
3701141 AAAATATTAT
Statistics
Matches: 21, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
21 6 0.29
22 11 0.52
23 4 0.19
ACGTcount: A:0.47, C:0.07, G:0.00, T:0.47
Consensus pattern (24 bp):
TCATCTTATATTATTAAAAATATA
Found at i:3704481 original size:2 final size:2
Alignment explanation
Indices: 3704474--3704512 Score: 60
Period size: 2 Copynumber: 19.5 Consensus size: 2
3704464 TGCAGTTGAC
* *
3704474 TA TA TA TA TA TA TA TA TA TA TA TA TG TA TA TG TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
3704513 GTGAATGTGT
Statistics
Matches: 33, Mismatches: 4, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
2 33 1.00
ACGTcount: A:0.44, C:0.00, G:0.05, T:0.51
Consensus pattern (2 bp):
TA
Found at i:3707176 original size:14 final size:13
Alignment explanation
Indices: 3707140--3707173 Score: 50
Period size: 13 Copynumber: 2.6 Consensus size: 13
3707130 AATAAAAATA
3707140 TTTTTAAATTTTT
1 TTTTTAAATTTTT
* *
3707153 ATTTTCAATTTTT
1 TTTTTAAATTTTT
3707166 TTTTTAAA
1 TTTTTAAA
3707174 ATTATTAGAA
Statistics
Matches: 17, Mismatches: 4, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
13 17 1.00
ACGTcount: A:0.26, C:0.03, G:0.00, T:0.71
Consensus pattern (13 bp):
TTTTTAAATTTTT
Found at i:3707876 original size:12 final size:12
Alignment explanation
Indices: 3707861--3707887 Score: 54
Period size: 12 Copynumber: 2.2 Consensus size: 12
3707851 AGAATGAATG
3707861 AATGAATGGATT
1 AATGAATGGATT
3707873 AATGAATGGATT
1 AATGAATGGATT
3707885 AAT
1 AAT
3707888 ACAACTGAGG
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 15 1.00
ACGTcount: A:0.44, C:0.00, G:0.22, T:0.33
Consensus pattern (12 bp):
AATGAATGGATT
Found at i:3709874 original size:21 final size:21
Alignment explanation
Indices: 3709848--3709894 Score: 85
Period size: 21 Copynumber: 2.2 Consensus size: 21
3709838 TGTTCAAACT
3709848 CTGGATCTTCGTCAGCTTCGA
1 CTGGATCTTCGTCAGCTTCGA
3709869 CTGGATCTTCGTCAGCTTCGA
1 CTGGATCTTCGTCAGCTTCGA
*
3709890 GTGGA
1 CTGGA
3709895 GCTTGTGAAG
Statistics
Matches: 25, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
21 25 1.00
ACGTcount: A:0.15, C:0.26, G:0.28, T:0.32
Consensus pattern (21 bp):
CTGGATCTTCGTCAGCTTCGA
Found at i:3723390 original size:186 final size:184
Alignment explanation
Indices: 3723071--3723460 Score: 642
Period size: 186 Copynumber: 2.1 Consensus size: 184
3723061 ATAAAATTTT
* *
3723071 AAATATTAAATATATTATATATAACATATGGGCTCAGCCCAAATCATTTAAAACCCAATTAATAA
1 AAATATTAAATATATTATATATAACATATGAGCTCAGCCCAAACCATTTAAAACCCAATTAATAA
*
3723136 TTTAAGATCCAATAACTTTTAAACCTAAATCAATATTAATTAATTAAAAAATTTATATAAATTTT
66 TTTAAGATCCAATAACTTTTAAACCTAAATCAATATTAATTAATTAAAAAAATTATATAAATTTT
*
3723201 TTATTTTATAATTATATATTATTTAAATTAATTGTAAACTG-TTTTTTTGAATTAAA
131 TTATTTT-TAA-TAT-TATTATTTAAATTAATTATAAACTGTTTTTTTTGAATTAAA
* *
3723257 AAATATTAAATATATTATATATAACATATTAGCTCAGCCCAGACCATTTAAAACCCAATTAATAA
1 AAATATTAAATATATTATATATAACATATGAGCTCAGCCCAAACCATTTAAAACCCAATTAATAA
3723322 TTTAAGATCCAATAACTTTTAAACCTAAATCAATATTAATTAATTAAAAAAATTATATTAAA-TT
66 TTTAAGATCCAATAACTTTTAAACCTAAATCAATATTAATTAATTAAAAAAATTATA-TAAATTT
*
3723386 TTTATTTTTAATATTATTATTTAAATTAATTATAAACTGTTTTTTTTGAATTATA
130 TTTATTTTTAATATTATTATTTAAATTAATTATAAACTGTTTTTTTTGAATTAAA
* *
3723441 AAATATTTAAT-TTTTATATA
1 AAATATTAAATATATTATATA
3723461 AATTAGAAAA
Statistics
Matches: 193, Mismatches: 9, Indels: 7
0.92 0.04 0.03
Matches are distributed among these distances:
183 32 0.17
184 27 0.14
185 3 0.02
186 127 0.66
187 4 0.02
ACGTcount: A:0.45, C:0.09, G:0.04, T:0.43
Consensus pattern (184 bp):
AAATATTAAATATATTATATATAACATATGAGCTCAGCCCAAACCATTTAAAACCCAATTAATAA
TTTAAGATCCAATAACTTTTAAACCTAAATCAATATTAATTAATTAAAAAAATTATATAAATTTT
TTATTTTTAATATTATTATTTAAATTAATTATAAACTGTTTTTTTTGAATTAAA
Found at i:3733647 original size:114 final size:114
Alignment explanation
Indices: 3733447--3733674 Score: 456
Period size: 114 Copynumber: 2.0 Consensus size: 114
3733437 AACTTGATAG
3733447 GTTCCTTGTTAATCAAACTTGGGTCAGTTCATTCCTCTCTTCCCATGTGTAGTTTCTGGCTCCTG
1 GTTCCTTGTTAATCAAACTTGGGTCAGTTCATTCCTCTCTTCCCATGTGTAGTTTCTGGCTCCTG
3733512 GCATCTCTGATCACTGTCTTGTTCTTCTTTGGACCCACAAAGAGATGCA
66 GCATCTCTGATCACTGTCTTGTTCTTCTTTGGACCCACAAAGAGATGCA
3733561 GTTCCTTGTTAATCAAACTTGGGTCAGTTCATTCCTCTCTTCCCATGTGTAGTTTCTGGCTCCTG
1 GTTCCTTGTTAATCAAACTTGGGTCAGTTCATTCCTCTCTTCCCATGTGTAGTTTCTGGCTCCTG
3733626 GCATCTCTGATCACTGTCTTGTTCTTCTTTGGACCCACAAAGAGATGCA
66 GCATCTCTGATCACTGTCTTGTTCTTCTTTGGACCCACAAAGAGATGCA
3733675 AGCTAATATA
Statistics
Matches: 114, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
114 114 1.00
ACGTcount: A:0.18, C:0.26, G:0.18, T:0.38
Consensus pattern (114 bp):
GTTCCTTGTTAATCAAACTTGGGTCAGTTCATTCCTCTCTTCCCATGTGTAGTTTCTGGCTCCTG
GCATCTCTGATCACTGTCTTGTTCTTCTTTGGACCCACAAAGAGATGCA
Found at i:3737955 original size:19 final size:18
Alignment explanation
Indices: 3737923--3737960 Score: 51
Period size: 19 Copynumber: 2.1 Consensus size: 18
3737913 ATGGGGGGTT
3737923 TGGTAAAATGAAATTAAAA
1 TGGTAAAATGAAA-TAAAA
3737942 TGGTAAAAAT-AAATAAAA
1 TGGT-AAAATGAAATAAAA
3737960 T
1 T
3737961 CAATTTAAAT
Statistics
Matches: 18, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
18 6 0.33
19 7 0.39
20 5 0.28
ACGTcount: A:0.61, C:0.00, G:0.13, T:0.26
Consensus pattern (18 bp):
TGGTAAAATGAAATAAAA
Found at i:3744331 original size:19 final size:18
Alignment explanation
Indices: 3744299--3744336 Score: 51
Period size: 19 Copynumber: 2.1 Consensus size: 18
3744289 ATGGGGGGTT
3744299 TGGTAAAATGAAATTAAAA
1 TGGTAAAATGAAA-TAAAA
3744318 TGGTAAAAAT-AAATAAAA
1 TGGT-AAAATGAAATAAAA
3744336 T
1 T
3744337 CAATTTAAAT
Statistics
Matches: 18, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
18 6 0.33
19 7 0.39
20 5 0.28
ACGTcount: A:0.61, C:0.00, G:0.13, T:0.26
Consensus pattern (18 bp):
TGGTAAAATGAAATAAAA
Found at i:3744976 original size:28 final size:31
Alignment explanation
Indices: 3744936--3744993 Score: 86
Period size: 28 Copynumber: 2.0 Consensus size: 31
3744926 AGCATTTTAA
3744936 AAAAAAACTTGAAAA-T-AAAAGA-AAAATG
1 AAAAAAACTTGAAAAGTAAAAAGAGAAAATG
*
3744964 AAAAGAACTTGAAAAGTAAAAAGAGAAAAT
1 AAAAAAACTTGAAAAGTAAAAAGAGAAAAT
3744994 TTTTATAAAA
Statistics
Matches: 26, Mismatches: 1, Indels: 3
0.87 0.03 0.10
Matches are distributed among these distances:
28 14 0.54
29 1 0.04
30 6 0.23
31 5 0.19
ACGTcount: A:0.69, C:0.03, G:0.14, T:0.14
Consensus pattern (31 bp):
AAAAAAACTTGAAAAGTAAAAAGAGAAAATG
Found at i:3749829 original size:22 final size:19
Alignment explanation
Indices: 3749792--3749833 Score: 57
Period size: 22 Copynumber: 2.1 Consensus size: 19
3749782 CTTTATTTAG
3749792 TTTCTACTTTTGATTTAAT
1 TTTCTACTTTTGATTTAAT
3749811 TTTCTAGCTATTTGCATTTAAT
1 TTTCTA-CT-TTTG-ATTTAAT
3749833 T
1 T
3749834 CGTAAATTGA
Statistics
Matches: 20, Mismatches: 0, Indels: 3
0.87 0.00 0.13
Matches are distributed among these distances:
19 6 0.30
20 2 0.10
21 4 0.20
22 8 0.40
ACGTcount: A:0.21, C:0.12, G:0.07, T:0.60
Consensus pattern (19 bp):
TTTCTACTTTTGATTTAAT
Found at i:3752309 original size:3 final size:3
Alignment explanation
Indices: 3752301--3752341 Score: 55
Period size: 3 Copynumber: 13.7 Consensus size: 3
3752291 TAAAATTATT
* **
3752301 TAA TAA TAA TAT TAA TAA TGG TAA TAA TAA TAA TAA TAA TA
1 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TA
3752342 GGACCAAAAC
Statistics
Matches: 32, Mismatches: 6, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
3 32 1.00
ACGTcount: A:0.59, C:0.00, G:0.05, T:0.37
Consensus pattern (3 bp):
TAA
Found at i:3753220 original size:123 final size:123
Alignment explanation
Indices: 3752860--3753196 Score: 548
Period size: 123 Copynumber: 2.7 Consensus size: 123
3752850 CACTCGATGG
* *
3752860 ATCAACATTTCCAAAAGGAGTTCGTAATAAGAAGAACTCATCTGAAGAGGAAGAAGCAGTTCATA
1 ATCAACATTTCCAGAAGGAGTTCGTAATAAGAAGAACTCATCTGAAGAGGAAGAAGAAGTTCATA
*
3752925 ATCTGAAGAACTTATTCAACCGTTTGCTCGACTCTATCGCAGAAGGAGATAGAGCAGC
66 ATCTGAAGAACTTATTCAACCTTTTGCTCGACTCTATCGCAGAAGGAGATAGAGCAGC
* * * *
3752983 ATCAATATTTCCAGAAGGAGTTCATAATAAGAAGAACTCGTCTGAAGAGGAAAAAGAAGTTCATA
1 ATCAACATTTCCAGAAGGAGTTCGTAATAAGAAGAACTCATCTGAAGAGGAAGAAGAAGTTCATA
* *
3753048 ATCTGAAGAACTTATTCAACCTTTTTCTCGACTCTATCGTAGAAGGAGATAGAGCAGC
66 ATCTGAAGAACTTATTCAACCTTTTGCTCGACTCTATCGCAGAAGGAGATAGAGCAGC
* * **
3753106 ATCAACATTTCCAGAAGGAGTTTGTAATACGAAGAACTCATCCAAAGAGGAAGAAGAAGTTCATA
1 ATCAACATTTCCAGAAGGAGTTCGTAATAAGAAGAACTCATCTGAAGAGGAAGAAGAAGTTCATA
*
3753171 ATATGAAGAACTTATTCAACCTTTTG
66 ATCTGAAGAACTTATTCAACCTTTTG
3753197 ATAGATTCCA
Statistics
Matches: 195, Mismatches: 19, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
123 195 1.00
ACGTcount: A:0.39, C:0.17, G:0.20, T:0.25
Consensus pattern (123 bp):
ATCAACATTTCCAGAAGGAGTTCGTAATAAGAAGAACTCATCTGAAGAGGAAGAAGAAGTTCATA
ATCTGAAGAACTTATTCAACCTTTTGCTCGACTCTATCGCAGAAGGAGATAGAGCAGC
Found at i:3756938 original size:23 final size:24
Alignment explanation
Indices: 3756893--3756939 Score: 60
Period size: 23 Copynumber: 2.0 Consensus size: 24
3756883 GGGTAATAAT
* *
3756893 AAAAATAAACTAAAATTACAATTA
1 AAAAATAAACTAAAATAAAAATTA
*
3756917 AAAAATAATC-AAAATAAAAATTA
1 AAAAATAAACTAAAATAAAAATTA
3756940 TAGGATTAAA
Statistics
Matches: 20, Mismatches: 3, Indels: 1
0.83 0.12 0.04
Matches are distributed among these distances:
23 11 0.55
24 9 0.45
ACGTcount: A:0.70, C:0.06, G:0.00, T:0.23
Consensus pattern (24 bp):
AAAAATAAACTAAAATAAAAATTA
Found at i:3768049 original size:4 final size:4
Alignment explanation
Indices: 3768040--3768085 Score: 58
Period size: 4 Copynumber: 11.5 Consensus size: 4
3768030 TATTCTTCCA
**
3768040 TTAT TTAT TTAT TTAT TTAT TTAT TT-T CAAT TTAT TTAAT TTAT TT
1 TTAT TTAT TTAT TTAT TTAT TTAT TTAT TTAT TTAT TT-AT TTAT TT
3768086 TGTTAAACCC
Statistics
Matches: 36, Mismatches: 4, Indels: 4
0.82 0.09 0.09
Matches are distributed among these distances:
3 1 0.03
4 31 0.86
5 4 0.11
ACGTcount: A:0.26, C:0.02, G:0.00, T:0.72
Consensus pattern (4 bp):
TTAT
Found at i:3768065 original size:20 final size:20
Alignment explanation
Indices: 3768050--3768086 Score: 67
Period size: 20 Copynumber: 1.9 Consensus size: 20
3768040 TTATTTATTT
3768050 ATTTATTT-ATTTATTTTCA
1 ATTTATTTAATTTATTTTCA
3768069 ATTTATTTAATTTATTTT
1 ATTTATTTAATTTATTTT
3768087 GTTAAACCCC
Statistics
Matches: 17, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
19 8 0.47
20 9 0.53
ACGTcount: A:0.27, C:0.03, G:0.00, T:0.70
Consensus pattern (20 bp):
ATTTATTTAATTTATTTTCA
Found at i:3777818 original size:15 final size:15
Alignment explanation
Indices: 3777793--3777836 Score: 52
Period size: 15 Copynumber: 2.9 Consensus size: 15
3777783 AGGTAAAATC
3777793 ATATATTTAGTCCTTT
1 ATAT-TTTAGTCCTTT
**
3777809 ATATTTTAGTAATTT
1 ATATTTTAGTCCTTT
*
3777824 ATATTTTATTCCT
1 ATATTTTAGTCCT
3777837 ATTCATAATA
Statistics
Matches: 23, Mismatches: 5, Indels: 1
0.79 0.17 0.03
Matches are distributed among these distances:
15 19 0.83
16 4 0.17
ACGTcount: A:0.27, C:0.09, G:0.05, T:0.59
Consensus pattern (15 bp):
ATATTTTAGTCCTTT
Found at i:3779132 original size:37 final size:37
Alignment explanation
Indices: 3779090--3779166 Score: 136
Period size: 37 Copynumber: 2.1 Consensus size: 37
3779080 TATCACTGAC
*
3779090 AATAAATATAATTGACTATTATTAATTTAATTTATTA
1 AATAAATATAATTGACTATTAATAATTTAATTTATTA
*
3779127 AATAAATATAATTGAGTATTAATAATTTAATTTATTA
1 AATAAATATAATTGACTATTAATAATTTAATTTATTA
3779164 AAT
1 AAT
3779167 TTAAAATTTT
Statistics
Matches: 38, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
37 38 1.00
ACGTcount: A:0.48, C:0.01, G:0.04, T:0.47
Consensus pattern (37 bp):
AATAAATATAATTGACTATTAATAATTTAATTTATTA
Found at i:3779162 original size:16 final size:16
Alignment explanation
Indices: 3779106--3779164 Score: 55
Period size: 16 Copynumber: 3.4 Consensus size: 16
3779096 TATAATTGAC
*
3779106 TATTATTAATTTAATT
1 TATTAATAATTTAATT
*
3779122 TATTAAATAAATATAATT
1 TATT-AAT-AATTTAATT
3779140 GAGTATTAATAATTTAATT
1 ---TATTAATAATTTAATT
3779159 TATTAA
1 TATTAA
3779165 ATTTAAAATT
Statistics
Matches: 35, Mismatches: 3, Indels: 10
0.73 0.06 0.21
Matches are distributed among these distances:
16 10 0.29
17 2 0.06
18 8 0.23
19 8 0.23
20 3 0.09
21 4 0.11
ACGTcount: A:0.46, C:0.00, G:0.03, T:0.51
Consensus pattern (16 bp):
TATTAATAATTTAATT
Found at i:3779372 original size:23 final size:22
Alignment explanation
Indices: 3779329--3779372 Score: 52
Period size: 23 Copynumber: 2.0 Consensus size: 22
3779319 ATTAATAATT
*
3779329 ATTTTAAATTATTTACCATTAA
1 ATTTTAAATTATTTACAATTAA
* *
3779351 ATTTATAACTTATTTATAATTA
1 ATTT-TAAATTATTTACAATTA
3779373 TAAGTTAAGT
Statistics
Matches: 18, Mismatches: 3, Indels: 1
0.82 0.14 0.05
Matches are distributed among these distances:
22 4 0.22
23 14 0.78
ACGTcount: A:0.41, C:0.07, G:0.00, T:0.52
Consensus pattern (22 bp):
ATTTTAAATTATTTACAATTAA
Found at i:3785608 original size:91 final size:92
Alignment explanation
Indices: 3785450--3785624 Score: 298
Period size: 91 Copynumber: 1.9 Consensus size: 92
3785440 GTGATAGGTC
*
3785450 GAACAAGCTCTTCTCATTATGAACTTCTTCTCCCTCTTTTGGATGAGTTCTTCTCATTATGAACT
1 GAACAAGCTCTTCTCATTATGAACTTCTTCTCCCTCTGTTGGATGAGTTCTTCTCATTATGAACT
*
3785515 CTCTATTGAAAATGTTGATGCGAAGTT
66 CTCCATTGAAAATGTTGATGCGAAGTT
* *
3785542 GAACAAGTTCTTCTCATTATGAACTTCTTCTTCCTC-GTTGGATGAGTTCTTCTCATTATGAACT
1 GAACAAGCTCTTCTCATTATGAACTTCTTCTCCCTCTGTTGGATGAGTTCTTCTCATTATGAACT
*
3785606 CTCCATTGGAAATGTTGAT
66 CTCCATTGAAAATGTTGAT
3785625 CCATCTCTTT
Statistics
Matches: 78, Mismatches: 5, Indels: 1
0.93 0.06 0.01
Matches are distributed among these distances:
91 44 0.56
92 34 0.44
ACGTcount: A:0.23, C:0.21, G:0.15, T:0.41
Consensus pattern (92 bp):
GAACAAGCTCTTCTCATTATGAACTTCTTCTCCCTCTGTTGGATGAGTTCTTCTCATTATGAACT
CTCCATTGAAAATGTTGATGCGAAGTT
Found at i:3785863 original size:333 final size:331
Alignment explanation
Indices: 3785212--3785866 Score: 1001
Period size: 333 Copynumber: 2.0 Consensus size: 331
3785202 CGTTGGATTA
* * *
3785212 AACAAGTTCTTCTCATTTTGAACTTCTTCTCTCTTGTGGATGAGTTCTTCTCATTATGAACTCTT
1 AACAAGTTCTTCTCATTATGAACTTCTTCTCTCGTGTGGATGAGTTCTTCTCATTATGAACTCTC
* *
3785277 CACTGAAAATGTTGAGTCACCTATTTTTGTGGTGGACTTGAAAGGAACAAGTTCTTCTCATTATG
66 CACTGAAAATGTTGAGTCACCTATTTCTGTGATGGACTTGAAAGGAACAAGTTCTTCTCATTATG
* *
3785342 AACTTTCTCCTTTAAGACGAGTTATTCTCATTATGAACTCTTTTGGAAATGTCAATCCCTCTAAC
131 AACTTTCTCCTTTAAGACGAGTTATTCTCATTATGAACTCTTCTGAAAATGTCAATCCCTCTAAC
* *
3785407 GAGGCGTCACTGATTCGAAATGTCGTGAATCGAGTGATAGGTCGAACAAGCTCTTCTCATTATGA
196 GAGGCGTCACTGATTCGAAATGCCGAGAATCGAGTGATAGGTCGAACAAGCTCTTCTCATTATGA
* * * *
3785472 ACTTCTTCTCCCTCTTTTGGATGAGTTCTTCTCATTATGAACTCTCTATTGAAAATGTTGATGCG
261 ACTTCTTCTCCCTCTGTCGGATGAGTTCTTCTCATTATAAACTCTCCATTGAAAATGTTGATGCG
3785537 AAGTTG
326 AAGTTG
3785543 AACAAGTTCTTCTCATTATGAACTTCTTCTTCCTCGT-TGGATGAGTTCTTCTCATTATGAACTC
1 AACAAGTTCTTCTCATTATGAACTTCTTC-T-CTCGTGTGGATGAGTTCTTCTCATTATGAACTC
* * * *
3785607 TCCATTGGAAATGTTGA-TCCATCTCTTTCTGTGATGGACTTGAAAGGAACAAGTTCTTCTCATT
64 TCCACTGAAAATGTTGAGT-CACCTATTTCTGTGATGGACTTGAAAGGAACAAGTTCTTCTCATT
* * * * *
3785671 ATGAACTTTCTCCTTTAGGACGGGTTCTTCTTATTATGAACTCTTCTGAAAAATTTCAATCCCTC
128 ATGAACTTTCTCCTTTAAGACGAGTTATTCTCATTATGAACTCTTCTG-AAAATGTCAATCCCTC
* *
3785736 -AAGTGAGGTGTCACTGATTCGAAATGCCGAGAATCGAGTGATAGGTCGAACAAGCTCTTCTCAT
192 TAA-CGAGGCGTCACTGATTCGAAATGCCGAGAATCGAGTGATAGGTCGAACAAGCTCTTCTCAT
* * *
3785800 TATGAACTTTTTCTCCCTCTGTCGGATGAGTTCTTCTCGTTATAAACTCTCCATTGGAAATGTTG
256 TATGAACTTCTTCTCCCTCTGTCGGATGAGTTCTTCTCATTATAAACTCTCCATTGAAAATGTTG
3785865 AT
321 AT
3785867 CTGTTTATCT
Statistics
Matches: 292, Mismatches: 27, Indels: 8
0.89 0.08 0.02
Matches are distributed among these distances:
331 29 0.10
332 128 0.44
333 135 0.46
ACGTcount: A:0.25, C:0.20, G:0.17, T:0.38
Consensus pattern (331 bp):
AACAAGTTCTTCTCATTATGAACTTCTTCTCTCGTGTGGATGAGTTCTTCTCATTATGAACTCTC
CACTGAAAATGTTGAGTCACCTATTTCTGTGATGGACTTGAAAGGAACAAGTTCTTCTCATTATG
AACTTTCTCCTTTAAGACGAGTTATTCTCATTATGAACTCTTCTGAAAATGTCAATCCCTCTAAC
GAGGCGTCACTGATTCGAAATGCCGAGAATCGAGTGATAGGTCGAACAAGCTCTTCTCATTATGA
ACTTCTTCTCCCTCTGTCGGATGAGTTCTTCTCATTATAAACTCTCCATTGAAAATGTTGATGCG
AAGTTG
Found at i:3786322 original size:37 final size:36
Alignment explanation
Indices: 3786229--3786326 Score: 99
Period size: 37 Copynumber: 2.7 Consensus size: 36
3786219 TGTTTCAAGG
* *
3786229 GAAAGCTGTCTCAAGCGAGACAAAATTGGTTTTAAGA
1 GAAA-CTGTCTCAAGAGAGACAAAATTGATTTTAAGA
* ** * *
3786266 AAAACCATCTTAA-AGGAGACAAAACTTTATTTTAAGA
1 GAAACTGTCTCAAGA-GAGACAAAA-TTGATTTTAAGA
3786303 GAAACTGTCTCAAGAGAGACAAAA
1 GAAACTGTCTCAAGAGAGACAAAA
3786327 AAATTTCAAG
Statistics
Matches: 47, Mismatches: 11, Indels: 6
0.73 0.17 0.09
Matches are distributed among these distances:
36 15 0.32
37 31 0.66
38 1 0.02
ACGTcount: A:0.45, C:0.14, G:0.18, T:0.22
Consensus pattern (36 bp):
GAAACTGTCTCAAGAGAGACAAAATTGATTTTAAGA
Found at i:3786431 original size:35 final size:35
Alignment explanation
Indices: 3786351--3786432 Score: 85
Period size: 35 Copynumber: 2.3 Consensus size: 35
3786341 ACGTGCTCAA
*
3786351 AATTTTGTGTTTCAAGATAAACTATCTCAAGGAAGAC
1 AATTTT-T-TTTCAAGAGAAACTATCTCAAGGAAGAC
** * *
3786388 AAAATTTTTTCAAGGGAAACTGTCTCAA-GAGAGAC
1 AATTTTTTTTCAAGAGAAACTATCTCAAGGA-AGAC
3786423 AATTTTTTTT
1 AATTTTTTTT
3786433 TTGTTTTGAG
Statistics
Matches: 37, Mismatches: 7, Indels: 4
0.77 0.15 0.08
Matches are distributed among these distances:
34 2 0.05
35 30 0.81
36 1 0.03
37 4 0.11
ACGTcount: A:0.37, C:0.12, G:0.16, T:0.35
Consensus pattern (35 bp):
AATTTTTTTTCAAGAGAAACTATCTCAAGGAAGAC
Found at i:3786486 original size:40 final size:40
Alignment explanation
Indices: 3786388--3786522 Score: 123
Period size: 40 Copynumber: 3.4 Consensus size: 40
3786378 CAAGGAAGAC
* *
3786388 AAAA-TTT-TTTCAAGGGAAACTGTCTCAAGAGAGACAATT
1 AAAATTTTGTTTCGAGGGAAACTGTCTCAAGAGAGACAA-A
**** * *
3786427 TTTTTTTTGTTTTGAGGGAAATTGTCTCAAGAGAGACAAA
1 AAAATTTTGTTTCGAGGGAAACTGTCTCAAGAGAGACAAA
* * *
3786467 AAAATTTTGTTTCGAGGGAAACTATCTCAAGCGAGA-TAA
1 AAAATTTTGTTTCGAGGGAAACTGTCTCAAGAGAGACAAA
**
3786506 AATCTTTTGTTTCGAGG
1 AAAATTTTGTTTCGAGG
3786523 AAAAACAATC
Statistics
Matches: 75, Mismatches: 19, Indels: 4
0.77 0.19 0.04
Matches are distributed among these distances:
39 17 0.23
40 31 0.41
41 27 0.36
ACGTcount: A:0.34, C:0.11, G:0.21, T:0.34
Consensus pattern (40 bp):
AAAATTTTGTTTCGAGGGAAACTGTCTCAAGAGAGACAAA
Found at i:3786534 original size:40 final size:40
Alignment explanation
Indices: 3786496--3787108 Score: 971
Period size: 40 Copynumber: 15.4 Consensus size: 40
3786486 AACTATCTCA
* * **
3786496 AGCGAGATAAAATCTTTTGTTTCGAGGAAAAACAATCTCA
1 AGCGAGATAAAATCTTCTGTTTCAAGGAAAAACAATCTTG
* * **
3786536 ATCGAGATAAAATCTTCTGTTTCAAGGAAAAAAAATCTCA
1 AGCGAGATAAAATCTTCTGTTTCAAGGAAAAACAATCTTG
3786576 AGCGAGATAAAATCTTCTGTTTCAAGGAAAAACAATCTTG
1 AGCGAGATAAAATCTTCTGTTTCAAGGAAAAACAATCTTG
* *
3786616 AGCGAGATAAAATATTATGTTTCAAGGAAAAACAATCTTG
1 AGCGAGATAAAATCTTCTGTTTCAAGGAAAAACAATCTTG
* *
3786656 AGCGAGATAAAATCTTCTGTTTCTAGGAAAAACCATCTTG
1 AGCGAGATAAAATCTTCTGTTTCAAGGAAAAACAATCTTG
3786696 AGCGAGATAAAATCTTCTGTTTCAAGGAAAAACAATCTTG
1 AGCGAGATAAAATCTTCTGTTTCAAGGAAAAACAATCTTG
*
3786736 AGCGAGATAAAATCTTCTGTTTCAAGGAAAAATAATCTTG
1 AGCGAGATAAAATCTTCTGTTTCAAGGAAAAACAATCTTG
*
3786776 AGCGAGATAAAATCTTATGTTTCAAGGAAAAACAATCTTG
1 AGCGAGATAAAATCTTCTGTTTCAAGGAAAAACAATCTTG
*
3786816 AGCGAGATAAAATCTTCTGTTTCAAGGAAAAACAAGCTTG
1 AGCGAGATAAAATCTTCTGTTTCAAGGAAAAACAATCTTG
* * *
3786856 AGTGAGATAAACTCTTATGTTTCAAGGAAAAACAATCTTG
1 AGCGAGATAAAATCTTCTGTTTCAAGGAAAAACAATCTTG
3786896 AGCGAGATAAAATCTTCTGTTTCAAGGAAAAACAATCTTG
1 AGCGAGATAAAATCTTCTGTTTCAAGGAAAAACAATCTTG
* *
3786936 AGTGAGATAAAAT-TTCTGTTTCAAGGAAAAACTATCTTG
1 AGCGAGATAAAATCTTCTGTTTCAAGGAAAAACAATCTTG
* *
3786975 AGTGAGATAAAATCTTCTGTTTCAA-G-AAAACTATCTTG
1 AGCGAGATAAAATCTTCTGTTTCAAGGAAAAACAATCTTG
* *
3787013 AGTGAGATAAAATCTTCTGTTTCAAGGAAAAATAATCTTG
1 AGCGAGATAAAATCTTCTGTTTCAAGGAAAAACAATCTTG
*
3787053 AGTGAGATAAAATCTTCTGTTTCAAGGAAAAACAATCTTG
1 AGCGAGATAAAATCTTCTGTTTCAAGGAAAAACAATCTTG
*
3787093 AGTGAGATAAAATCTT
1 AGCGAGATAAAATCTT
3787109 TCATATTAAA
Statistics
Matches: 537, Mismatches: 33, Indels: 6
0.93 0.06 0.01
Matches are distributed among these distances:
38 37 0.07
39 40 0.07
40 460 0.86
ACGTcount: A:0.40, C:0.13, G:0.17, T:0.29
Consensus pattern (40 bp):
AGCGAGATAAAATCTTCTGTTTCAAGGAAAAACAATCTTG
Found at i:3787084 original size:20 final size:20
Alignment explanation
Indices: 3787021--3787084 Score: 51
Period size: 20 Copynumber: 3.2 Consensus size: 20
3787011 TGAGTGAGAT
3787021 AAAATCTTCTGTTTCAAGGA
1 AAAATCTTCTGTTTCAAGGA
** ** *
3787041 AAAATAATCTTGAGT-GA-GA
1 AAAATCTTC-TGTTTCAAGGA
3787060 TAAAATCTTCTGTTTCAAGGA
1 -AAAATCTTCTGTTTCAAGGA
3787081 AAAA
1 AAAA
3787085 CAATCTTGAG
Statistics
Matches: 30, Mismatches: 10, Indels: 8
0.62 0.21 0.17
Matches are distributed among these distances:
19 5 0.17
20 20 0.67
21 5 0.17
ACGTcount: A:0.42, C:0.11, G:0.16, T:0.31
Consensus pattern (20 bp):
AAAATCTTCTGTTTCAAGGA
Found at i:3788288 original size:41 final size:42
Alignment explanation
Indices: 3788197--3788290 Score: 113
Period size: 41 Copynumber: 2.3 Consensus size: 42
3788187 TTGCTGATGA
*
3788197 ACTTTCAAAATGCCCCACATGACTCATTTTTGTCTGAAATGG
1 ACTTTCAAAATGCCCCACATGACTCATTTTGGTCTGAAATGG
* * *
3788239 GCCTTCAAAATGCCCCA-AT-ATTCTATTTCTGGT-TGAAATGG
1 ACTTTCAAAATGCCCCACATGACTC-ATTT-TGGTCTGAAATGG
3788280 ACTTTCAAAAT
1 ACTTTCAAAAT
3788291 ATCACAACCT
Statistics
Matches: 44, Mismatches: 6, Indels: 5
0.80 0.11 0.09
Matches are distributed among these distances:
40 3 0.07
41 23 0.52
42 18 0.41
ACGTcount: A:0.30, C:0.22, G:0.14, T:0.34
Consensus pattern (42 bp):
ACTTTCAAAATGCCCCACATGACTCATTTTGGTCTGAAATGG
Found at i:3792028 original size:14 final size:13
Alignment explanation
Indices: 3792009--3792099 Score: 51
Period size: 14 Copynumber: 6.6 Consensus size: 13
3791999 AAATATAACT
3792009 ATGCAAAGATGCAA
1 ATGCAAA-ATGCAA
3792023 ATGCAAAATGCAAAAAA
1 ATGCAAAATGC----AA
*
3792040 ATG-AAAATGTAA
1 ATGCAAAATGCAA
* * **
3792052 ATACAAACCTAAAA
1 ATGCAAA-ATGCAA
*
3792066 ATGCAAAGATGCGA
1 ATGCAAA-ATGCAA
3792080 ATGC-AAATGCAA
1 ATGCAAAATGCAA
3792092 ATGCAAAA
1 ATGCAAAA
3792100 GGTATCGATT
Statistics
Matches: 58, Mismatches: 12, Indels: 15
0.68 0.14 0.18
Matches are distributed among these distances:
12 13 0.22
13 12 0.21
14 22 0.38
16 6 0.10
17 5 0.09
ACGTcount: A:0.56, C:0.13, G:0.15, T:0.15
Consensus pattern (13 bp):
ATGCAAAATGCAA
Found at i:3797430 original size:21 final size:21
Alignment explanation
Indices: 3797404--3797456 Score: 88
Period size: 21 Copynumber: 2.5 Consensus size: 21
3797394 GTTTCCAGAT
*
3797404 TCGCAACGCGAACTTCGACTA
1 TCGCAATGCGAACTTCGACTA
*
3797425 TCGCAATGCGAACTTGGACTA
1 TCGCAATGCGAACTTCGACTA
3797446 TCGCAATGCGA
1 TCGCAATGCGA
3797457 TAGTCGAAGT
Statistics
Matches: 30, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
21 30 1.00
ACGTcount: A:0.28, C:0.28, G:0.23, T:0.21
Consensus pattern (21 bp):
TCGCAATGCGAACTTCGACTA
Found at i:3797561 original size:21 final size:21
Alignment explanation
Indices: 3797535--3797589 Score: 83
Period size: 21 Copynumber: 2.6 Consensus size: 21
3797525 GATTTACATA
3797535 TTCGCATTGCGATAGTCCAAG
1 TTCGCATTGCGATAGTCCAAG
*
3797556 TTCGCATTGCGATAGTCGAAG
1 TTCGCATTGCGATAGTCCAAG
**
3797577 TTCGTGTTGCGAT
1 TTCGCATTGCGAT
3797590 TTTCTCTAAA
Statistics
Matches: 31, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
21 31 1.00
ACGTcount: A:0.20, C:0.20, G:0.27, T:0.33
Consensus pattern (21 bp):
TTCGCATTGCGATAGTCCAAG
Found at i:3798145 original size:6 final size:6
Alignment explanation
Indices: 3798136--3798166 Score: 53
Period size: 6 Copynumber: 5.2 Consensus size: 6
3798126 CCGTCCCGTC
*
3798136 TCGTAG TCGTGG TCGTGG TCGTGG TCGTGG T
1 TCGTGG TCGTGG TCGTGG TCGTGG TCGTGG T
3798167 AATACGTGTC
Statistics
Matches: 24, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
6 24 1.00
ACGTcount: A:0.03, C:0.16, G:0.45, T:0.35
Consensus pattern (6 bp):
TCGTGG
Found at i:3798311 original size:42 final size:42
Alignment explanation
Indices: 3798252--3798498 Score: 440
Period size: 42 Copynumber: 5.9 Consensus size: 42
3798242 CATTGCGATT
*
3798252 TTGGACTATCGCAACGAATTTGGAATAAATCGCAACACGAAC
1 TTGGACTATCGCAACGAATTTGGAATAAATCGCAACGCGAAC
3798294 TTGGACTATCGCAACGAATTTGGAATAAATCGCAACGCGAAC
1 TTGGACTATCGCAACGAATTTGGAATAAATCGCAACGCGAAC
* *
3798336 TTCGACTATCGCAACGAACTTGGAATAAATCGCAACGCGAAC
1 TTGGACTATCGCAACGAATTTGGAATAAATCGCAACGCGAAC
3798378 TTGGACTATCGCAACGAATTTGGAATAAATCGCAACGCGAAC
1 TTGGACTATCGCAACGAATTTGGAATAAATCGCAACGCGAAC
* * *
3798420 TTCGACTATCGCAACGAACTTGGAATAAATCGCAACGCGACC
1 TTGGACTATCGCAACGAATTTGGAATAAATCGCAACGCGAAC
3798462 TTGGACTATCGCAACGAATTTGGAATAAATCGCAACG
1 TTGGACTATCGCAACGAATTTGGAATAAATCGCAACG
3798499 AAATTGGAAT
Statistics
Matches: 195, Mismatches: 10, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
42 195 1.00
ACGTcount: A:0.36, C:0.23, G:0.20, T:0.21
Consensus pattern (42 bp):
TTGGACTATCGCAACGAATTTGGAATAAATCGCAACGCGAAC
Found at i:3800138 original size:8 final size:8
Alignment explanation
Indices: 3800127--3800165 Score: 51
Period size: 8 Copynumber: 4.8 Consensus size: 8
3800117 AAAAACATTC
3800127 GAAAAAAG
1 GAAAAAAG
3800135 GAAAAAAAG
1 G-AAAAAAG
3800144 GAAAAAAG
1 GAAAAAAG
* *
3800152 AAAAAAAA
1 GAAAAAAG
3800160 GAAAAA
1 GAAAAA
3800166 GAAAAAAAAT
Statistics
Matches: 27, Mismatches: 3, Indels: 2
0.84 0.09 0.06
Matches are distributed among these distances:
8 19 0.70
9 8 0.30
ACGTcount: A:0.82, C:0.00, G:0.18, T:0.00
Consensus pattern (8 bp):
GAAAAAAG
Found at i:3800154 original size:16 final size:16
Alignment explanation
Indices: 3800127--3800174 Score: 71
Period size: 15 Copynumber: 3.0 Consensus size: 16
3800117 AAAAACATTC
*
3800127 GAAAAAAGGAAAAAAAG
1 GAAAAAA-GAAAAAAAA
3800144 GAAAAAAGAAAAAAAA
1 GAAAAAAGAAAAAAAA
3800160 G-AAAAAGAAAAAAAA
1 GAAAAAAGAAAAAAAA
3800175 TATTGAAGTT
Statistics
Matches: 30, Mismatches: 1, Indels: 2
0.91 0.03 0.06
Matches are distributed among these distances:
15 14 0.47
16 9 0.30
17 7 0.23
ACGTcount: A:0.83, C:0.00, G:0.17, T:0.00
Consensus pattern (16 bp):
GAAAAAAGAAAAAAAA
Found at i:3800173 original size:9 final size:9
Alignment explanation
Indices: 3800128--3800174 Score: 53
Period size: 9 Copynumber: 5.3 Consensus size: 9
3800118 AAAACATTCG
*
3800128 AAAAAAGGA
1 AAAAAAGAA
*
3800137 AAAAAAG-G
1 AAAAAAGAA
3800145 AAAAAAGAA
1 AAAAAAGAA
3800154 AAAAAAGAA
1 AAAAAAGAA
3800163 AAAGAAA-AA
1 AAA-AAAGAA
3800172 AAA
1 AAA
3800175 TATTGAAGTT
Statistics
Matches: 34, Mismatches: 2, Indels: 4
0.85 0.05 0.10
Matches are distributed among these distances:
8 7 0.21
9 24 0.71
10 3 0.09
ACGTcount: A:0.85, C:0.00, G:0.15, T:0.00
Consensus pattern (9 bp):
AAAAAAGAA
Found at i:3802319 original size:486 final size:486
Alignment explanation
Indices: 3801408--3802867 Score: 2697
Period size: 486 Copynumber: 3.0 Consensus size: 486
3801398 ACTTAGCCTA
*
3801408 AAGTTTTACGAAGCTCAATTCTAAATCATGAGAATTGAGTTTTATTCTTCATAAATTCGGGTAGT
1 AAGTTTTACGAAGCTCAATTCTAAATCATGAGAATTGAGTTTTATTCTTCATAACTTCGGGTAGT
*
3801473 ATTCTTCGGTTCTTTAAAAACTAGGAGTGGAAATCAACCATTCCCTTAAAGTTATAACACCTTCA
66 ATTCTTCGGTTCTTTAAACACTAGGAGTGGAAATCAACCATTCCCTTAAAGTTATAACACCTTCA
3801538 TATCAAAAAGTCGATGTTGGTTTGAAGGTAGTTTTGGCTTATGGTTGAGAAAACGAATTGGTTGG
131 TATCAAAAAGTCGATGTTGGTTTGAAGGTAGTTTTGGCTTATGGTTGAGAAAACGAATTGGTTGG
3801603 TTGTAGTTTGATTTATTGTGAATAACCTTAGCAGCAGACTATTAAGGGGAACCAAGATCGAGTTG
196 TTGTAGTTTGATTTATTGTGAATAACCTTAGCAGCAGACTATTAAGGGGAACCAAGATCGAGTTG
*
3801668 AATTCTTTGTGAGATGTTATAACTCGTGTAGAGATCTTTTAAAACTCAAAGCTATTTTGGATATA
261 AATTCTTTGTGAGATGTTATAACTCGTGTAGAGCTCTTTTAAAACTCAAAGCTATTTTGGATATA
*
3801733 ATGGTGTAGACGTGGATAGACTAGTCAA-GATTGAATTTCATAGATAAGCTTGAAAATTTCGGTT
326 ATGGTGTAGACGTGGGTAGACTAGT-AAGGATTGAATTTCATAGATAAGCTTGAAAATTTCGGTT
*
3801797 AATCGAAGAGAAAAGTTAGTTGCGAGGGTAGGCTCCGTTGATTGTTATTAGTGTGCATCCAAAAG
390 AATCGAAGAGAAAAGTTAGTTGCGAGGGTAGGCTCCGTTGATTGTTATTAGCGTGCATCCAAAAG
*
3801862 ATGAAAATCTATTTCAATGATTGATCGAAATT
455 ATGAAAATTTATTTCAATGATTGATCGAAATT
3801894 AAGTTTTACGAAGCTCAATTCTAAATCATGAGAATTGAGTTTTATTCTTCATAACTTCGGGTAGT
1 AAGTTTTACGAAGCTCAATTCTAAATCATGAGAATTGAGTTTTATTCTTCATAACTTCGGGTAGT
3801959 ATTCTTCGGTTCTTTAAACACTAGGAGTGGAAATCAACCATTCCCTTAAAGTTATAACACCTTCA
66 ATTCTTCGGTTCTTTAAACACTAGGAGTGGAAATCAACCATTCCCTTAAAGTTATAACACCTTCA
*
3802024 TATCAAAAAGTCGATGTTGGTTTGAAGGTAGTTTTGGCTTATGGTTGAGAAAACAAATTGGTTGG
131 TATCAAAAAGTCGATGTTGGTTTGAAGGTAGTTTTGGCTTATGGTTGAGAAAACGAATTGGTTGG
* * *
3802089 TTGTAGTTTGATTTATTGTGAATAACCTTAGCAGTAGATTATTAAGGGGAACCAAGATAGAGTTG
196 TTGTAGTTTGATTTATTGTGAATAACCTTAGCAGCAGACTATTAAGGGGAACCAAGATCGAGTTG
*
3802154 AATTCTTTATGAGATGTTATAACTCGTGTAGAGCTCTTTTAAAACTCAAAGCTATTTTGGATATA
261 AATTCTTTGTGAGATGTTATAACTCGTGTAGAGCTCTTTTAAAACTCAAAGCTATTTTGGATATA
*
3802219 ATGGTGTAGACGTGGGTAGACTAGTAAGGATTGAATTTCATAGATAAGCTTGAAAATTTTGGTTA
326 ATGGTGTAGACGTGGGTAGACTAGTAAGGATTGAATTTCATAGATAAGCTTGAAAATTTCGGTTA
3802284 ATCGAAGAGAAAAGTTAGTTGCGAGGGTAGGCTCCGTTGATTGTTATTAGCGTGCATCCAAAAGA
391 ATCGAAGAGAAAAGTTAGTTGCGAGGGTAGGCTCCGTTGATTGTTATTAGCGTGCATCCAAAAGA
*
3802349 TGAAAATTTATTTCAATGATTGATCAAAATT
456 TGAAAATTTATTTCAATGATTGATCGAAATT
* *
3802380 AAGTTTTACGAAGCTCAATTCTAAATCATGAGAACTGAGTTTTATTCTTCATAACTTCAGGTAGT
1 AAGTTTTACGAAGCTCAATTCTAAATCATGAGAATTGAGTTTTATTCTTCATAACTTCGGGTAGT
3802445 ATTCTTCGGTTCTTTAAACACTAGGAGTGGAAATCAACCATTCCCTTAAAGTTATAACACCTTCA
66 ATTCTTCGGTTCTTTAAACACTAGGAGTGGAAATCAACCATTCCCTTAAAGTTATAACACCTTCA
*
3802510 TATCAAAAAGTCGATGTTGGTTTGAAGGTAGTATTGGCTTATGGTTGAGAAAACGAATTGGTTGG
131 TATCAAAAAGTCGATGTTGGTTTGAAGGTAGTTTTGGCTTATGGTTGAGAAAACGAATTGGTTGG
*
3802575 TTGTAGTTTGATTTATTGTGAATAACCTTAGCAGCATACTATTAAGGGGAACCAAGATCGAGTTG
196 TTGTAGTTTGATTTATTGTGAATAACCTTAGCAGCAGACTATTAAGGGGAACCAAGATCGAGTTG
3802640 AATTCTTTGTGAGATGTTATAACTCGTGTAGAGCTCTTTTAAAACTCAAAGCTATTTTGGATATA
261 AATTCTTTGTGAGATGTTATAACTCGTGTAGAGCTCTTTTAAAACTCAAAGCTATTTTGGATATA
* *
3802705 ATGGTGTAGACGTGGGTAGACTAGTCAGGATTGAATTTCATAGATAAGCTTAAAAATTTCGGTTA
326 ATGGTGTAGACGTGGGTAGACTAGTAAGGATTGAATTTCATAGATAAGCTTGAAAATTTCGGTTA
* * * *
3802770 ATCGAAGAGAAAAGTTAGTTGTGAGGGTAGGCTCCATTGATTGTTACTAGCATGCATCCAAAAGA
391 ATCGAAGAGAAAAGTTAGTTGCGAGGGTAGGCTCCGTTGATTGTTATTAGCGTGCATCCAAAAGA
3802835 TGAAAATTTATTTCAATGATTGATCGAAATT
456 TGAAAATTTATTTCAATGATTGATCGAAATT
3802866 AA
1 AA
3802868 TACTAAGCAA
Statistics
Matches: 943, Mismatches: 30, Indels: 2
0.97 0.03 0.00
Matches are distributed among these distances:
485 2 0.00
486 941 1.00
ACGTcount: A:0.32, C:0.12, G:0.21, T:0.34
Consensus pattern (486 bp):
AAGTTTTACGAAGCTCAATTCTAAATCATGAGAATTGAGTTTTATTCTTCATAACTTCGGGTAGT
ATTCTTCGGTTCTTTAAACACTAGGAGTGGAAATCAACCATTCCCTTAAAGTTATAACACCTTCA
TATCAAAAAGTCGATGTTGGTTTGAAGGTAGTTTTGGCTTATGGTTGAGAAAACGAATTGGTTGG
TTGTAGTTTGATTTATTGTGAATAACCTTAGCAGCAGACTATTAAGGGGAACCAAGATCGAGTTG
AATTCTTTGTGAGATGTTATAACTCGTGTAGAGCTCTTTTAAAACTCAAAGCTATTTTGGATATA
ATGGTGTAGACGTGGGTAGACTAGTAAGGATTGAATTTCATAGATAAGCTTGAAAATTTCGGTTA
ATCGAAGAGAAAAGTTAGTTGCGAGGGTAGGCTCCGTTGATTGTTATTAGCGTGCATCCAAAAGA
TGAAAATTTATTTCAATGATTGATCGAAATT
Found at i:3813096 original size:20 final size:19
Alignment explanation
Indices: 3813071--3813129 Score: 91
Period size: 20 Copynumber: 2.9 Consensus size: 19
3813061 GAGGACTAGG
3813071 AACCGATTTTCAGGTCTTCC
1 AACCGATTTT-AGGTCTTCC
3813091 AACCGATTTTTAGGTCTTCC
1 AACCGA-TTTTAGGTCTTCC
3813111 AACCGATTTATAGGTCTTC
1 AACCGATTT-TAGGTCTTC
3813130 AAAATAGTCA
Statistics
Matches: 37, Mismatches: 0, Indels: 4
0.90 0.00 0.10
Matches are distributed among these distances:
19 3 0.08
20 30 0.81
21 4 0.11
ACGTcount: A:0.22, C:0.25, G:0.15, T:0.37
Consensus pattern (19 bp):
AACCGATTTTAGGTCTTCC
Found at i:3813834 original size:19 final size:20
Alignment explanation
Indices: 3813810--3813848 Score: 62
Period size: 19 Copynumber: 2.0 Consensus size: 20
3813800 TGACTTCTTG
3813810 GTCAAAGCCAACG-GTTAAA
1 GTCAAAGCCAACGAGTTAAA
*
3813829 GTCAAAGTCAACGAGTTAAA
1 GTCAAAGCCAACGAGTTAAA
3813849 TATGTTTGAC
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
19 12 0.67
20 6 0.33
ACGTcount: A:0.44, C:0.18, G:0.21, T:0.18
Consensus pattern (20 bp):
GTCAAAGCCAACGAGTTAAA
Done.