Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: VEPZ01001129.1 Hibiscus syriacus cultivar Beakdansim tig00002237_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: 21326069
ACGTcount: A:0.33, C:0.17, G:0.17, T:0.33
File 39 of 89
Found at i:8537240 original size:6 final size:6
Alignment explanation
Indices: 8537223--8537266 Score: 54
Period size: 6 Copynumber: 7.2 Consensus size: 6
8537213 TATGTACCCT
*
8537223 AAATACA AAATAA AAATAA AAATAGA GAAT-A AAATAA AAATAA A
1 AAATA-A AAATAA AAATAA AAATA-A AAATAA AAATAA AAATAA A
8537267 TAACTTGTGT
Statistics
Matches: 33, Mismatches: 2, Indels: 5
0.82 0.05 0.12
Matches are distributed among these distances:
5 4 0.12
6 20 0.61
7 9 0.27
ACGTcount: A:0.77, C:0.02, G:0.05, T:0.16
Consensus pattern (6 bp):
AAATAA
Found at i:8553708 original size:75 final size:75
Alignment explanation
Indices: 8553608--8553760 Score: 306
Period size: 75 Copynumber: 2.0 Consensus size: 75
8553598 CTGATTTTTT
8553608 TTATTTCTTTCTTTAAGAAAACATAACAATTTAATATAAGACAAAACATTGATTGAAAACTGTTA
1 TTATTTCTTTCTTTAAGAAAACATAACAATTTAATATAAGACAAAACATTGATTGAAAACTGTTA
8553673 TAAGTTATAC
66 TAAGTTATAC
8553683 TTATTTCTTTCTTTAAGAAAACATAACAATTTAATATAAGACAAAACATTGATTGAAAACTGTTA
1 TTATTTCTTTCTTTAAGAAAACATAACAATTTAATATAAGACAAAACATTGATTGAAAACTGTTA
8553748 TAAGTTATAC
66 TAAGTTATAC
8553758 TTA
1 TTA
8553761 ATTAAACTTA
Statistics
Matches: 78, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
75 78 1.00
ACGTcount: A:0.44, C:0.10, G:0.08, T:0.38
Consensus pattern (75 bp):
TTATTTCTTTCTTTAAGAAAACATAACAATTTAATATAAGACAAAACATTGATTGAAAACTGTTA
TAAGTTATAC
Found at i:8555679 original size:17 final size:17
Alignment explanation
Indices: 8555654--8555691 Score: 51
Period size: 17 Copynumber: 2.3 Consensus size: 17
8555644 CAAACAAATT
*
8555654 CAAAGTCAAACAATCCA
1 CAAATTCAAACAATCCA
*
8555671 CAAATTCAAACATTCCA
1 CAAATTCAAACAATCCA
8555688 -AAAT
1 CAAAT
8555692 ATCCAAAATG
Statistics
Matches: 19, Mismatches: 2, Indels: 1
0.86 0.09 0.05
Matches are distributed among these distances:
16 4 0.21
17 15 0.79
ACGTcount: A:0.53, C:0.26, G:0.03, T:0.18
Consensus pattern (17 bp):
CAAATTCAAACAATCCA
Found at i:8557598 original size:22 final size:23
Alignment explanation
Indices: 8557573--8557627 Score: 94
Period size: 23 Copynumber: 2.4 Consensus size: 23
8557563 CCTAGGGGGT
8557573 ATCGATTCCCCTAC-AGGGGGAA
1 ATCGATTCCCCTACAAGGGGGAA
*
8557595 ATCGATTCCCCTTCAAGGGGGAA
1 ATCGATTCCCCTACAAGGGGGAA
8557618 ATCGATTCCC
1 ATCGATTCCC
8557628 TCCGCACCAA
Statistics
Matches: 31, Mismatches: 1, Indels: 1
0.94 0.03 0.03
Matches are distributed among these distances:
22 13 0.42
23 18 0.58
ACGTcount: A:0.25, C:0.29, G:0.24, T:0.22
Consensus pattern (23 bp):
ATCGATTCCCCTACAAGGGGGAA
Found at i:8558484 original size:16 final size:16
Alignment explanation
Indices: 8558463--8558494 Score: 55
Period size: 16 Copynumber: 2.0 Consensus size: 16
8558453 TAGGGCATAA
*
8558463 TTGAAATCTATCACAT
1 TTGAAATCTAGCACAT
8558479 TTGAAATCTAGCACAT
1 TTGAAATCTAGCACAT
8558495 AAGCAAACAC
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
16 15 1.00
ACGTcount: A:0.38, C:0.19, G:0.09, T:0.34
Consensus pattern (16 bp):
TTGAAATCTAGCACAT
Found at i:8561437 original size:22 final size:21
Alignment explanation
Indices: 8561395--8561434 Score: 55
Period size: 21 Copynumber: 1.9 Consensus size: 21
8561385 GAGTTTATTT
*
8561395 TCATTTTTCAATTTTGAAACA
1 TCATTTTTCAATTTTAAAACA
8561416 TCATTTTT-ATATTTTAAAA
1 TCATTTTTCA-ATTTTAAAA
8561435 ACAATTTCTC
Statistics
Matches: 17, Mismatches: 1, Indels: 2
0.85 0.05 0.10
Matches are distributed among these distances:
20 1 0.06
21 16 0.94
ACGTcount: A:0.35, C:0.10, G:0.03, T:0.53
Consensus pattern (21 bp):
TCATTTTTCAATTTTAAAACA
Found at i:8563457 original size:22 final size:23
Alignment explanation
Indices: 8563431--8563490 Score: 86
Period size: 26 Copynumber: 2.5 Consensus size: 23
8563421 AAACCATTCA
8563431 GGGGGAATCGGTACCCCCTTGGGGGG
1 GGGGGAATCGGTACCCCCTT---GGG
8563457 GGGGGAATCGGTACCCCCTT-GG
1 GGGGGAATCGGTACCCCCTTGGG
8563479 GGGGGAATCGGT
1 GGGGGAATCGGT
8563491 TCCCTCTGGC
Statistics
Matches: 34, Mismatches: 0, Indels: 4
0.89 0.00 0.11
Matches are distributed among these distances:
22 14 0.41
26 20 0.59
ACGTcount: A:0.13, C:0.22, G:0.48, T:0.17
Consensus pattern (23 bp):
GGGGGAATCGGTACCCCCTTGGG
Found at i:8563464 original size:26 final size:26
Alignment explanation
Indices: 8563431--8563483 Score: 106
Period size: 26 Copynumber: 2.0 Consensus size: 26
8563421 AAACCATTCA
8563431 GGGGGAATCGGTACCCCCTTGGGGGG
1 GGGGGAATCGGTACCCCCTTGGGGGG
8563457 GGGGGAATCGGTACCCCCTTGGGGGG
1 GGGGGAATCGGTACCCCCTTGGGGGG
8563483 G
1 G
8563484 AATCGGTTCC
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
26 27 1.00
ACGTcount: A:0.11, C:0.23, G:0.51, T:0.15
Consensus pattern (26 bp):
GGGGGAATCGGTACCCCCTTGGGGGG
Found at i:8564381 original size:95 final size:95
Alignment explanation
Indices: 8564257--8564431 Score: 291
Period size: 95 Copynumber: 1.8 Consensus size: 95
8564247 CACTTCTATA
* *
8564257 CTATGGTACCGATACCCCCTTCCGGTATCGATA-CAATTTTTAGATTCGATCTTGCCTGGT-ATA
1 CTATGGTACCAATACCCCCTTCCAGTATCGATACCAA-TTTTAGATTCGATCTTGCCTGGTAATA
8564320 GATACCCTTACCATGGTATCGATACTACCATG
65 -ATACCCTTACCATGGTATCGATACTACCATG
*
8564352 CTATGGTACCAATACCCCCTTCCAGTATCGATACCAATTTTAGATTCGATGTTGCCTGGTAATAA
1 CTATGGTACCAATACCCCCTTCCAGTATCGATACCAATTTTAGATTCGATCTTGCCTGGTAATAA
8564417 TACCCTTACCATGGT
66 TACCCTTACCATGGT
8564432 GTCAACACTA
Statistics
Matches: 75, Mismatches: 3, Indels: 4
0.91 0.04 0.05
Matches are distributed among these distances:
95 69 0.92
96 6 0.08
ACGTcount: A:0.25, C:0.26, G:0.16, T:0.33
Consensus pattern (95 bp):
CTATGGTACCAATACCCCCTTCCAGTATCGATACCAATTTTAGATTCGATCTTGCCTGGTAATAA
TACCCTTACCATGGTATCGATACTACCATG
Found at i:8573558 original size:19 final size:19
Alignment explanation
Indices: 8573534--8573574 Score: 82
Period size: 19 Copynumber: 2.2 Consensus size: 19
8573524 ATTTATAGTG
8573534 GTTCAACTTCCTTAATGAA
1 GTTCAACTTCCTTAATGAA
8573553 GTTCAACTTCCTTAATGAA
1 GTTCAACTTCCTTAATGAA
8573572 GTT
1 GTT
8573575 TACATCCACT
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
19 22 1.00
ACGTcount: A:0.29, C:0.20, G:0.12, T:0.39
Consensus pattern (19 bp):
GTTCAACTTCCTTAATGAA
Found at i:8574014 original size:21 final size:22
Alignment explanation
Indices: 8573980--8574021 Score: 68
Period size: 21 Copynumber: 2.0 Consensus size: 22
8573970 AAAAATGCCT
8573980 AGACTAAGGAGTATCGGTACTC
1 AGACTAAGGAGTATCGGTACTC
*
8574002 AGACTAA-GAGTATCTGTACT
1 AGACTAAGGAGTATCGGTACT
8574022 TCCCTTATAA
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
21 12 0.63
22 7 0.37
ACGTcount: A:0.33, C:0.17, G:0.24, T:0.26
Consensus pattern (22 bp):
AGACTAAGGAGTATCGGTACTC
Found at i:8577236 original size:29 final size:30
Alignment explanation
Indices: 8577169--8577245 Score: 95
Period size: 29 Copynumber: 2.6 Consensus size: 30
8577159 ATATTTAACC
* *
8577169 AAACTTGAATGGCTAAAATAGCTAAAACAG
1 AAACTTAAATGGCTAAAATAGCTAAAAAAG
* *
8577199 AAATTTAAA-GGACTAAAATAGC-AAAAAAT
1 AAACTTAAATGG-CTAAAATAGCTAAAAAAG
8577228 AAACTTAAATGGCTAAAA
1 AAACTTAAATGGCTAAAA
8577246 CAGTAATTAC
Statistics
Matches: 40, Mismatches: 5, Indels: 5
0.80 0.10 0.10
Matches are distributed among these distances:
29 21 0.52
30 19 0.47
ACGTcount: A:0.56, C:0.10, G:0.13, T:0.21
Consensus pattern (30 bp):
AAACTTAAATGGCTAAAATAGCTAAAAAAG
Found at i:8579291 original size:30 final size:31
Alignment explanation
Indices: 8579255--8579319 Score: 89
Period size: 31 Copynumber: 2.1 Consensus size: 31
8579245 ACAAAATTCA
*
8579255 TTTCAAG-GAAAC-TACTCAAAGATGGTTTTG
1 TTTCAAGAGAAACAGACTCAAAGAT-GTTTTG
*
8579285 TTTCAAGAGAAACAGACTCAAAGATTTTTTG
1 TTTCAAGAGAAACAGACTCAAAGATGTTTTG
8579316 TTTC
1 TTTC
8579320 CAAAAAACTG
Statistics
Matches: 31, Mismatches: 2, Indels: 3
0.86 0.06 0.08
Matches are distributed among these distances:
30 7 0.23
31 14 0.45
32 10 0.32
ACGTcount: A:0.34, C:0.14, G:0.17, T:0.35
Consensus pattern (31 bp):
TTTCAAGAGAAACAGACTCAAAGATGTTTTG
Found at i:8579495 original size:20 final size:20
Alignment explanation
Indices: 8579455--8579495 Score: 55
Period size: 20 Copynumber: 2.0 Consensus size: 20
8579445 TCTTCAAAAG
* *
8579455 AAATTGTCTCAATAGAGACA
1 AAATTGTCTCAAGAGAAACA
*
8579475 AAATTGTTTCAAGAGAAACA
1 AAATTGTCTCAAGAGAAACA
8579495 A
1 A
8579496 TTCAAAGGAT
Statistics
Matches: 18, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
20 18 1.00
ACGTcount: A:0.49, C:0.12, G:0.15, T:0.24
Consensus pattern (20 bp):
AAATTGTCTCAAGAGAAACA
Found at i:8582899 original size:15 final size:13
Alignment explanation
Indices: 8582872--8582915 Score: 54
Period size: 13 Copynumber: 3.3 Consensus size: 13
8582862 GCATAAAAAT
*
8582872 AAAATACAGATGC
1 AAAATGCAGATGC
8582885 AAAATGCAAAGATGC
1 AAAATGC--AGATGC
8582900 -AAATGCAGATGC
1 AAAATGCAGATGC
8582912 AAAA
1 AAAA
8582916 CTGTTGATCC
Statistics
Matches: 27, Mismatches: 1, Indels: 6
0.79 0.03 0.18
Matches are distributed among these distances:
12 6 0.22
13 9 0.33
14 6 0.22
15 6 0.22
ACGTcount: A:0.55, C:0.14, G:0.18, T:0.14
Consensus pattern (13 bp):
AAAATGCAGATGC
Found at i:8585601 original size:30 final size:31
Alignment explanation
Indices: 8585562--8585632 Score: 103
Period size: 30 Copynumber: 2.4 Consensus size: 31
8585552 ACCAATCTTG
* *
8585562 AAAGG-CTAAAATAGCTAAAACATAAA-TTT
1 AAAGGACTAAAATAGCAAAAACATAAACTTA
8585591 AAAGGACTAAAATAGCAAAAACATAAACTTA
1 AAAGGACTAAAATAGCAAAAACATAAACTTA
8585622 AAAGGA-TAAAA
1 AAAGGACTAAAA
8585633 CAATAATTAC
Statistics
Matches: 38, Mismatches: 2, Indels: 3
0.88 0.05 0.07
Matches are distributed among these distances:
29 5 0.13
30 25 0.66
31 8 0.21
ACGTcount: A:0.61, C:0.10, G:0.11, T:0.18
Consensus pattern (31 bp):
AAAGGACTAAAATAGCAAAAACATAAACTTA
Found at i:8585872 original size:16 final size:15
Alignment explanation
Indices: 8585831--8585859 Score: 51
Period size: 15 Copynumber: 2.0 Consensus size: 15
8585821 TTCAAATATT
8585831 AACAAA-AATAACAA
1 AACAAATAATAACAA
8585845 AACAAATAATAACAA
1 AACAAATAATAACAA
8585860 GACTAAATCA
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
14 6 0.43
15 8 0.57
ACGTcount: A:0.76, C:0.14, G:0.00, T:0.10
Consensus pattern (15 bp):
AACAAATAATAACAA
Found at i:8587137 original size:3 final size:3
Alignment explanation
Indices: 8587129--8587258 Score: 108
Period size: 3 Copynumber: 43.7 Consensus size: 3
8587119 AACAAAAAAT
*
8587129 ATA ATA ATA ATA ATA AT- ATA ATTA ATA ATA ATA ATA ATA GTA ATA
1 ATA ATA ATA ATA ATA ATA ATA A-TA ATA ATA ATA ATA ATA ATA ATA
* * * * *
8587174 GTA ACA A-A TTA ATA ATA AT- ATA ATTA TTA ATA ATA ATA ATG ATA
1 ATA ATA ATA ATA ATA ATA ATA ATA A-TA ATA ATA ATA ATA ATA ATA
* * *
8587218 ATA GTA ATA GTA ACTA ATTA ATA ATA AT- ATA GTA AT- ATA AT
1 ATA ATA ATA ATA A-TA A-TA ATA ATA ATA ATA ATA ATA ATA AT
8587259 GTTTTTTTTT
Statistics
Matches: 101, Mismatches: 18, Indels: 16
0.75 0.13 0.12
Matches are distributed among these distances:
2 9 0.09
3 81 0.80
4 11 0.11
ACGTcount: A:0.58, C:0.02, G:0.05, T:0.36
Consensus pattern (3 bp):
ATA
Found at i:8587210 original size:53 final size:52
Alignment explanation
Indices: 8587125--8587248 Score: 187
Period size: 53 Copynumber: 2.3 Consensus size: 52
8587115 TGTAAACAAA
8587125 AAATATAATAATAATAATAATATAATTAATAATAATAATAATAGTAATAGTAAC
1 AAAT-TAATAATAAT-ATAATATAATTAATAATAATAATAATAGTAATAGTAAC
*
8587179 AAATTAATAATAATATAATTATTAA-TAATAATAATGATAATAGTAATAGTAAC
1 AAATTAATAATAATATAA-TA-TAATTAATAATAATAATAATAGTAATAGTAAC
*
8587232 TAATTAATAATAATATA
1 AAATTAATAATAATATA
8587249 GTAATATAAT
Statistics
Matches: 66, Mismatches: 2, Indels: 5
0.90 0.03 0.07
Matches are distributed among these distances:
52 4 0.06
53 55 0.83
54 7 0.11
ACGTcount: A:0.59, C:0.02, G:0.04, T:0.35
Consensus pattern (52 bp):
AAATTAATAATAATATAATATAATTAATAATAATAATAATAGTAATAGTAAC
Found at i:8608437 original size:28 final size:27
Alignment explanation
Indices: 8608364--8608476 Score: 90
Period size: 26 Copynumber: 4.1 Consensus size: 27
8608354 ATTATACTTG
* *
8608364 AAAAAGAAGAAAAAGAAGAAAAAAGGAA
1 AAAAAGAAGAAAAATAA-TAAAAAGGAA
* * * *
8608392 AATACG-ATAAAAACAATAAAAAGGAA
1 AAAAAGAAGAAAAATAATAAAAAGGAA
*
8608418 AAAAAG-AGAAAAATGAAATAAAAATGGTGA
1 AAAAAGAAGAAAAAT--AATAAAAA-GG-AA
8608448 AAAAAGAAGAAAAAT-ATAAAAA-GAA
1 AAAAAGAAGAAAAATAATAAAAAGGAA
8608473 AAAA
1 AAAA
8608477 TAAATAAAGG
Statistics
Matches: 69, Mismatches: 11, Indels: 13
0.74 0.12 0.14
Matches are distributed among these distances:
25 5 0.07
26 20 0.29
27 8 0.12
28 19 0.28
29 2 0.03
30 7 0.10
31 8 0.12
ACGTcount: A:0.74, C:0.02, G:0.16, T:0.08
Consensus pattern (27 bp):
AAAAAGAAGAAAAATAATAAAAAGGAA
Found at i:8609155 original size:43 final size:40
Alignment explanation
Indices: 8609051--8609156 Score: 97
Period size: 40 Copynumber: 2.6 Consensus size: 40
8609041 AAAGAAGGCT
* * * *
8609051 AGACATCCTCATCACATAGGAACAATGTCATCCACCGATC
1 AGACTTCCTCATCACATAGGAACAACGTCATCCACAGACC
* ** *
8609091 AGA-TCTCCTCAACATGTAGGAACAACGTCATCCATATAGAGCC
1 AGACT-TCCTCATCACATAGGAACAACGTCATCC--ACAGA-CC
8609134 AGACTTCCTCATCACATAGGAAC
1 AGACTTCCTCATCACATAGGAAC
8609157 CGTGTTATCT
Statistics
Matches: 50, Mismatches: 11, Indels: 7
0.74 0.16 0.10
Matches are distributed among these distances:
40 27 0.54
42 3 0.06
43 19 0.38
44 1 0.02
ACGTcount: A:0.35, C:0.30, G:0.14, T:0.21
Consensus pattern (40 bp):
AGACTTCCTCATCACATAGGAACAACGTCATCCACAGACC
Found at i:8609314 original size:133 final size:136
Alignment explanation
Indices: 8608984--8609365 Score: 427
Period size: 133 Copynumber: 2.8 Consensus size: 136
8608974 GCAATATCAC
* * * * * *
8608984 CCTTAGATAGCCAGACTTATTCATCATGTA-GGAACCATTTTATCTCCTTTTATCCTTAAAGAAG
1 CCTTAGATAGCCAGACTTATTCATCACGTATAGAACCGTGTTATCTCCTTTTATCCCTAAAG-AC
*
8609048 GCTAGACATCCTCATCACATAGGAACAATGTCATCCACCGATCAGATCTCCTCAACATGTAGGAA
65 GCTAGACATCCTCATCACATAGGAACAATGTCATCCACCGACCAGA-CTCCTC-ACATGTAGGAA
8609113 CAACGTCAT
128 CAACGTCAT
* * * **
8609122 CCATATAGAGCCAGACTTCCTCATCAC--ATAGGAACCGTGTTATCTCCTTTTATCCCTAAAGAC
1 CCTTAGATAGCCAGACTTATTCATCACGTATA-GAACCGTGTTATCTCCTTTTATCCCTAAAGAC
* * * * *
8609185 GACTAGACATGCTCATCACATAGGAACAATGTCGTCCACTGACCAGA-T-CTC-CATTTAGGAGC
65 G-CTAGACATCCTCATCACATAGGAACAATGTCATCCACCGACCAGACTCCTCACATGTAGGAAC
*
8609247 AGCGTCAT
129 AACGTCAT
* * *
8609255 CCTTAGATAGCCAGACTTTTTCATCACGTATAG-ACTGTGTTATCTCCATTTATCCCTAAAGACC
1 CCTTAGATAGCCAGACTTATTCATCACGTATAGAACCGTGTTATCTCCTTTTATCCCTAAAGA-C
* * * * *
8609319 GCTAGACGTCCTCATCACGTAGGAATAATGTCAACCATCGACCAGAC
65 GCTAGACATCCTCATCACATAGGAACAATGTCATCCACCGACCAGAC
8609366 CTCTTCATCG
Statistics
Matches: 204, Mismatches: 33, Indels: 18
0.80 0.13 0.07
Matches are distributed among these distances:
133 102 0.50
134 3 0.01
135 6 0.03
136 2 0.01
137 2 0.01
138 89 0.44
ACGTcount: A:0.30, C:0.27, G:0.15, T:0.27
Consensus pattern (136 bp):
CCTTAGATAGCCAGACTTATTCATCACGTATAGAACCGTGTTATCTCCTTTTATCCCTAAAGACG
CTAGACATCCTCATCACATAGGAACAATGTCATCCACCGACCAGACTCCTCACATGTAGGAACAA
CGTCAT
Found at i:8609691 original size:3 final size:3
Alignment explanation
Indices: 8609683--8609750 Score: 73
Period size: 3 Copynumber: 22.7 Consensus size: 3
8609673 TGTCTCGGTT
* * * * * * *
8609683 TTA TTA TTA TTA CTA TTA TTT TTA CTA CTA CTA CTA GTA TTA TTA TTA
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA
8609731 TTA TTA TTA TTA TTA TTA TT
1 TTA TTA TTA TTA TTA TTA TT
8609751 TGTAAAATTT
Statistics
Matches: 58, Mismatches: 7, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
3 58 1.00
ACGTcount: A:0.31, C:0.07, G:0.01, T:0.60
Consensus pattern (3 bp):
TTA
Found at i:8611063 original size:28 final size:28
Alignment explanation
Indices: 8611031--8611094 Score: 128
Period size: 28 Copynumber: 2.3 Consensus size: 28
8611021 TTTTAGTCAC
8611031 TGTTTAGATTTAGTTTGGTTTATTTGCT
1 TGTTTAGATTTAGTTTGGTTTATTTGCT
8611059 TGTTTAGATTTAGTTTGGTTTATTTGCT
1 TGTTTAGATTTAGTTTGGTTTATTTGCT
8611087 TGTTTAGA
1 TGTTTAGA
8611095 CTCTGTTATT
Statistics
Matches: 36, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
28 36 1.00
ACGTcount: A:0.16, C:0.03, G:0.22, T:0.59
Consensus pattern (28 bp):
TGTTTAGATTTAGTTTGGTTTATTTGCT
Found at i:8624445 original size:15 final size:15
Alignment explanation
Indices: 8624395--8624437 Score: 77
Period size: 15 Copynumber: 2.9 Consensus size: 15
8624385 AGAAACTTGT
8624395 AGTATCGGTACTCCG
1 AGTATCGGTACTCCG
8624410 AGTATCGGTACTCCG
1 AGTATCGGTACTCCG
*
8624425 AGTATCGGCACTC
1 AGTATCGGTACTC
8624438 TGTGTATCAG
Statistics
Matches: 27, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
15 27 1.00
ACGTcount: A:0.21, C:0.28, G:0.26, T:0.26
Consensus pattern (15 bp):
AGTATCGGTACTCCG
Found at i:8631366 original size:29 final size:30
Alignment explanation
Indices: 8631298--8631366 Score: 74
Period size: 29 Copynumber: 2.4 Consensus size: 30
8631288 TACAATAACC
*
8631298 CCTCA-ATTTTCCAAAATTTACGAATTGAT
1 CCTCATATTTTCCAAAATTTACGAAATGAT
*
8631327 -CTC-TAGCTTTT-CAAAATTTACGAAATGGT
1 CCTCATA--TTTTCCAAAATTTACGAAATGAT
8631356 CCTCATATTTT
1 CCTCATATTTT
8631367 TCTAAAACTT
Statistics
Matches: 33, Mismatches: 2, Indels: 10
0.73 0.04 0.22
Matches are distributed among these distances:
28 4 0.12
29 20 0.61
30 7 0.21
31 2 0.06
ACGTcount: A:0.30, C:0.20, G:0.09, T:0.41
Consensus pattern (30 bp):
CCTCATATTTTCCAAAATTTACGAAATGAT
Found at i:8635755 original size:49 final size:49
Alignment explanation
Indices: 8635702--8635802 Score: 116
Period size: 49 Copynumber: 2.1 Consensus size: 49
8635692 ATCTAACTTG
* * * * *
8635702 CATTAGTGGCACCTTTTTGCCATAAATACAC-CATTAGGAATTTA-TCTTT
1 CATTAATGGAACCTTTCTGCCA-AAAAACACAAATT-GGAATTTAGTCTTT
*
8635751 CATTAATGGAACCTTTCTGCCAAAAAACACAAATTGGTATTTAGTCTTT
1 CATTAATGGAACCTTTCTGCCAAAAAACACAAATTGGAATTTAGTCTTT
8635800 CAT
1 CAT
8635803 CCCAAAGGCA
Statistics
Matches: 44, Mismatches: 6, Indels: 4
0.81 0.11 0.07
Matches are distributed among these distances:
48 14 0.32
49 30 0.68
ACGTcount: A:0.32, C:0.20, G:0.12, T:0.37
Consensus pattern (49 bp):
CATTAATGGAACCTTTCTGCCAAAAAACACAAATTGGAATTTAGTCTTT
Found at i:8636095 original size:55 final size:54
Alignment explanation
Indices: 8636031--8636634 Score: 782
Period size: 55 Copynumber: 10.9 Consensus size: 54
8636021 CCCACTATCA
* *
8636031 ATACGGAAATTCATAAACTTATTATGAATTTTTTAGTTTTGCACACACAGTGTTCATACAGAA
1 ATAC-GAAATTCATAAACTTATTATGAATTTCTTAGTTTTGCACACACAGTG--C---C---C
8636094 ATACGAAAATTCATAAACTTATTATGAATTTCTTAGTTTT-CACACACAGTGCCC
1 ATACG-AAATTCATAAACTTATTATGAATTTCTTAGTTTTGCACACACAGTGCCC
8636148 ATACGAAAATTCATAAACTTATTATGAATTTCTTAGTTTTGCACACACAGTGCCC
1 ATACG-AAATTCATAAACTTATTATGAATTTCTTAGTTTTGCACACACAGTGCCC
* * *
8636203 ATACGAAAATTTATAAACTTATTATGAATTTCTTAATTTTGCACACACAGGGCCC
1 ATACG-AAATTCATAAACTTATTATGAATTTCTTAGTTTTGCACACACAGTGCCC
* * *
8636258 ATACGGAAATTCATAAACTTAATATGAATTTATTGGTTTTG--CACACAGTGCCC
1 ATAC-GAAATTCATAAACTTATTATGAATTTCTTAGTTTTGCACACACAGTGCCC
* * * *
8636311 ATACAAAAATTCATAAACTTATTATGAATTTCTTAGTTTTTGCATAAACAGTGACC
1 ATAC-GAAATTCATAAACTTATTATGAATTTCTTAG-TTTTGCACACACAGTGCCC
*
8636367 ATACAGAAATTCATAAACTTATTATGAATTTCTTAGTTTTGCACACACAGTTCCC
1 ATAC-GAAATTCATAAACTTATTATGAATTTCTTAGTTTTGCACACACAGTGCCC
* * *
8636422 ATACAGAAATTCATAAACTTATTATGAGTTTCTTAGTTTTGCACACATAGTGACC
1 ATAC-GAAATTCATAAACTTATTATGAATTTCTTAGTTTTGCACACACAGTGCCC
* *
8636477 ATACGAAAATTCATAAACTTATTATGAATATCTTAGTTTTGCAAACACAGTGCCC
1 ATACG-AAATTCATAAACTTATTATGAATTTCTTAGTTTTGCACACACAGTGCCC
* * * * *
8636532 ATACGGAAATTCATAAACTTACTATGAATTTTCTTAATTTTTCCCACACAGTGCTC
1 ATAC-GAAATTCATAAACTTATTATGAA-TTTCTTAGTTTTGCACACACAGTGCCC
*
8636588 ATACGAAAATTCATAAACTTATTATGAATTTCTTAATTTTGCACACA
1 ATACG-AAATTCATAAACTTATTATGAATTTCTTAGTTTTGCACACA
8636635 TAGTTCCATT
Statistics
Matches: 488, Mismatches: 43, Indels: 28
0.87 0.08 0.05
Matches are distributed among these distances:
53 42 0.09
54 46 0.09
55 257 0.53
56 92 0.19
57 1 0.00
60 1 0.00
62 12 0.02
63 37 0.08
ACGTcount: A:0.36, C:0.18, G:0.11, T:0.36
Consensus pattern (54 bp):
ATACGAAATTCATAAACTTATTATGAATTTCTTAGTTTTGCACACACAGTGCCC
Found at i:8636487 original size:274 final size:279
Alignment explanation
Indices: 8636037--8636632 Score: 868
Period size: 274 Copynumber: 2.1 Consensus size: 279
8636027 ATCAATACGG
* * **
8636037 AAATTCATAAACTTATTATGAATTTTTTAG-TTTTGCACACACAGTGTTCATACAGAAATACGAA
1 AAATTCATAAACTTATTATGAATTTCTTAGTTTTTGCACAAACAGTGACCATAC----A-ACGAA
8636101 AATTCATAAACTTATTATGAATTTCTTAGTTTTCACACACAGTGCCCATACGAAAATTCATAAAC
61 AATTCATAAACTTATTATGAATTTCTTAGTTTTCACACACAGTGCCCATACGAAAATTCATAAAC
* *
8636166 TTATTATGAATTTCTTAGTTTTGCACACACAGTGCCCATACGAAAATTTATAAACTTATTATGAA
126 TTATTATGAATTTCTTAGTTTTGCACACACAGTGACCATACGAAAATTCATAAACTTATTATGAA
* * *
8636231 TTTCTTAATTTTGCACACACAGGGCCCATACGGAAATTCATAAACTTAATATGAA-TTTATT-GG
191 TATCTTAATTTTGCAAACACAGGGCCCATACGGAAATTCATAAACTTAATATGAATTTTATTAAG
*
8636294 TTTT-GCACACAGTGCCCATACAA
256 TTTTCCCACACAGTGCCCATACAA
*
8636317 AAATTCATAAACTTATTATGAATTTCTTAGTTTTTGCATAAACAGTGACCATAC-A-G-AAATTC
1 AAATTCATAAACTTATTATGAATTTCTTAGTTTTTGCACAAACAGTGACCATACAACGAAAATTC
*
8636379 ATAAACTTATTATGAATTTCTTAGTTTTGCACACACAGTTCCCATAC-AGAAATTCATAAACTTA
66 ATAAACTTATTATGAATTTCTTAGTTTT-CACACACAGTGCCCATACGA-AAATTCATAAACTTA
* *
8636443 TTATGAGTTTCTTAGTTTTGCACACATAGTGACCATACGAAAATTCATAAACTTATTATGAATAT
129 TTATGAATTTCTTAGTTTTGCACACACAGTGACCATACGAAAATTCATAAACTTATTATGAATAT
* * * * *
8636508 CTTAGTTTTGCAAACACAGTGCCCATACGGAAATTCATAAACTTACTATGAATTTTCTTAATTTT
194 CTTAATTTTGCAAACACAGGGCCCATACGGAAATTCATAAACTTAATATGAATTTTATTAAGTTT
* *
8636573 TCCCACACAGTGCTCATACGA
259 TCCCACACAGTGCCCATACAA
*
8636594 AAATTCATAAACTTATTATGAATTTCTTA-ATTTTGCACA
1 AAATTCATAAACTTATTATGAATTTCTTAGTTTTTGCACA
8636633 CATAGTTCCA
Statistics
Matches: 287, Mismatches: 23, Indels: 16
0.88 0.07 0.05
Matches are distributed among these distances:
273 35 0.12
274 141 0.49
275 6 0.02
276 12 0.04
277 45 0.16
280 29 0.10
281 19 0.07
ACGTcount: A:0.36, C:0.18, G:0.10, T:0.36
Consensus pattern (279 bp):
AAATTCATAAACTTATTATGAATTTCTTAGTTTTTGCACAAACAGTGACCATACAACGAAAATTC
ATAAACTTATTATGAATTTCTTAGTTTTCACACACAGTGCCCATACGAAAATTCATAAACTTATT
ATGAATTTCTTAGTTTTGCACACACAGTGACCATACGAAAATTCATAAACTTATTATGAATATCT
TAATTTTGCAAACACAGGGCCCATACGGAAATTCATAAACTTAATATGAATTTTATTAAGTTTTC
CCACACAGTGCCCATACAA
Found at i:8637192 original size:18 final size:19
Alignment explanation
Indices: 8637151--8637197 Score: 60
Period size: 20 Copynumber: 2.5 Consensus size: 19
8637141 GAAATCAATG
*
8637151 GTATCGATACCTTCCTCATA
1 GTATCGATACCTACCT-ATA
8637171 GTATCGATACCTACCT-TA
1 GTATCGATACCTACCTATA
*
8637189 GTATTGATA
1 GTATCGATA
8637198 TTGTTCAGCT
Statistics
Matches: 25, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
18 10 0.40
20 15 0.60
ACGTcount: A:0.28, C:0.23, G:0.13, T:0.36
Consensus pattern (19 bp):
GTATCGATACCTACCTATA
Found at i:8641935 original size:6 final size:6
Alignment explanation
Indices: 8641926--8641955 Score: 51
Period size: 6 Copynumber: 5.0 Consensus size: 6
8641916 TAACACCTTG
*
8641926 TGCATG TGCATT TGCATT TGCATT TGCATT
1 TGCATT TGCATT TGCATT TGCATT TGCATT
8641956 CTTATTAGCA
Statistics
Matches: 23, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
6 23 1.00
ACGTcount: A:0.17, C:0.17, G:0.20, T:0.47
Consensus pattern (6 bp):
TGCATT
Found at i:8648196 original size:42 final size:41
Alignment explanation
Indices: 8648130--8648236 Score: 124
Period size: 42 Copynumber: 2.6 Consensus size: 41
8648120 TTCACAATTT
* * * *
8648130 ATAAGTCCTTCGGGCCATCAGTAAGTCTTTCGAGCATGATG
1 ATAAATCCTTCGGGCCATCAGTAAGCCTTTAGAGCAAGATG
* * *
8648171 CTTAAATCCTTCGGGTCATCTGTAAGCCTTTAGAGCAAGATG
1 -ATAAATCCTTCGGGCCATCAGTAAGCCTTTAGAGCAAGATG
* *
8648213 ATAAGTCCTTCGGGCCATCCGTAA
1 ATAAATCCTTCGGGCCATCAGTAA
8648237 AACCTTCGAG
Statistics
Matches: 54, Mismatches: 11, Indels: 1
0.82 0.17 0.02
Matches are distributed among these distances:
41 20 0.37
42 34 0.63
ACGTcount: A:0.25, C:0.23, G:0.22, T:0.29
Consensus pattern (41 bp):
ATAAATCCTTCGGGCCATCAGTAAGCCTTTAGAGCAAGATG
Found at i:8648252 original size:41 final size:42
Alignment explanation
Indices: 8648130--8648253 Score: 117
Period size: 42 Copynumber: 3.0 Consensus size: 42
8648120 TTCACAATTT
** * *
8648130 ATAAGTCCTTCGGGCCATCAGTAAGTCTTTCGAGCATGATGC
1 ATAAGTCCTTCGGGCCATCAGTAAAACCTTCGAGCAAGATGC
* * * * * *
8648172 TTAAATCCTTCGGGTCATCTGT-AAGCCTTTAGAGCAAGATG-
1 ATAAGTCCTTCGGGCCATCAGTAAAACC-TTCGAGCAAGATGC
* *
8648213 ATAAGTCCTTCGGGCCATCCGTAAAACCTTCGAGTAAGATG
1 ATAAGTCCTTCGGGCCATCAGTAAAACCTTCGAGCAAGATG
8648254 TTTTCAAAAG
Statistics
Matches: 64, Mismatches: 16, Indels: 5
0.75 0.19 0.06
Matches are distributed among these distances:
41 31 0.48
42 33 0.52
ACGTcount: A:0.27, C:0.23, G:0.23, T:0.28
Consensus pattern (42 bp):
ATAAGTCCTTCGGGCCATCAGTAAAACCTTCGAGCAAGATGC
Found at i:8648393 original size:214 final size:214
Alignment explanation
Indices: 8648013--8648414 Score: 669
Period size: 214 Copynumber: 1.9 Consensus size: 214
8648003 GTGAAGCAAC
* * *
8648013 CCATCCATAAGACCTTCGGGTAAGATGTTTTCAAAAGAATTTGAAAATAAAAAATGATGTTTTAA
1 CCATCCATAAAACCTTCGAGTAAGATGTTTTCAAAAGAATTTGAAAATAAAAAACGATGTTTTAA
* * *
8648078 GAAGATGTAATTTTTGAAAACGAAGAATGTGATTTTCAAAATTTCACAATTTATAAGTCCTTCGG
66 GAAGATGAAATTTTTGAAAACAAAGAATGCGATTTTCAAAATTTCACAATTTATAAGTCCTTCGG
* * *
8648143 GCCATCAGTAAGTCTTTCGAGCATGATGCTTAAATCCTTCGGGTCATCTGTAAGCCTTTAGAGCA
131 GCCATCAGTAAGTCTTTCGAGCATGATGATTAAATCCTTCGGGTAATCTATAAGCCTTTAGAGCA
8648208 AGATGATAAGTCCTTCGGG
196 AGATGATAAGTCCTTCGGG
* * *
8648227 CCATCCGTAAAACCTTCGAGTAAGATGTTTTCAAAAGAATTTGAAAATGAAAAACGATGTTTTGA
1 CCATCCATAAAACCTTCGAGTAAGATGTTTTCAAAAGAATTTGAAAATAAAAAACGATGTTTTAA
*
8648292 GAAGATGAAATTTTTGAAAACAAAGAATGCGATTTTCAAAATTTCACAATTTATAAGTCCTTCTG
66 GAAGATGAAATTTTTGAAAACAAAGAATGCGATTTTCAAAATTTCACAATTTATAAGTCCTTCGG
* *
8648357 TCCATCAGTAAGTCTTTCGAGCATGATGATTAAATCCTTCGGGTAATTTATAAGCCTT
131 GCCATCAGTAAGTCTTTCGAGCATGATGATTAAATCCTTCGGGTAATCTATAAGCCTT
8648415 CACCGAAGAG
Statistics
Matches: 173, Mismatches: 15, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
214 173 1.00
ACGTcount: A:0.35, C:0.15, G:0.18, T:0.32
Consensus pattern (214 bp):
CCATCCATAAAACCTTCGAGTAAGATGTTTTCAAAAGAATTTGAAAATAAAAAACGATGTTTTAA
GAAGATGAAATTTTTGAAAACAAAGAATGCGATTTTCAAAATTTCACAATTTATAAGTCCTTCGG
GCCATCAGTAAGTCTTTCGAGCATGATGATTAAATCCTTCGGGTAATCTATAAGCCTTTAGAGCA
AGATGATAAGTCCTTCGGG
Found at i:8648456 original size:13 final size:13
Alignment explanation
Indices: 8648438--8648462 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
8648428 TGAAGCAAAC
8648438 CCATCAGTAAGTG
1 CCATCAGTAAGTG
8648451 CCATCAGTAAGT
1 CCATCAGTAAGT
8648463 CTTTTGAGCA
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.32, C:0.24, G:0.20, T:0.24
Consensus pattern (13 bp):
CCATCAGTAAGTG
Found at i:8648514 original size:42 final size:42
Alignment explanation
Indices: 8648450--8648533 Score: 150
Period size: 42 Copynumber: 2.0 Consensus size: 42
8648440 ATCAGTAAGT
*
8648450 GCCATCAGTAAGTCTTTTGAGCATGATGATGAAATCCTTCGG
1 GCCATCAGTAAGTCTTTCGAGCATGATGATGAAATCCTTCGG
*
8648492 GCCATCAGTAAGTCTTTCGAGCATGATGATTAAATCCTTCGG
1 GCCATCAGTAAGTCTTTCGAGCATGATGATGAAATCCTTCGG
8648534 ATAATTTGTA
Statistics
Matches: 40, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
42 40 1.00
ACGTcount: A:0.26, C:0.20, G:0.23, T:0.31
Consensus pattern (42 bp):
GCCATCAGTAAGTCTTTCGAGCATGATGATGAAATCCTTCGG
Found at i:8649201 original size:53 final size:53
Alignment explanation
Indices: 8649034--8649243 Score: 251
Period size: 53 Copynumber: 3.9 Consensus size: 53
8649024 AGAATCACAC
* *
8649034 CAGAAAATTGTTCGAGTTCTACTCCCTGAAGCAAGAGGGAGCGAACCCGTAGA
1 CAGAAGATTGTTCGAGTTCTACTCCCTGAAGCAAGAGGGAGCGAACCCGTAAA
* * *
8649087 CAAAAGATTGTTCGAGTTTTACTCCCTGAAGCAAGAGGGAGCGAACCCGTAAG
1 CAGAAGATTGTTCGAGTTCTACTCCCTGAAGCAAGAGGGAGCGAACCCGTAAA
* * * ***
8649140 CAGAAGATTATTCGAGTTCTACTCCCTGAAGCAATAGGGAGCGAACCCATTTT
1 CAGAAGATTGTTCGAGTTCTACTCCCTGAAGCAAGAGGGAGCGAACCCGTAAA
* * * * *
8649193 TAGGAGATTGTTCGAGTTCCTTAATCCCGGAA-CAAGAGGGAGCGGACCCGT
1 CAGAAGATTGTTCGAGTT-C-TACTCCCTGAAGCAAGAGGGAGCGAACCCGT
8649244 CATTTGAAGA
Statistics
Matches: 134, Mismatches: 21, Indels: 3
0.85 0.13 0.02
Matches are distributed among these distances:
53 108 0.81
54 17 0.13
55 9 0.07
ACGTcount: A:0.30, C:0.22, G:0.26, T:0.22
Consensus pattern (53 bp):
CAGAAGATTGTTCGAGTTCTACTCCCTGAAGCAAGAGGGAGCGAACCCGTAAA
Found at i:8650379 original size:2 final size:2
Alignment explanation
Indices: 8650363--8650395 Score: 50
Period size: 2 Copynumber: 17.0 Consensus size: 2
8650353 GTCTAAAATA
*
8650363 AT AT AA AT A- AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
8650396 TCATTGAAAC
Statistics
Matches: 28, Mismatches: 2, Indels: 2
0.88 0.06 0.06
Matches are distributed among these distances:
1 1 0.04
2 27 0.96
ACGTcount: A:0.55, C:0.00, G:0.00, T:0.45
Consensus pattern (2 bp):
AT
Found at i:8655867 original size:55 final size:55
Alignment explanation
Indices: 8655830--8656198 Score: 401
Period size: 55 Copynumber: 6.8 Consensus size: 55
8655820 TATCAATATG
* ** *
8655830 GAAATTCATAAACTTGTAATGAATTTCTTAGTTTTGCACACACAGTGCCTGTTCA
1 GAAATTCATAAACTTATAATGAATTTCTTAGTTTTGCACACACAGTGCCCATACA
* * * *
8655885 AAAATTCATGAACTTATTAA-GAATTTCATAGTTTTGCATACACAGTGCCCATACA
1 GAAATTCATAAACTTA-TAATGAATTTCTTAGTTTTGCACACACAGTGCCCATACA
* * * * * * * *
8655940 GAAATTCATAAACTTATTATGATTTTTTTAATTTTGCACATACAGTCCCCTTACG
1 GAAATTCATAAACTTATAATGAATTTCTTAGTTTTGCACACACAGTGCCCATACA
8655995 GAAATTCATAAAC-T-T-ATGAATTTCTTAGTTTTGCACACACAGTGCCTC-TACA
1 GAAATTCATAAACTTATAATGAATTTCTTAGTTTTGCACACACAGTGCC-CATACA
* * * *
8656047 AAAATTCATGAACTTATTAA-GAATTTCTTAGTTTTACATACACAGTGCCCATACA
1 GAAATTCATAAACTTA-TAATGAATTTCTTAGTTTTGCACACACAGTGCCCATACA
* * * * * *
8656102 GAAATTCATAAACCTATTATGAATTTCTTAATTTTGCACACACAGTGTCTATA-T
1 GAAATTCATAAACTTATAATGAATTTCTTAGTTTTGCACACACAGTGCCCATACA
* *
8656156 GAAAATTCATAAACTTATTATGAATTTCTTAATTTTGCACACA
1 G-AAATTCATAAACTTATAATGAATTTCTTAGTTTTGCACACA
8656199 TTGTGCCATT
Statistics
Matches: 263, Mismatches: 41, Indels: 20
0.81 0.13 0.06
Matches are distributed among these distances:
52 40 0.15
53 3 0.01
54 7 0.03
55 209 0.79
56 4 0.02
ACGTcount: A:0.35, C:0.18, G:0.10, T:0.37
Consensus pattern (55 bp):
GAAATTCATAAACTTATAATGAATTTCTTAGTTTTGCACACACAGTGCCCATACA
Found at i:8656081 original size:162 final size:163
Alignment explanation
Indices: 8655829--8656198 Score: 564
Period size: 162 Copynumber: 2.3 Consensus size: 163
8655819 CTATCAATAT
* *
8655829 GGAAATTCATAAACTTGTAATGAATTTCTTAGTTTTGCACACACAGTGCCTGTTCAAAAATTCAT
1 GGAAATTCATAAACTT-T-ATGAATTTCTTAGTTTTGCACACACAGTGCCTCTACAAAAATTCAT
* *
8655894 GAACTTATTAAGAATTTCATAGTTTTGCATACACAGTGCCCATACAGAAATTCATAAACTTATTA
64 GAACTTATTAAGAATTTCATAGTTTTACATACACAGTGCCCATACAGAAATTCATAAACCTATTA
* * *
8655959 TGATTTTTTTAATTTTGCACATACAGTCCCCT-TAC
129 TGAATTTCTTAATTTTGCACACACAGT-CCCTATAC
8655994 GGAAATTCATAAAC-TTATGAATTTCTTAGTTTTGCACACACAGTGCCTCTACAAAAATTCATGA
1 GGAAATTCATAAACTTTATGAATTTCTTAGTTTTGCACACACAGTGCCTCTACAAAAATTCATGA
*
8656058 ACTTATTAAGAATTTCTTAGTTTTACATACACAGTGCCCATACAGAAATTCATAAACCTATTATG
66 ACTTATTAAGAATTTCATAGTTTTACATACACAGTGCCCATACAGAAATTCATAAACCTATTATG
** *
8656123 AATTTCTTAATTTTGCACACACAGTGTCTATAT
131 AATTTCTTAATTTTGCACACACAGTCCCTATAC
* *
8656156 GAAAATTCATAAACTTATTATGAATTTCTTAATTTTGCACACA
1 GGAAATTCATAAAC-T-TTATGAATTTCTTAGTTTTGCACACA
8656199 TTGTGCCATT
Statistics
Matches: 188, Mismatches: 13, Indels: 8
0.90 0.06 0.04
Matches are distributed among these distances:
161 2 0.01
162 145 0.77
163 1 0.01
164 1 0.01
165 39 0.21
ACGTcount: A:0.35, C:0.18, G:0.11, T:0.37
Consensus pattern (163 bp):
GGAAATTCATAAACTTTATGAATTTCTTAGTTTTGCACACACAGTGCCTCTACAAAAATTCATGA
ACTTATTAAGAATTTCATAGTTTTACATACACAGTGCCCATACAGAAATTCATAAACCTATTATG
AATTTCTTAATTTTGCACACACAGTCCCTATAC
Found at i:8670074 original size:13 final size:13
Alignment explanation
Indices: 8670056--8670087 Score: 55
Period size: 13 Copynumber: 2.5 Consensus size: 13
8670046 TAAGACGTTC
8670056 ATATCGATTATAT
1 ATATCGATTATAT
8670069 ATATCGATTATAT
1 ATATCGATTATAT
*
8670082 GTATCG
1 ATATCG
8670088 TGTAGATATC
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
13 18 1.00
ACGTcount: A:0.34, C:0.09, G:0.12, T:0.44
Consensus pattern (13 bp):
ATATCGATTATAT
Found at i:8673254 original size:23 final size:23
Alignment explanation
Indices: 8673224--8673274 Score: 102
Period size: 23 Copynumber: 2.2 Consensus size: 23
8673214 GAGTCGAGGG
8673224 TTCTACGAGGTCCTTCGGGACAA
1 TTCTACGAGGTCCTTCGGGACAA
8673247 TTCTACGAGGTCCTTCGGGACAA
1 TTCTACGAGGTCCTTCGGGACAA
8673270 TTCTA
1 TTCTA
8673275 TATGGCACTC
Statistics
Matches: 28, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
23 28 1.00
ACGTcount: A:0.22, C:0.25, G:0.24, T:0.29
Consensus pattern (23 bp):
TTCTACGAGGTCCTTCGGGACAA
Found at i:8678934 original size:21 final size:22
Alignment explanation
Indices: 8678910--8678972 Score: 58
Period size: 23 Copynumber: 2.9 Consensus size: 22
8678900 GGTCCTTAGT
8678910 GACATATATGTGGTCCTTCT-A
1 GACATATATGTGGTCCTTCTAA
* * *
8678931 GACAATTCTACGAGGTCCTT-TAA
1 GAC-A-TATATGTGGTCCTTCTAA
*
8678954 GACATAAATGTGGTCCTTC
1 GACATATATGTGGTCCTTC
8678973 GGGACAATTC
Statistics
Matches: 31, Mismatches: 7, Indels: 7
0.69 0.16 0.16
Matches are distributed among these distances:
21 13 0.42
22 3 0.10
23 15 0.48
ACGTcount: A:0.27, C:0.21, G:0.19, T:0.33
Consensus pattern (22 bp):
GACATATATGTGGTCCTTCTAA
Found at i:8678958 original size:44 final size:44
Alignment explanation
Indices: 8678892--8678984 Score: 125
Period size: 44 Copynumber: 2.1 Consensus size: 44
8678882 GAGTCGAGGG
* * * *
8678892 TTCTATGAGGTCCTTAGTGACATATATGTGGTCCTTCTAGACAA
1 TTCTACGAGGTCCTTAGAGACATAAATGTGGTCCTTCGAGACAA
*
8678936 TTCTACGAGGTCCTTTA-AGACATAAATGTGGTCCTTCGGGACAA
1 TTCTACGAGGTCC-TTAGAGACATAAATGTGGTCCTTCGAGACAA
8678980 TTCTA
1 TTCTA
8678985 TATGGCACTA
Statistics
Matches: 43, Mismatches: 5, Indels: 2
0.86 0.10 0.04
Matches are distributed among these distances:
44 40 0.93
45 3 0.07
ACGTcount: A:0.26, C:0.19, G:0.20, T:0.34
Consensus pattern (44 bp):
TTCTACGAGGTCCTTAGAGACATAAATGTGGTCCTTCGAGACAA
Found at i:8680510 original size:23 final size:23
Alignment explanation
Indices: 8680480--8680525 Score: 83
Period size: 23 Copynumber: 2.0 Consensus size: 23
8680470 TGAGGGTTGC
8680480 GCCCTAAATTAAAATAGTATTGT
1 GCCCTAAATTAAAATAGTATTGT
*
8680503 GCCCTAAATTAAAATAGTGTTGT
1 GCCCTAAATTAAAATAGTATTGT
8680526 TGATTTTGAA
Statistics
Matches: 22, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
23 22 1.00
ACGTcount: A:0.37, C:0.13, G:0.15, T:0.35
Consensus pattern (23 bp):
GCCCTAAATTAAAATAGTATTGT
Found at i:8681790 original size:2 final size:2
Alignment explanation
Indices: 8681783--8681809 Score: 54
Period size: 2 Copynumber: 13.5 Consensus size: 2
8681773 TGACGTTGTG
8681783 TA TA TA TA TA TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA TA T
8681810 GGATTTTCTA
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 25 1.00
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (2 bp):
TA
Found at i:8684562 original size:21 final size:21
Alignment explanation
Indices: 8684536--8684614 Score: 86
Period size: 21 Copynumber: 3.7 Consensus size: 21
8684526 GGTTCTAGGA
*
8684536 GGTCCTTCGAGACATATATGT
1 GGTCCTTCGGGACATATATGT
* * *
8684557 GGTCCTTTGGGACAATTCTATGA
1 GGTCCTTCGGGAC-A-TATATGT
*
8684580 GGTCCTTCGGGATATATATGT
1 GGTCCTTCGGGACATATATGT
*
8684601 GGTCCTTTGGGACA
1 GGTCCTTCGGGACA
8684615 ATTCTATATG
Statistics
Matches: 46, Mismatches: 10, Indels: 4
0.77 0.17 0.07
Matches are distributed among these distances:
21 28 0.61
22 2 0.04
23 16 0.35
ACGTcount: A:0.20, C:0.18, G:0.28, T:0.34
Consensus pattern (21 bp):
GGTCCTTCGGGACATATATGT
Found at i:8684583 original size:23 final size:23
Alignment explanation
Indices: 8684552--8684626 Score: 91
Period size: 23 Copynumber: 3.3 Consensus size: 23
8684542 TCGAGACATA
8684552 TATGTGGTCCTTTGGGACAATTC
1 TATGTGGTCCTTTGGGACAATTC
* * * *
8684575 TATGAGGTCCTTCGGGA-TA-TA
1 TATGTGGTCCTTTGGGACAATTC
8684596 TATGTGGTCCTTTGGGACAATTC
1 TATGTGGTCCTTTGGGACAATTC
*
8684619 TATATGGT
1 TATGTGGT
8684627 ACTCAGCGCA
Statistics
Matches: 41, Mismatches: 9, Indels: 4
0.76 0.17 0.07
Matches are distributed among these distances:
21 16 0.39
22 2 0.05
23 23 0.56
ACGTcount: A:0.20, C:0.15, G:0.27, T:0.39
Consensus pattern (23 bp):
TATGTGGTCCTTTGGGACAATTC
Found at i:8684597 original size:44 final size:44
Alignment explanation
Indices: 8684528--8684621 Score: 161
Period size: 44 Copynumber: 2.1 Consensus size: 44
8684518 GAGTTAAGGG
*
8684528 TTCTAGGAGGTCCTTCGAGACATATATGTGGTCCTTTGGGACAA
1 TTCTATGAGGTCCTTCGAGACATATATGTGGTCCTTTGGGACAA
* *
8684572 TTCTATGAGGTCCTTCGGGATATATATGTGGTCCTTTGGGACAA
1 TTCTATGAGGTCCTTCGAGACATATATGTGGTCCTTTGGGACAA
8684616 TTCTAT
1 TTCTAT
8684622 ATGGTACTCA
Statistics
Matches: 47, Mismatches: 3, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
44 47 1.00
ACGTcount: A:0.21, C:0.17, G:0.26, T:0.36
Consensus pattern (44 bp):
TTCTATGAGGTCCTTCGAGACATATATGTGGTCCTTTGGGACAA
Found at i:8684870 original size:18 final size:18
Alignment explanation
Indices: 8684827--8684870 Score: 52
Period size: 18 Copynumber: 2.4 Consensus size: 18
8684817 TAAAAGGAAT
8684827 TAATGATAAAAATATTGA
1 TAATGATAAAAATATTGA
* * *
8684845 TAACGATAAGAATGTTGA
1 TAATGATAAAAATATTGA
*
8684863 TGATGATA
1 TAATGATA
8684871 TATGTGTATG
Statistics
Matches: 21, Mismatches: 5, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
18 21 1.00
ACGTcount: A:0.48, C:0.02, G:0.18, T:0.32
Consensus pattern (18 bp):
TAATGATAAAAATATTGA
Found at i:8687133 original size:21 final size:21
Alignment explanation
Indices: 8687107--8687181 Score: 98
Period size: 21 Copynumber: 3.6 Consensus size: 21
8687097 ATACTCATAG
8687107 GGGTATCGATACTTGAACCTA
1 GGGTATCGATACTTGAACCTA
8687128 GGGTATCGATACTTGAACCTA
1 GGGTATCGATACTTGAACCTA
* * * *
8687149 GGCTATCGATATTTCAA-ATA
1 GGGTATCGATACTTGAACCTA
*
8687169 GAGTATCGATACT
1 GGGTATCGATACT
8687182 ACTCACTTTG
Statistics
Matches: 47, Mismatches: 7, Indels: 1
0.85 0.13 0.02
Matches are distributed among these distances:
20 12 0.26
21 35 0.74
ACGTcount: A:0.31, C:0.17, G:0.21, T:0.31
Consensus pattern (21 bp):
GGGTATCGATACTTGAACCTA
Found at i:8688292 original size:32 final size:32
Alignment explanation
Indices: 8688230--8688320 Score: 105
Period size: 32 Copynumber: 2.8 Consensus size: 32
8688220 GACTAGATAC
* **
8688230 TAGTCAGGTTTTACATTTAGGTAATG-ATAGTA
1 TAGTCAGGTTTT-CATTCAAATAATGCATAGTA
*
8688262 TAGTTAGGTTTGT-ATTCAAATAATGCATAGTA
1 TAGTCAGGTTT-TCATTCAAATAATGCATAGTA
*
8688294 TAGTCAGGTTTTCATTCACATAATGCA
1 TAGTCAGGTTTTCATTCAAATAATGCA
8688321 CATGAGTATC
Statistics
Matches: 50, Mismatches: 6, Indels: 6
0.81 0.10 0.10
Matches are distributed among these distances:
31 10 0.20
32 39 0.78
33 1 0.02
ACGTcount: A:0.32, C:0.10, G:0.19, T:0.40
Consensus pattern (32 bp):
TAGTCAGGTTTTCATTCAAATAATGCATAGTA
Found at i:8691213 original size:14 final size:14
Alignment explanation
Indices: 8691194--8691223 Score: 51
Period size: 14 Copynumber: 2.1 Consensus size: 14
8691184 TCGAATCAAA
*
8691194 TTTAGGTGTTACAT
1 TTTAGGTATTACAT
8691208 TTTAGGTATTACAT
1 TTTAGGTATTACAT
8691222 TT
1 TT
8691224 AGTGGTATCA
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
14 15 1.00
ACGTcount: A:0.23, C:0.07, G:0.17, T:0.53
Consensus pattern (14 bp):
TTTAGGTATTACAT
Found at i:8695187 original size:13 final size:13
Alignment explanation
Indices: 8695169--8695247 Score: 54
Period size: 13 Copynumber: 6.2 Consensus size: 13
8695159 TACATTGAGC
*
8695169 TATGAATCTGAAA
1 TATGAATATGAAA
*
8695182 TATGAATATGAGA
1 TATGAATATGAAA
8695195 TATGAATAT-AAA
1 TATGAATATGAAA
* * *
8695207 AATGAGCTATG-AG
1 TATGA-ATATGAAA
* * **
8695220 TTTGAAAATGAGT
1 TATGAATATGAAA
8695233 TATGAATATGAAA
1 TATGAATATGAAA
8695246 TA
1 TA
8695248 AGTTATGAAT
Statistics
Matches: 47, Mismatches: 16, Indels: 6
0.68 0.23 0.09
Matches are distributed among these distances:
12 9 0.19
13 38 0.81
ACGTcount: A:0.47, C:0.03, G:0.19, T:0.32
Consensus pattern (13 bp):
TATGAATATGAAA
Found at i:8695202 original size:19 final size:19
Alignment explanation
Indices: 8695180--8695265 Score: 93
Period size: 19 Copynumber: 4.6 Consensus size: 19
8695170 ATGAATCTGA
* *
8695180 AATATGAATATGAGATATG
1 AATATGAAAATGAGTTATG
* *
8695199 AATATAAAAATGAGCTATG
1 AATATGAAAATGAGTTATG
* *
8695218 AGTTTGAAAATGAGTTATG
1 AATATGAAAATGAGTTATG
*
8695237 AATATG-AAATAAGTTATG
1 AATATGAAAATGAGTTATG
*
8695255 AATCTGAAAAT
1 AATATGAAAAT
8695266 AAAGAAATGT
Statistics
Matches: 55, Mismatches: 11, Indels: 2
0.81 0.16 0.03
Matches are distributed among these distances:
18 16 0.29
19 39 0.71
ACGTcount: A:0.48, C:0.02, G:0.19, T:0.31
Consensus pattern (19 bp):
AATATGAAAATGAGTTATG
Found at i:8695226 original size:45 final size:43
Alignment explanation
Indices: 8695164--8695248 Score: 109
Period size: 45 Copynumber: 1.9 Consensus size: 43
8695154 ATATATACAT
8695164 TGAGCTATGAATCTGAAATATGA-ATATGAGATATGAATATAAAAA
1 TGAGCTATGAATCTGAAA-ATGAGATATGA-ATATGAA-ATAAAAA
* * *
8695209 TGAGCTATGAGTTTGAAAATGAGTTATGAATATGAAATAA
1 TGAGCTATGAATCTGAAAATGAGATATGAATATGAAATAA
8695249 GTTATGAATC
Statistics
Matches: 36, Mismatches: 3, Indels: 4
0.84 0.07 0.09
Matches are distributed among these distances:
43 4 0.11
44 11 0.31
45 21 0.58
ACGTcount: A:0.46, C:0.04, G:0.20, T:0.31
Consensus pattern (43 bp):
TGAGCTATGAATCTGAAAATGAGATATGAATATGAAATAAAAA
Found at i:8695251 original size:18 final size:18
Alignment explanation
Indices: 8695225--8695263 Score: 60
Period size: 18 Copynumber: 2.2 Consensus size: 18
8695215 ATGAGTTTGA
*
8695225 AAATGAGTTATGAATATG
1 AAATAAGTTATGAATATG
*
8695243 AAATAAGTTATGAATCTG
1 AAATAAGTTATGAATATG
8695261 AAA
1 AAA
8695264 ATAAAGAAAT
Statistics
Matches: 19, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
18 19 1.00
ACGTcount: A:0.49, C:0.03, G:0.18, T:0.31
Consensus pattern (18 bp):
AAATAAGTTATGAATATG
Found at i:8698494 original size:19 final size:20
Alignment explanation
Indices: 8698449--8698502 Score: 74
Period size: 20 Copynumber: 2.8 Consensus size: 20
8698439 AACTACAATG
8698449 AAAGTTTTGAAACTCTTGTC
1 AAAGTTTTGAAACTCTTGTC
* *
8698469 AAAGTTTCGAAACTTTTGT-
1 AAAGTTTTGAAACTCTTGTC
*
8698488 GAAGTTTTGAAACTC
1 AAAGTTTTGAAACTC
8698503 CAAAGTCTAC
Statistics
Matches: 29, Mismatches: 5, Indels: 1
0.83 0.14 0.03
Matches are distributed among these distances:
19 12 0.41
20 17 0.59
ACGTcount: A:0.31, C:0.13, G:0.17, T:0.39
Consensus pattern (20 bp):
AAAGTTTTGAAACTCTTGTC
Found at i:8698613 original size:20 final size:21
Alignment explanation
Indices: 8698570--8698614 Score: 56
Period size: 21 Copynumber: 2.2 Consensus size: 21
8698560 GAGTTTTTTT
* * *
8698570 TTTTTGGCTAATTTTAAGGTG
1 TTTTTGGCCAATTTCAAGGAG
8698591 TTTTTGGCCAATTTCAA-GAG
1 TTTTTGGCCAATTTCAAGGAG
8698611 TTTT
1 TTTT
8698615 GAGTTCTAAA
Statistics
Matches: 21, Mismatches: 3, Indels: 1
0.84 0.12 0.04
Matches are distributed among these distances:
20 6 0.29
21 15 0.71
ACGTcount: A:0.20, C:0.09, G:0.20, T:0.51
Consensus pattern (21 bp):
TTTTTGGCCAATTTCAAGGAG
Found at i:8698931 original size:30 final size:30
Alignment explanation
Indices: 8698897--8698979 Score: 89
Period size: 31 Copynumber: 2.7 Consensus size: 30
8698887 CAAAATATAT
8698897 AACTTTTAAAAATTATATTTTGAGTCC-CTA
1 AACTTTTAAAAATTATATTTTGAG-CCACTA
* *
8698927 AACTTTTACAAAGTTTATACTTT-AGCCACTA
1 AACTTTTA-AAA-ATTATATTTTGAGCCACTA
* *
8698958 AACTTTCAAAACTTATATTTTG
1 AACTTTTAAAAATTATATTTTG
8698980 GTCAGTAATC
Statistics
Matches: 44, Mismatches: 5, Indels: 8
0.77 0.09 0.14
Matches are distributed among these distances:
29 8 0.18
30 13 0.30
31 15 0.34
32 8 0.18
ACGTcount: A:0.36, C:0.16, G:0.06, T:0.42
Consensus pattern (30 bp):
AACTTTTAAAAATTATATTTTGAGCCACTA
Found at i:8703238 original size:17 final size:17
Alignment explanation
Indices: 8703218--8703272 Score: 62
Period size: 17 Copynumber: 3.4 Consensus size: 17
8703208 TAATTATAAT
8703218 ATTAATAAT-ATGTTATG
1 ATTAA-AATAATGTTATG
*
8703235 ATTAAAATAATTTTATG
1 ATTAAAATAATGTTATG
*
8703252 ATTAAATTAA--TTATG
1 ATTAAAATAATGTTATG
8703267 ATTAAA
1 ATTAAA
8703273 TTAAAATAGA
Statistics
Matches: 35, Mismatches: 2, Indels: 4
0.85 0.05 0.10
Matches are distributed among these distances:
15 11 0.31
16 3 0.09
17 21 0.60
ACGTcount: A:0.47, C:0.00, G:0.07, T:0.45
Consensus pattern (17 bp):
ATTAAAATAATGTTATG
Found at i:8703267 original size:15 final size:16
Alignment explanation
Indices: 8703230--8703276 Score: 69
Period size: 15 Copynumber: 2.9 Consensus size: 16
8703220 TAATAATATG
*
8703230 TTATGATTAAAATAATT
1 TTATGATTAAATTAA-T
8703247 TTATGATTAAATTAA-
1 TTATGATTAAATTAAT
8703262 TTATGATTAAATTAA
1 TTATGATTAAATTAA
8703277 AATAGAGTCG
Statistics
Matches: 29, Mismatches: 1, Indels: 2
0.91 0.03 0.06
Matches are distributed among these distances:
15 15 0.52
17 14 0.48
ACGTcount: A:0.47, C:0.00, G:0.06, T:0.47
Consensus pattern (16 bp):
TTATGATTAAATTAAT
Found at i:8705515 original size:22 final size:22
Alignment explanation
Indices: 8705487--8705569 Score: 80
Period size: 22 Copynumber: 3.8 Consensus size: 22
8705477 ATATTCTCAC
*
8705487 TCAGTGCTAAGGAACTTTAGTA
1 TCAGTGCTAAGGCACTTTAGTA
*
8705509 TCAGTGCGT-ATGCACTTCT-GTA
1 TCAGTGC-TAAGGCACTT-TAGTA
* * *
8705531 TTAGTGCCAAGGCACTTTACTA
1 TCAGTGCTAAGGCACTTTAGTA
*
8705553 TTAGTGCTAAGGCACTT
1 TCAGTGCTAAGGCACTT
8705570 CTATGATTAA
Statistics
Matches: 50, Mismatches: 7, Indels: 8
0.77 0.11 0.12
Matches are distributed among these distances:
21 1 0.02
22 47 0.94
23 2 0.04
ACGTcount: A:0.25, C:0.19, G:0.22, T:0.34
Consensus pattern (22 bp):
TCAGTGCTAAGGCACTTTAGTA
Found at i:8706259 original size:29 final size:29
Alignment explanation
Indices: 8706226--8706288 Score: 119
Period size: 28 Copynumber: 2.2 Consensus size: 29
8706216 AGCTTTAGCT
8706226 CGTTTTGTGATATTTTAGTTGTAGGGAAA
1 CGTTTTGTGATATTTTAGTTGTAGGGAAA
8706255 CG-TTTGTGATATTTTAGTTGTAGGGAAA
1 CGTTTTGTGATATTTTAGTTGTAGGGAAA
8706283 CGTTTT
1 CGTTTT
8706289 TAGTATCATC
Statistics
Matches: 33, Mismatches: 0, Indels: 2
0.94 0.00 0.06
Matches are distributed among these distances:
28 28 0.85
29 5 0.15
ACGTcount: A:0.22, C:0.05, G:0.27, T:0.46
Consensus pattern (29 bp):
CGTTTTGTGATATTTTAGTTGTAGGGAAA
Found at i:8706759 original size:20 final size:20
Alignment explanation
Indices: 8706734--8706783 Score: 57
Period size: 20 Copynumber: 2.5 Consensus size: 20
8706724 TCTCTAAAGA
8706734 AGTATCGATACT-CAGGGTC
1 AGTATCGATACTACAGGGTC
* *
8706753 TAGTATCAATACTGAGAGGGTC
1 -AGTATCGATACT-ACAGGGTC
8706775 AGTATCGAT
1 AGTATCGAT
8706784 GTTGAGGAAC
Statistics
Matches: 25, Mismatches: 3, Indels: 3
0.81 0.10 0.10
Matches are distributed among these distances:
20 11 0.44
21 8 0.32
22 6 0.24
ACGTcount: A:0.30, C:0.16, G:0.26, T:0.28
Consensus pattern (20 bp):
AGTATCGATACTACAGGGTC
Found at i:8706879 original size:20 final size:20
Alignment explanation
Indices: 8706856--8706908 Score: 106
Period size: 20 Copynumber: 2.6 Consensus size: 20
8706846 ACCCAGGGTA
8706856 GAGTATCGATACCCCTATAG
1 GAGTATCGATACCCCTATAG
8706876 GAGTATCGATACCCCTATAG
1 GAGTATCGATACCCCTATAG
8706896 GAGTATCGATACC
1 GAGTATCGATACC
8706909 AAGGTATTTT
Statistics
Matches: 33, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
20 33 1.00
ACGTcount: A:0.30, C:0.25, G:0.21, T:0.25
Consensus pattern (20 bp):
GAGTATCGATACCCCTATAG
Found at i:8707704 original size:20 final size:21
Alignment explanation
Indices: 8707679--8707718 Score: 73
Period size: 20 Copynumber: 2.0 Consensus size: 21
8707669 CTCTGTATAG
8707679 TAGTATCGATACCAT-AGGCA
1 TAGTATCGATACCATCAGGCA
8707699 TAGTATCGATACCATCAGGC
1 TAGTATCGATACCATCAGGC
8707719 CCCAACGGCT
Statistics
Matches: 19, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
20 15 0.79
21 4 0.21
ACGTcount: A:0.33, C:0.23, G:0.20, T:0.25
Consensus pattern (21 bp):
TAGTATCGATACCATCAGGCA
Found at i:8709625 original size:19 final size:19
Alignment explanation
Indices: 8709589--8709625 Score: 56
Period size: 19 Copynumber: 1.9 Consensus size: 19
8709579 TGAAAATGAT
*
8709589 TTGATTTTGAAAGCCAAAG
1 TTGATTTTGAAAACCAAAG
*
8709608 TTGATTTTGAAAATCAAA
1 TTGATTTTGAAAACCAAA
8709626 AATGAAATTT
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
19 16 1.00
ACGTcount: A:0.41, C:0.08, G:0.16, T:0.35
Consensus pattern (19 bp):
TTGATTTTGAAAACCAAAG
Found at i:8715162 original size:26 final size:26
Alignment explanation
Indices: 8715133--8715211 Score: 149
Period size: 26 Copynumber: 3.0 Consensus size: 26
8715123 GAAAAATATC
8715133 ATGTCAACAATTTTATTAGTTTTTTA
1 ATGTCAACAATTTTATTAGTTTTTTA
8715159 ATGTCAACAATTTTATTAGTTTTTTA
1 ATGTCAACAATTTTATTAGTTTTTTA
*
8715185 ATGTCAACAATTTTATTAATTTTTTA
1 ATGTCAACAATTTTATTAGTTTTTTA
8715211 A
1 A
8715212 CGACGGGTGA
Statistics
Matches: 52, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
26 52 1.00
ACGTcount: A:0.33, C:0.08, G:0.06, T:0.53
Consensus pattern (26 bp):
ATGTCAACAATTTTATTAGTTTTTTA
Found at i:8717941 original size:36 final size:36
Alignment explanation
Indices: 8717889--8717960 Score: 135
Period size: 36 Copynumber: 2.0 Consensus size: 36
8717879 CACTCATAAT
*
8717889 CAGCCATGTACAGATGCAATTGTTCACTTGAGTTCC
1 CAGCAATGTACAGATGCAATTGTTCACTTGAGTTCC
8717925 CAGCAATGTACAGATGCAATTGTTCACTTGAGTTCC
1 CAGCAATGTACAGATGCAATTGTTCACTTGAGTTCC
8717961 GTCGAGATTC
Statistics
Matches: 35, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
36 35 1.00
ACGTcount: A:0.26, C:0.24, G:0.19, T:0.31
Consensus pattern (36 bp):
CAGCAATGTACAGATGCAATTGTTCACTTGAGTTCC
Found at i:8718480 original size:2 final size:2
Alignment explanation
Indices: 8718475--8718511 Score: 56
Period size: 2 Copynumber: 18.5 Consensus size: 2
8718465 CCCCCCCCCC
* *
8718475 CT CT CT CT CT CT CT CT CT CT CT CT CT CC CT CC CT CT C
1 CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT C
8718512 CCTCGCCCTC
Statistics
Matches: 31, Mismatches: 4, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
2 31 1.00
ACGTcount: A:0.00, C:0.57, G:0.00, T:0.43
Consensus pattern (2 bp):
CT
Found at i:8718520 original size:16 final size:16
Alignment explanation
Indices: 8718473--8718563 Score: 83
Period size: 16 Copynumber: 5.4 Consensus size: 16
8718463 CCCCCCCCCC
* *
8718473 CCCTCTCTCTCTCTCT
1 CCCTCTCCCTCTCCCT
* *
8718489 CTCTCTCTCTCTCCCT
1 CCCTCTCCCTCTCCCT
*
8718505 CCCTCTCCCTCGCCCT
1 CCCTCTCCCTCTCCCT
* *
8718521 CCCCCTCCCCCTCCCT
1 CCCTCTCCCTCTCCCT
8718537 CCCTCCCTCCCTCCCTCCCT
1 CCCT--CTCCCT--CTCCCT
8718557 CCCTCTC
1 CCCTCTC
8718564 TCGTGAAACT
Statistics
Matches: 61, Mismatches: 10, Indels: 6
0.79 0.13 0.08
Matches are distributed among these distances:
16 43 0.70
18 8 0.13
20 10 0.16
ACGTcount: A:0.00, C:0.68, G:0.01, T:0.31
Consensus pattern (16 bp):
CCCTCTCCCTCTCCCT
Found at i:8718538 original size:4 final size:4
Alignment explanation
Indices: 8718459--8718561 Score: 70
Period size: 4 Copynumber: 26.0 Consensus size: 4
8718449 GGTGTTCGTG
* * * * * * * *
8718459 CCTC CC-C CCCC CCCC CCTC TCTC TCTC TCTC TCTC TCTC TCTC CCTC
1 CCTC CCTC CCTC CCTC CCTC CCTC CCTC CCTC CCTC CCTC CCTC CCTC
*
8718506 CCT- -CTC CCTCGC CCTC CC-C CTCCC CCTC CCTC CCTC CCTC CCTC CCTC
1 CCTC CCTC CCT--C CCTC CCTC C-CTC CCTC CCTC CCTC CCTC CCTC CCTC
8718554 CCTC CCTC
1 CCTC CCTC
8718562 TCTCGTGAAA
Statistics
Matches: 88, Mismatches: 4, Indels: 14
0.83 0.04 0.13
Matches are distributed among these distances:
2 2 0.02
3 5 0.06
4 75 0.85
5 2 0.02
6 4 0.05
ACGTcount: A:0.00, C:0.72, G:0.01, T:0.27
Consensus pattern (4 bp):
CCTC
Found at i:8719690 original size:39 final size:39
Alignment explanation
Indices: 8719647--8719780 Score: 128
Period size: 39 Copynumber: 3.4 Consensus size: 39
8719637 GCATAAGGGT
* * *
8719647 CTGCAGTAAGAATTTACCTTGTGCACAAAGTATAGGAGC
1 CTGCAGTAAGGACTTACCTTGTGCACAAAGTAAAGGAGC
*
8719686 CTGCAGTAAGGACTTATCATT-TGCACAAAGTAAAGGAGC
1 CTGCAGTAAGGACTTA-CCTTGTGCACAAAGTAAAGGAGC
* * * * * *
8719725 ATAC-GATAAGGACTTACCCTGTGCACAATGCAGAGGAGC
1 CTGCAG-TAAGGACTTACCTTGTGCACAAAGTAAAGGAGC
* *
8719764 CTGCAATAAGGTCTTAC
1 CTGCAGTAAGGACTTAC
8719781 AAGCCATAGA
Statistics
Matches: 76, Mismatches: 15, Indels: 8
0.77 0.15 0.08
Matches are distributed among these distances:
38 3 0.04
39 70 0.92
40 3 0.04
ACGTcount: A:0.34, C:0.20, G:0.23, T:0.23
Consensus pattern (39 bp):
CTGCAGTAAGGACTTACCTTGTGCACAAAGTAAAGGAGC
Found at i:8720684 original size:27 final size:27
Alignment explanation
Indices: 8720622--8720711 Score: 78
Period size: 27 Copynumber: 3.3 Consensus size: 27
8720612 GATATTTTGG
* *
8720622 TCATTCTAGAACTCGAGG-GTATTTCAGA
1 TCATTTTAAAACTC-AGGAGTATTTC-GA
*
8720650 -CATCTTAAAACTCATGGA-TATTTCGA
1 TCATTTTAAAACTCA-GGAGTATTTCGA
* * *
8720676 TTATTTTAAAGCTCAGGAGTATTTTGA
1 TCATTTTAAAACTCAGGAGTATTTCGA
8720703 TCATTTTAA
1 TCATTTTAA
8720712 TGTTCGGGGG
Statistics
Matches: 50, Mismatches: 8, Indels: 9
0.75 0.12 0.13
Matches are distributed among these distances:
26 6 0.12
27 44 0.88
ACGTcount: A:0.31, C:0.14, G:0.16, T:0.39
Consensus pattern (27 bp):
TCATTTTAAAACTCAGGAGTATTTCGA
Found at i:8721590 original size:19 final size:18
Alignment explanation
Indices: 8721552--8721590 Score: 51
Period size: 19 Copynumber: 2.1 Consensus size: 18
8721542 TAGAGTTCAC
*
8721552 TCTAGTCAAAGTTAACGG
1 TCTAGTCAAAGTCAACGG
*
8721570 TCTAGGTCAAAGTCAATGG
1 TCTA-GTCAAAGTCAACGG
8721589 TC
1 TC
8721591 AGATCAGTTT
Statistics
Matches: 18, Mismatches: 2, Indels: 1
0.86 0.10 0.05
Matches are distributed among these distances:
18 4 0.22
19 14 0.78
ACGTcount: A:0.31, C:0.18, G:0.23, T:0.28
Consensus pattern (18 bp):
TCTAGTCAAAGTCAACGG
Found at i:8723319 original size:22 final size:22
Alignment explanation
Indices: 8723251--8723320 Score: 56
Period size: 22 Copynumber: 3.3 Consensus size: 22
8723241 CCAAAAGGGG
**
8723251 AGTATCGGTACCATAGTGTAGT
1 AGTATCGGTACCATAGTAAAGT
* ** *
8723273 AGTATCGATATTGAGAG-AAAG-
1 AGTATCGGTA-CCATAGTAAAGT
8723294 -GTATCGGTACCATAGTAAAGT
1 AGTATCGGTACCATAGTAAAGT
8723315 AGTATC
1 AGTATC
8723321 AATACCATGG
Statistics
Matches: 34, Mismatches: 10, Indels: 8
0.65 0.19 0.15
Matches are distributed among these distances:
19 3 0.09
20 12 0.35
22 16 0.47
23 3 0.09
ACGTcount: A:0.34, C:0.11, G:0.26, T:0.29
Consensus pattern (22 bp):
AGTATCGGTACCATAGTAAAGT
Found at i:8723785 original size:55 final size:55
Alignment explanation
Indices: 8723678--8723786 Score: 148
Period size: 55 Copynumber: 2.0 Consensus size: 55
8723668 CTATGTCTGC
* * *
8723678 AAAACTAAGAAATTCATAATAAGTTTATGAATTTCCGTATGAGCACTTTGTGTGA
1 AAAAATAAGAAATTCATAATAAGTTTATGAATTTCCGTATGAGCAATGTGTGTGA
* * *
8723733 AAAAATAATAAATTCATAATAAGTTTATGAATTTCGGTATTG-GTAATGTGTGTG
1 AAAAATAAGAAATTCATAATAAGTTTATGAATTTCCGTA-TGAGCAATGTGTGTG
8723787 CAACCCACGT
Statistics
Matches: 47, Mismatches: 6, Indels: 2
0.85 0.11 0.04
Matches are distributed among these distances:
55 45 0.96
56 2 0.04
ACGTcount: A:0.39, C:0.07, G:0.17, T:0.37
Consensus pattern (55 bp):
AAAAATAAGAAATTCATAATAAGTTTATGAATTTCCGTATGAGCAATGTGTGTGA
Found at i:8724034 original size:57 final size:57
Alignment explanation
Indices: 8723944--8724052 Score: 182
Period size: 57 Copynumber: 1.9 Consensus size: 57
8723934 GCCTAGCTGC
* *
8723944 GCATTTGACAGAAAGGTGTCAATTATGCTAGTTAGATGAAATGTTAAATACCGATGT
1 GCATTTGACAGAAAGGTGTCAATTATGCCAGTTAGATGAAAGGTTAAATACCGATGT
* *
8724001 GCATTTGACAGAAAGGTGTCAATTATGCCAGTTATATTAAAGGTTAAATACC
1 GCATTTGACAGAAAGGTGTCAATTATGCCAGTTAGATGAAAGGTTAAATACC
8724053 TTTGAGTAAA
Statistics
Matches: 48, Mismatches: 4, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
57 48 1.00
ACGTcount: A:0.36, C:0.12, G:0.21, T:0.31
Consensus pattern (57 bp):
GCATTTGACAGAAAGGTGTCAATTATGCCAGTTAGATGAAAGGTTAAATACCGATGT
Found at i:8724133 original size:81 final size:81
Alignment explanation
Indices: 8723998--8724889 Score: 1295
Period size: 81 Copynumber: 11.0 Consensus size: 81
8723988 TAAATACCGA
* *
8723998 TGTGCATTTGACAGAAAGGTGTCAATTATGCCAGTTATATTAAAGGTTAAATACCTTTGAGTAAA
1 TGTGCATTTGACAGAAAGGTGTCAATTATGCCAGTTAGATGAAAGGTTAAATACCTTTGAGTAAA
8724063 AGATTAATGGCCTAGC
66 AGATTAATGGCCTAGC
** * * *
8724079 TGTGCATTTGACAGAAAGGTGTCAAGCATGTCAATTAGATGAAAGGTTAAATACCTTTAAGTAAA
1 TGTGCATTTGACAGAAAGGTGTCAATTATGCCAGTTAGATGAAAGGTTAAATACCTTTGAGTAAA
8724144 AGATTAATGGCCTAGC
66 AGATTAATGGCCTAGC
* *
8724160 TGTGCATTTGACAGAAAGGTGTCAATTATGCCAGTTATATGAAATGTTAAATACCTTTGAGTAAA
1 TGTGCATTTGACAGAAAGGTGTCAATTATGCCAGTTAGATGAAAGGTTAAATACCTTTGAGTAAA
* *
8724225 AGATTAATGGTCTACC
66 AGATTAATGGCCTAGC
* * * *
8724241 TGTGCATTTGACATAAATGTGCCAATTATGCCAGTTAGATGAAAGGTTAAATACCTCTGAGTAAA
1 TGTGCATTTGACAGAAAGGTGTCAATTATGCCAGTTAGATGAAAGGTTAAATACCTTTGAGTAAA
*
8724306 AGATTAATGGCCTAGT
66 AGATTAATGGCCTAGC
* * * * *
8724322 TGTGTATTTGACAG-AATGTGTCAATTATGCCAGTTAGATGACAGATTAAATACCTTTAAGTAAA
1 TGTGCATTTGACAGAAAGGTGTCAATTATGCCAGTTAGATGAAAGGTTAAATACCTTTGAGTAAA
* *
8724386 ATATTAATGACCTAGC
66 AGATTAATGGCCTAGC
* * **
8724402 TGTGCATTTGATAGAAAGGTGTCAATTATGCTAGTTAGATGAAATTTTAAATACCTTTGAGTAAA
1 TGTGCATTTGACAGAAAGGTGTCAATTATGCCAGTTAGATGAAAGGTTAAATACCTTTGAGTAAA
* * *
8724467 ATATTAATGGTCTATC
66 AGATTAATGGCCTAGC
* * *
8724483 TGTGCATTTGACATAAATGTGTCAATTATGCCAGTTAGATGAAAGGTTAAATACCTCTGAGTAAA
1 TGTGCATTTGACAGAAAGGTGTCAATTATGCCAGTTAGATGAAAGGTTAAATACCTTTGAGTAAA
*
8724548 AGATTAATGGCCTAGT
66 AGATTAATGGCCTAGC
* * * * * *
8724564 TGTGTATTTGACA-TAATGTGTCAATTATGCCAGTTAGATGAAAGATTAAATACCTTTAATTAAA
1 TGTGCATTTGACAGAAAGGTGTCAATTATGCCAGTTAGATGAAAGGTTAAATACCTTTGAGTAAA
*
8724628 AGATTAATGACCTAGC
66 AGATTAATGGCCTAGC
* *
8724644 TGTGCATTTGACAGAAAGGTGTCAATTATGCCAATTAGACGAAAGGTTAAATACCTTTGAGTAAA
1 TGTGCATTTGACAGAAAGGTGTCAATTATGCCAGTTAGATGAAAGGTTAAATACCTTTGAGTAAA
*
8724709 AGATTAATGGCCTAGT
66 AGATTAATGGCCTAGC
* * * * *
8724725 TGTGTATTTGACAG-AATGTGTCAATTATGCCAGTTAGATGAAAGATTAAATACCTTTAATTAAA
1 TGTGCATTTGACAGAAAGGTGTCAATTATGCCAGTTAGATGAAAGGTTAAATACCTTTGAGTAAA
*
8724789 AGATTAATGACCTAGC
66 AGATTAATGGCCTAGC
* *
8724805 TGTGCATTTGACAGAAAGGTGTCAATTATGCCAATTAGACGAAAGGTTAAATACCTTTGAGTAAA
1 TGTGCATTTGACAGAAAGGTGTCAATTATGCCAGTTAGATGAAAGGTTAAATACCTTTGAGTAAA
8724870 AGATTAATGGCCTAGC
66 AGATTAATGGCCTAGC
8724886 TGTG
1 TGTG
8724890 TGTTGAAAAC
Statistics
Matches: 716, Mismatches: 92, Indels: 6
0.88 0.11 0.01
Matches are distributed among these distances:
80 213 0.30
81 503 0.70
ACGTcount: A:0.36, C:0.12, G:0.20, T:0.32
Consensus pattern (81 bp):
TGTGCATTTGACAGAAAGGTGTCAATTATGCCAGTTAGATGAAAGGTTAAATACCTTTGAGTAAA
AGATTAATGGCCTAGC
Found at i:8724430 original size:161 final size:162
Alignment explanation
Indices: 8723998--8724889 Score: 1313
Period size: 161 Copynumber: 5.5 Consensus size: 162
8723988 TAAATACCGA
* *
8723998 TGTGCATTTGACAGAAAGGTGTCAATTATGCCAGTTATATTAAAGGTTAAATACCTTTGAGTAAA
1 TGTGCATTTGACAGAAAGGTGTCAATTATGCCAGTTAGATGAAAGGTTAAATACCTTTGAGTAAA
* ** * * *
8724063 AGATTAATGGCCTAGCTGTGCATTTGACAGAAAGGTGTCAAGCATGTCAATTAGATGAAAGGTTA
66 AGATTAATGGCCTAGCTGTGCATTTGACAGAAATGTGTCAATTATGCCAGTTAGATGAAAGATTA
8724128 AATACCTTTAAGTAAAAGATTAATGGCCTAGC
131 AATACCTTTAAGTAAAAGATTAATGGCCTAGC
* *
8724160 TGTGCATTTGACAGAAAGGTGTCAATTATGCCAGTTATATGAAATGTTAAATACCTTTGAGTAAA
1 TGTGCATTTGACAGAAAGGTGTCAATTATGCCAGTTAGATGAAAGGTTAAATACCTTTGAGTAAA
* * * * *
8724225 AGATTAATGGTCTACCTGTGCATTTGACATAAATGTGCCAATTATGCCAGTTAGATGAAAGGTTA
66 AGATTAATGGCCTAGCTGTGCATTTGACAGAAATGTGTCAATTATGCCAGTTAGATGAAAGATTA
* * *
8724290 AATACCTCTGAGTAAAAGATTAATGGCCTAGT
131 AATACCTTTAAGTAAAAGATTAATGGCCTAGC
* * * * *
8724322 TGTGTATTTGACAG-AATGTGTCAATTATGCCAGTTAGATGACAGATTAAATACCTTTAAGTAAA
1 TGTGCATTTGACAGAAAGGTGTCAATTATGCCAGTTAGATGAAAGGTTAAATACCTTTGAGTAAA
* * * * * **
8724386 ATATTAATGACCTAGCTGTGCATTTGATAGAAAGGTGTCAATTATGCTAGTTAGATGAAATTTTA
66 AGATTAATGGCCTAGCTGTGCATTTGACAGAAATGTGTCAATTATGCCAGTTAGATGAAAGATTA
* * * *
8724451 AATACCTTTGAGTAAAATATTAATGGTCTATC
131 AATACCTTTAAGTAAAAGATTAATGGCCTAGC
* * *
8724483 TGTGCATTTGACATAAATGTGTCAATTATGCCAGTTAGATGAAAGGTTAAATACCTCTGAGTAAA
1 TGTGCATTTGACAGAAAGGTGTCAATTATGCCAGTTAGATGAAAGGTTAAATACCTTTGAGTAAA
* * *
8724548 AGATTAATGGCCTAGTTGTGTATTTGACA-TAATGTGTCAATTATGCCAGTTAGATGAAAGATTA
66 AGATTAATGGCCTAGCTGTGCATTTGACAGAAATGTGTCAATTATGCCAGTTAGATGAAAGATTA
* *
8724612 AATACCTTTAATTAAAAGATTAATGACCTAGC
131 AATACCTTTAAGTAAAAGATTAATGGCCTAGC
* *
8724644 TGTGCATTTGACAGAAAGGTGTCAATTATGCCAATTAGACGAAAGGTTAAATACCTTTGAGTAAA
1 TGTGCATTTGACAGAAAGGTGTCAATTATGCCAGTTAGATGAAAGGTTAAATACCTTTGAGTAAA
* *
8724709 AGATTAATGGCCTAGTTGTGTATTTGACAG-AATGTGTCAATTATGCCAGTTAGATGAAAGATTA
66 AGATTAATGGCCTAGCTGTGCATTTGACAGAAATGTGTCAATTATGCCAGTTAGATGAAAGATTA
* *
8724773 AATACCTTTAATTAAAAGATTAATGACCTAGC
131 AATACCTTTAAGTAAAAGATTAATGGCCTAGC
* *
8724805 TGTGCATTTGACAGAAAGGTGTCAATTATGCCAATTAGACGAAAGGTTAAATACCTTTGAGTAAA
1 TGTGCATTTGACAGAAAGGTGTCAATTATGCCAGTTAGATGAAAGGTTAAATACCTTTGAGTAAA
8724870 AGATTAATGGCCTAGCTGTG
66 AGATTAATGGCCTAGCTGTG
8724890 TGTTGAAAAC
Statistics
Matches: 663, Mismatches: 65, Indels: 5
0.90 0.09 0.01
Matches are distributed among these distances:
161 432 0.65
162 231 0.35
ACGTcount: A:0.36, C:0.12, G:0.20, T:0.32
Consensus pattern (162 bp):
TGTGCATTTGACAGAAAGGTGTCAATTATGCCAGTTAGATGAAAGGTTAAATACCTTTGAGTAAA
AGATTAATGGCCTAGCTGTGCATTTGACAGAAATGTGTCAATTATGCCAGTTAGATGAAAGATTA
AATACCTTTAAGTAAAAGATTAATGGCCTAGC
Found at i:8724431 original size:242 final size:243
Alignment explanation
Indices: 8723998--8724889 Score: 1349
Period size: 242 Copynumber: 3.7 Consensus size: 243
8723988 TAAATACCGA
* * * * *
8723998 TGTGCATTTGACAGAAAGGTGTCAATTATGCCAGTTATATTAAAGGTTAAATACCTTTGAGTAAA
1 TGTGCATTTGACATAAATGTGTCAATTATGCCAGTTAGATGAAAGGTTAAATACCTCTGAGTAAA
** * *
8724063 AGATTAATGGCCTAGCTGTGCATTTGACAGAAAGGTGTCAAGCATGTCAATTAGATGAAAGGTTA
66 AGATTAATGGCCTAGCTGTGCATTTGACAGAAAGGTGTCAATTATGCCAATTAGATGAAAGATTA
*
8724128 AATACCTTTAAGTAAAAGATTAATGGCCTAGCTGTGCATTTGACAGAAAGGTGTCAATTATGCCA
131 AATACCTTTAAGTAAAAGATTAATGACCTAGCTGTGCATTTGACAGAAAGGTGTCAATTATGCCA
*
8724193 GTTATATGAAATGTTAAATACCTTTGAGTAAAAGATTAATGGTCTACC
196 GTTAGATGAAATGTTAAATACCTTTGAGTAAAAGATTAATGGTCTACC
*
8724241 TGTGCATTTGACATAAATGTGCCAATTATGCCAGTTAGATGAAAGGTTAAATACCTCTGAGTAAA
1 TGTGCATTTGACATAAATGTGTCAATTATGCCAGTTAGATGAAAGGTTAAATACCTCTGAGTAAA
* * * * *
8724306 AGATTAATGGCCTAGTTGTGTATTTGACAG-AATGTGTCAATTATGCCAGTTAGATGACAGATTA
66 AGATTAATGGCCTAGCTGTGCATTTGACAGAAAGGTGTCAATTATGCCAATTAGATGAAAGATTA
* * *
8724370 AATACCTTTAAGTAAAATATTAATGACCTAGCTGTGCATTTGATAGAAAGGTGTCAATTATGCTA
131 AATACCTTTAAGTAAAAGATTAATGACCTAGCTGTGCATTTGACAGAAAGGTGTCAATTATGCCA
* * *
8724435 GTTAGATGAAATTTTAAATACCTTTGAGTAAAATATTAATGGTCTATC
196 GTTAGATGAAATGTTAAATACCTTTGAGTAAAAGATTAATGGTCTACC
8724483 TGTGCATTTGACATAAATGTGTCAATTATGCCAGTTAGATGAAAGGTTAAATACCTCTGAGTAAA
1 TGTGCATTTGACATAAATGTGTCAATTATGCCAGTTAGATGAAAGGTTAAATACCTCTGAGTAAA
* * * * *
8724548 AGATTAATGGCCTAGTTGTGTATTTGACA-TAATGTGTCAATTATGCCAGTTAGATGAAAGATTA
66 AGATTAATGGCCTAGCTGTGCATTTGACAGAAAGGTGTCAATTATGCCAATTAGATGAAAGATTA
*
8724612 AATACCTTTAATTAAAAGATTAATGACCTAGCTGTGCATTTGACAGAAAGGTGTCAATTATGCCA
131 AATACCTTTAAGTAAAAGATTAATGACCTAGCTGTGCATTTGACAGAAAGGTGTCAATTATGCCA
* * * * **
8724677 ATTAGACGAAAGGTTAAATACCTTTGAGTAAAAGATTAATGGCCTAGT
196 GTTAGATGAAATGTTAAATACCTTTGAGTAAAAGATTAATGGTCTACC
* * * * * *
8724725 TGTGTATTTGACA-GAATGTGTCAATTATGCCAGTTAGATGAAAGATTAAATACCTTTAATTAAA
1 TGTGCATTTGACATAAATGTGTCAATTATGCCAGTTAGATGAAAGGTTAAATACCTCTGAGTAAA
* * *
8724789 AGATTAATGACCTAGCTGTGCATTTGACAGAAAGGTGTCAATTATGCCAATTAGACGAAAGGTTA
66 AGATTAATGGCCTAGCTGTGCATTTGACAGAAAGGTGTCAATTATGCCAATTAGATGAAAGATTA
* *
8724854 AATACCTTTGAGTAAAAGATTAATGGCCTAGCTGTG
131 AATACCTTTAAGTAAAAGATTAATGACCTAGCTGTG
8724890 TGTTGAAAAC
Statistics
Matches: 593, Mismatches: 54, Indels: 5
0.91 0.08 0.01
Matches are distributed among these distances:
241 72 0.12
242 434 0.73
243 87 0.15
ACGTcount: A:0.36, C:0.12, G:0.20, T:0.32
Consensus pattern (243 bp):
TGTGCATTTGACATAAATGTGTCAATTATGCCAGTTAGATGAAAGGTTAAATACCTCTGAGTAAA
AGATTAATGGCCTAGCTGTGCATTTGACAGAAAGGTGTCAATTATGCCAATTAGATGAAAGATTA
AATACCTTTAAGTAAAAGATTAATGACCTAGCTGTGCATTTGACAGAAAGGTGTCAATTATGCCA
GTTAGATGAAATGTTAAATACCTTTGAGTAAAAGATTAATGGTCTACC
Found at i:8731018 original size:23 final size:23
Alignment explanation
Indices: 8730976--8731035 Score: 72
Period size: 23 Copynumber: 2.7 Consensus size: 23
8730966 TTTTTGCAAA
8730976 GTGTATCGATAC--T-CTATGAAT
1 GTGTATCGATACATTCCT-TGAAT
*
8730997 GTGTGTCGATACATTCCTTGAAT
1 GTGTATCGATACATTCCTTGAAT
*
8731020 GTTTATCGATACATTC
1 GTGTATCGATACATTC
8731036 AAAAGTGTAC
Statistics
Matches: 33, Mismatches: 3, Indels: 4
0.82 0.08 0.10
Matches are distributed among these distances:
21 11 0.33
23 20 0.61
24 2 0.06
ACGTcount: A:0.25, C:0.17, G:0.18, T:0.40
Consensus pattern (23 bp):
GTGTATCGATACATTCCTTGAAT
Found at i:8731051 original size:20 final size:20
Alignment explanation
Indices: 8731026--8731072 Score: 94
Period size: 20 Copynumber: 2.4 Consensus size: 20
8731016 GAATGTTTAT
8731026 CGATACATTCAAAAGTGTAC
1 CGATACATTCAAAAGTGTAC
8731046 CGATACATTCAAAAGTGTAC
1 CGATACATTCAAAAGTGTAC
8731066 CGATACA
1 CGATACA
8731073 CTCGTCGGGT
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
20 27 1.00
ACGTcount: A:0.40, C:0.21, G:0.15, T:0.23
Consensus pattern (20 bp):
CGATACATTCAAAAGTGTAC
Found at i:8732566 original size:2 final size:2
Alignment explanation
Indices: 8732559--8732606 Score: 96
Period size: 2 Copynumber: 24.0 Consensus size: 2
8732549 TGTCAGAAAC
8732559 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
8732601 AT AT AT
1 AT AT AT
8732607 CTGGCTAATG
Statistics
Matches: 46, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 46 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:8734352 original size:34 final size:34
Alignment explanation
Indices: 8734309--8734386 Score: 156
Period size: 34 Copynumber: 2.3 Consensus size: 34
8734299 TAAAAGGGAA
8734309 GGTATCGATACCATTGATAACAAAATGCCAAAAT
1 GGTATCGATACCATTGATAACAAAATGCCAAAAT
8734343 GGTATCGATACCATTGATAACAAAATGCCAAAAT
1 GGTATCGATACCATTGATAACAAAATGCCAAAAT
8734377 GGTATCGATA
1 GGTATCGATA
8734387 TTGAAAGGGG
Statistics
Matches: 44, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
34 44 1.00
ACGTcount: A:0.42, C:0.17, G:0.17, T:0.24
Consensus pattern (34 bp):
GGTATCGATACCATTGATAACAAAATGCCAAAAT
Found at i:8734951 original size:55 final size:55
Alignment explanation
Indices: 8734829--8734940 Score: 161
Period size: 55 Copynumber: 2.0 Consensus size: 55
8734819 GTGTGCAAGG
* * * *
8734829 AAAACTAAGAAATTCATAATAAGTTTATGAATTTCCGTATGGGCACTTTGTGTGC
1 AAAAATAATAAATTCATAATAAGTTTATGAATTTCCGTATGGGCAATGTGTGTGC
* * *
8734884 AAAAATAATAAATTCATAATAAGTTTATGAATTTCGGTATTGGTAATGTGTGTGC
1 AAAAATAATAAATTCATAATAAGTTTATGAATTTCCGTATGGGCAATGTGTGTGC
8734939 AA
1 AA
8734941 CCCACGTAAA
Statistics
Matches: 50, Mismatches: 7, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
55 50 1.00
ACGTcount: A:0.38, C:0.09, G:0.18, T:0.36
Consensus pattern (55 bp):
AAAAATAATAAATTCATAATAAGTTTATGAATTTCCGTATGGGCAATGTGTGTGC
Found at i:8735176 original size:81 final size:81
Alignment explanation
Indices: 8735068--8735377 Score: 539
Period size: 81 Copynumber: 3.8 Consensus size: 81
8735058 TATTCCAAAA
* * *
8735068 TAAAAGATTAATGTCCTAGCTATGCATTTGACAGAAAGGTGTCAATTATGCCAGTTAGATAAAAG
1 TAAAAGATTAATGGCCTAGCTGTGCATTTGACAGAAAGGTGTCAATTATGCCAGTTAGATGAAAG
8735133 GTTAAATACCTTTGAG
66 GTTAAATACCTTTGAG
* * * *
8735149 TAAAAGATTAATGGTCTAGGTGTGCATTTGACAGAAATGTGTCAATTATGCTAGTTAGATGAAAG
1 TAAAAGATTAATGGCCTAGCTGTGCATTTGACAGAAAGGTGTCAATTATGCCAGTTAGATGAAAG
8735214 GTTAAATACCTTTGAG
66 GTTAAATACCTTTGAG
* *
8735230 TAAAAGATTAATGGCCTAGCTGTGCATTTGACAGAAATGTGTCAATTATGCCAGTTAAATGAAAG
1 TAAAAGATTAATGGCCTAGCTGTGCATTTGACAGAAAGGTGTCAATTATGCCAGTTAGATGAAAG
8735295 GTTAAATACCTTTGAG
66 GTTAAATACCTTTGAG
8735311 TAAAAGATTAATGGCCTAGCTGTGCATTTGACAGAAAGGTGTCAATTATGCCAGTTAGATGAAAG
1 TAAAAGATTAATGGCCTAGCTGTGCATTTGACAGAAAGGTGTCAATTATGCCAGTTAGATGAAAG
8735376 GT
66 GT
8735378 CTAGCTGTGT
Statistics
Matches: 216, Mismatches: 13, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
81 216 1.00
ACGTcount: A:0.35, C:0.11, G:0.22, T:0.31
Consensus pattern (81 bp):
TAAAAGATTAATGGCCTAGCTGTGCATTTGACAGAAAGGTGTCAATTATGCCAGTTAGATGAAAG
GTTAAATACCTTTGAG
Found at i:8735386 original size:52 final size:52
Alignment explanation
Indices: 8735326--8735429 Score: 190
Period size: 52 Copynumber: 2.0 Consensus size: 52
8735316 GATTAATGGC
8735326 CTAGCTGTGCATTTGACAGAAAGGTGTCAATTATGCCAGTTAGATGAAAGGT
1 CTAGCTGTGCATTTGACAGAAAGGTGTCAATTATGCCAGTTAGATGAAAGGT
* *
8735378 CTAGCTGTGTATTTGACAGAAATGTGTCAATTATGCCAGTTAGATGAAAGGT
1 CTAGCTGTGCATTTGACAGAAAGGTGTCAATTATGCCAGTTAGATGAAAGGT
8735430 TAAATACCTT
Statistics
Matches: 50, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
52 50 1.00
ACGTcount: A:0.31, C:0.12, G:0.26, T:0.31
Consensus pattern (52 bp):
CTAGCTGTGCATTTGACAGAAAGGTGTCAATTATGCCAGTTAGATGAAAGGT
Found at i:8735485 original size:133 final size:133
Alignment explanation
Indices: 8735245--8735510 Score: 451
Period size: 133 Copynumber: 2.0 Consensus size: 133
8735235 GATTAATGGC
8735245 CTAGCTGTGCATTTGACAGAAATGTGTCAATTATGCCAGTTAAATGAAAGGTTAAATACCTTTGA
1 CTAGCTGTGCATTTGACAGAAATGTGTCAATTATGCCAGTTAAATGAAAGGTTAAATACCTTTGA
* *
8735310 GTAAAAGATTAATGGCCTAGCTGTGCATTTGACAGAAAGGTGTCAATTATGCCAGTTAGATGAAA
66 GTAAAAGATTAATGGCCTACCTGTACATTTGACAGAAAGGTGTCAATTATGCCAGTTAGATGAAA
8735375 GGT
131 GGT
* *
8735378 CTAGCTGTGTATTTGACAGAAATGTGTCAATTATGCCAGTTAGATGAAAGGTTAAATACCTTTGA
1 CTAGCTGTGCATTTGACAGAAATGTGTCAATTATGCCAGTTAAATGAAAGGTTAAATACCTTTGA
* * * * *
8735443 GTAAAATATTAATGGCCTACCTGTACCTTTGACAGAAGGGTGTCAATTATTCTAGTTAGATGAAA
66 GTAAAAGATTAATGGCCTACCTGTACATTTGACAGAAAGGTGTCAATTATGCCAGTTAGATGAAA
8735508 GGT
131 GGT
8735511 TAAATACATT
Statistics
Matches: 124, Mismatches: 9, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
133 124 1.00
ACGTcount: A:0.33, C:0.13, G:0.23, T:0.32
Consensus pattern (133 bp):
CTAGCTGTGCATTTGACAGAAATGTGTCAATTATGCCAGTTAAATGAAAGGTTAAATACCTTTGA
GTAAAAGATTAATGGCCTACCTGTACATTTGACAGAAAGGTGTCAATTATGCCAGTTAGATGAAA
GGT
Found at i:8735524 original size:81 final size:79
Alignment explanation
Indices: 8735388--8735590 Score: 271
Period size: 81 Copynumber: 2.5 Consensus size: 79
8735378 CTAGCTGTGT
*
8735388 ATTTGACAGAAATGTGTCAATTATGCCAGTTAGATGAAAGGTTAAATACCTTTGAGTAAAATATT
1 ATTTGACAG-AATGTGTCAATTATG-CAGTTAGATGAAAGGTTAAATACATTTGAGTAAAATATT
*
8735453 AATGGCCTACCTGTAC
64 AATAGCCTACCTGTAC
* * *
8735469 CTTTGACAGAAGGGTGTCAATTATTCTAGTTAGATGAAAGGTTAAATACATTTGAGTAAAATATT
1 ATTTGACAGAA-TGTGTCAATTATGC-AGTTAGATGAAAGGTTAAATACATTTGAGTAAAATATT
** *
8735534 AATAGCCTAGTTGTGC
64 AATAGCCTACCTGTAC
*
8735550 ATTTGACATGAATGTGTCAATCATGCAGGTTAGATGAAAGG
1 ATTTGACA-GAATGTGTCAATTATGCA-GTTAGATGAAAGG
8735591 CTATATGTCA
Statistics
Matches: 106, Mismatches: 12, Indels: 8
0.84 0.10 0.06
Matches are distributed among these distances:
80 4 0.04
81 99 0.93
82 3 0.03
ACGTcount: A:0.35, C:0.11, G:0.21, T:0.33
Consensus pattern (79 bp):
ATTTGACAGAATGTGTCAATTATGCAGTTAGATGAAAGGTTAAATACATTTGAGTAAAATATTAA
TAGCCTACCTGTAC
Found at i:8735551 original size:214 final size:214
Alignment explanation
Indices: 8735161--8735590 Score: 666
Period size: 214 Copynumber: 2.0 Consensus size: 214
8735151 AAAGATTAAT
* *
8735161 GGTCTAGGTGTGCATTTGACAGAAATGTGTCAATTATGCTAGTTAGATGAAAGGTTAAATACCTT
1 GGTCTAGCTGTGCATTTGACAGAAATGTGTCAATTATGCCAGTTAGATGAAAGGTTAAATACCTT
* * *
8735226 TGAGTAAAAGATTAATGGCCTAGCTGTGCATTTGACAGAAATGTGTCAATTATGCCAGTTAAATG
66 TGAGTAAAAGATTAATGGCCTACCTGTACATTTGACAGAAAGGTGTCAATTATGCCAGTTAAATG
* *
8735291 AAAGGTTAAATACCTTTGAGTAAAAGATTAATGGCCTAGCTGTGCATTTGACA-GAAAGGTGTCA
131 AAAGGTTAAATACATTTGAGTAAAAGATTAATAGCCTAGCTGTGCATTTGACATG-AAGGTGTCA
*
8735355 ATTATGCCA-GTTAGATGAAA
195 ATCATG-CAGGTTAGATGAAA
*
8735375 GGTCTAGCTGTGTATTTGACAGAAATGTGTCAATTATGCCAGTTAGATGAAAGGTTAAATACCTT
1 GGTCTAGCTGTGCATTTGACAGAAATGTGTCAATTATGCCAGTTAGATGAAAGGTTAAATACCTT
* * * * * *
8735440 TGAGTAAAATATTAATGGCCTACCTGTACCTTTGACAGAAGGGTGTCAATTATTCTAGTTAGATG
66 TGAGTAAAAGATTAATGGCCTACCTGTACATTTGACAGAAAGGTGTCAATTATGCCAGTTAAATG
* * *
8735505 AAAGGTTAAATACATTTGAGTAAAATATTAATAGCCTAGTTGTGCATTTGACATGAATGTGTCAA
131 AAAGGTTAAATACATTTGAGTAAAAGATTAATAGCCTAGCTGTGCATTTGACATGAAGGTGTCAA
8735570 TCATGCAGGTTAGATGAAA
196 TCATGCAGGTTAGATGAAA
8735589 GG
1 GG
8735591 CTATATGTCA
Statistics
Matches: 196, Mismatches: 18, Indels: 4
0.90 0.08 0.02
Matches are distributed among these distances:
213 2 0.01
214 193 0.98
215 1 0.01
ACGTcount: A:0.34, C:0.12, G:0.23, T:0.32
Consensus pattern (214 bp):
GGTCTAGCTGTGCATTTGACAGAAATGTGTCAATTATGCCAGTTAGATGAAAGGTTAAATACCTT
TGAGTAAAAGATTAATGGCCTACCTGTACATTTGACAGAAAGGTGTCAATTATGCCAGTTAAATG
AAAGGTTAAATACATTTGAGTAAAAGATTAATAGCCTAGCTGTGCATTTGACATGAAGGTGTCAA
TCATGCAGGTTAGATGAAA
Found at i:8741657 original size:6 final size:6
Alignment explanation
Indices: 8741643--8741676 Score: 59
Period size: 6 Copynumber: 5.7 Consensus size: 6
8741633 ATCTACATGC
*
8741643 AATGCA AATGAA AATGAA AATGAA AATGAA AATG
1 AATGAA AATGAA AATGAA AATGAA AATGAA AATG
8741677 GATTTTTATG
Statistics
Matches: 27, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
6 27 1.00
ACGTcount: A:0.62, C:0.03, G:0.18, T:0.18
Consensus pattern (6 bp):
AATGAA
Found at i:8742983 original size:427 final size:426
Alignment explanation
Indices: 8742221--8743206 Score: 1573
Period size: 427 Copynumber: 2.3 Consensus size: 426
8742211 GAATTGGAAA
*
8742221 TGATGAAATTGAGCTTGAAACAAATTAGGGACCATTATGCCAAAACTTTGAAGTATTTGGCCTAG
1 TGATGAAATTGAGCTTGAAACAAATTAGGGACCATTATGCAAAAACTTTGAAGTATTTGGCCTAG
* *
8742286 GGAAAATATTGGGAAATTTTCTCAAAAAAATTCCCAAGGGCTTAGATTGAGTATAAGAATGATC-
66 GGAAAATATTGGGAAA-ATTCTC-AAAAAATTCCTAAGGGCTTAGATTGAGTATAAGAATGATCT
*
8742350 --TTGTGTGCTTCAAAAAAATTCTTACACAAGATTCTCTTTCATTTGGTGTAAATATCTTCATGT
129 TGTTGTGTGCTTCAAAAAAATTCCTACACAAGATTCTCTTTCATTTGGTGTAAATATCTTCATGT
* *
8742413 TTCATGCTTGAATTGGTGATATTTGGTTGAAGGGGGAGTGTAATTTCAATGATATAAGGTTGGTT
194 TTCATGCTTGAATTAGTGAGATTTGGTTGAAGGGGGAGTGTAATTTCAATGATATAAGGTTGGTT
* *
8742478 TATAATGTTAGAAGTGTTATGGAGTTATAATCAAGCATGAAAATTGATCGAAATCAAGTAGAAGC
259 TATAATGTTAAAAGTGTTATGGAGTAATAATCAAGCATGAAAATTGATCGAAATCAAGTAGAAGC
** * *
8742543 CCTTGAATACATGTTCGTTAAATAGGGTTTTTGTTAGGAAATATTGAGTTTGAATTGTATTTGAT
324 CCTTGAATACATGTTCGACAAATAGGGGTTTTGTTAGGAAATATTGAGTTTGAATTGCATTTGAT
* * * **
8742608 ATGGAAATGAATTGGAAAGGATGAAATTGATGTGTAGG
389 ATGGAAATGAATTAGAAAGGATGAAACTGAAGTAAAGG
* *
8742646 TTATGAAATTGAGCTTGAAACAAATTAGGGACCATTATGTAAAAACTTTGAAGTATTTGGCCTAG
1 TGATGAAATTGAGCTTGAAACAAATTAGGGACCATTATGCAAAAACTTTGAAGTATTTGGCCTAG
* * *
8742711 GGAAAATATTGGGGAAAAATCTCAAAAATTTCCTAAGTGCTTAGATTGAGTATAAGAATGATCTT
66 GGAAAATATT-GGGAAAATTCTCAAAAAATTCCTAAGGGCTTAGATTGAGTATAAGAATGATCTT
8742776 GTTGTGTGCTTCAAAAAAATTCCTACACAAGATTCTCTTTCATTTGGTGTAAATATCTTCATGTT
130 GTTGTGTGCTTCAAAAAAATTCCTACACAAGATTCTCTTTCATTTGGTGTAAATATCTTCATGTT
*
8742841 TCATGCTTGAATTAGTGAGATTTGGTTGAAGGGGGAGTGTAATTTCAATGATATAAGGTTGTTTT
195 TCATGCTTGAATTAGTGAGATTTGGTTGAAGGGGGAGTGTAATTTCAATGATATAAGGTTGGTTT
* *
8742906 ATAATGTTAAAAGTGTTATGGAGTAATAATCAAGCATGAAAATTGATTGAAATCAAGTAGAAGCT
260 ATAATGTTAAAAGTGTTATGGAGTAATAATCAAGCATGAAAATTGATCGAAATCAAGTAGAAGCC
* * *
8742971 CTTGAATACATGTTCGACCATTAGGGGTTTTGTTAGGAAATATTGAGTTTGAATTGCATTTGATG
325 CTTGAATACATGTTCGACAAATAGGGGTTTTGTTAGGAAATATTGAGTTTGAATTGCATTTGATA
* *
8743036 TGGAAATGAATTATAAAGGATGAAACTGAAGTAAATG
390 TGGAAATGAATTAGAAAGGATGAAACTGAAGTAAAGG
* *
8743073 TGATGAAATTAAGCTTGAAATAAATTAGGGACCATTATGCAAAAACTTTGAAGTATTTGGCCTAT
1 TGATGAAATTGAGCTTGAAACAAATTAGGGACCATTATGCAAAAACTTTGAAGTATTTGGCCTA-
* * * *
8743138 GGGAAAATATTGGGAAAATTTCTTTAAAAAAATCCTAAGGGCTTACATTGAGTATAAGAATAATC
65 GGGAAAATATTGGGAAAA-TTC-TCAAAAAATTCCTAAGGGCTTAGATTGAGTATAAGAATGATC
8743203 TTGT
128 TTGT
8743207 GTGCTTGAAA
Statistics
Matches: 513, Mismatches: 41, Indels: 10
0.91 0.07 0.02
Matches are distributed among these distances:
424 37 0.07
425 76 0.15
426 6 0.01
427 341 0.66
428 13 0.03
429 40 0.08
ACGTcount: A:0.35, C:0.09, G:0.22, T:0.34
Consensus pattern (426 bp):
TGATGAAATTGAGCTTGAAACAAATTAGGGACCATTATGCAAAAACTTTGAAGTATTTGGCCTAG
GGAAAATATTGGGAAAATTCTCAAAAAATTCCTAAGGGCTTAGATTGAGTATAAGAATGATCTTG
TTGTGTGCTTCAAAAAAATTCCTACACAAGATTCTCTTTCATTTGGTGTAAATATCTTCATGTTT
CATGCTTGAATTAGTGAGATTTGGTTGAAGGGGGAGTGTAATTTCAATGATATAAGGTTGGTTTA
TAATGTTAAAAGTGTTATGGAGTAATAATCAAGCATGAAAATTGATCGAAATCAAGTAGAAGCCC
TTGAATACATGTTCGACAAATAGGGGTTTTGTTAGGAAATATTGAGTTTGAATTGCATTTGATAT
GGAAATGAATTAGAAAGGATGAAACTGAAGTAAAGG
Found at i:8744318 original size:31 final size:30
Alignment explanation
Indices: 8744280--8744368 Score: 85
Period size: 31 Copynumber: 2.9 Consensus size: 30
8744270 GGACTATAAT
8744280 TTAAATAATGAAAAGTACGAGTTAATAT-GC
1 TTAAATAATGAAAAGTACGAGTT-ATATGGC
* *
8744310 GTTAAATAAAT-TAAAGTATGAGTTTATATGGC
1 -TTAAAT-AATGAAAAGTACGAG-TTATATGGC
* *
8744342 TTAAAT-ATGAAAGGTACAAGTTATATG
1 TTAAATAATGAAAAGTACGAGTTATATG
8744369 AATAAGAAGT
Statistics
Matches: 48, Mismatches: 6, Indels: 10
0.75 0.09 0.16
Matches are distributed among these distances:
29 9 0.19
30 7 0.15
31 25 0.52
32 7 0.15
ACGTcount: A:0.44, C:0.04, G:0.18, T:0.34
Consensus pattern (30 bp):
TTAAATAATGAAAAGTACGAGTTATATGGC
Found at i:8745351 original size:2 final size:2
Alignment explanation
Indices: 8745344--8745392 Score: 98
Period size: 2 Copynumber: 24.5 Consensus size: 2
8745334 CTGTTTCATA
8745344 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
8745386 AT AT AT A
1 AT AT AT A
8745393 GAGTGTTAAA
Statistics
Matches: 47, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 47 1.00
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (2 bp):
AT
Found at i:8748257 original size:18 final size:16
Alignment explanation
Indices: 8748214--8748254 Score: 55
Period size: 16 Copynumber: 2.5 Consensus size: 16
8748204 AATTTTTAAG
*
8748214 TTTTAAAATTATGTTT
1 TTTTAAAATTATATTT
*
8748230 TATTAAAATTATATTAT
1 TTTTAAAATTATATT-T
8748247 TTTTAAAA
1 TTTTAAAA
8748255 ATTCTCAAAA
Statistics
Matches: 21, Mismatches: 3, Indels: 1
0.84 0.12 0.04
Matches are distributed among these distances:
16 13 0.62
17 8 0.38
ACGTcount: A:0.41, C:0.00, G:0.02, T:0.56
Consensus pattern (16 bp):
TTTTAAAATTATATTT
Found at i:8751431 original size:40 final size:40
Alignment explanation
Indices: 8751376--8751451 Score: 116
Period size: 40 Copynumber: 1.9 Consensus size: 40
8751366 GAAAAGTAGT
* *
8751376 TTTGCTTTGAGTAGGATATATTGTATCTATATTTTTCTAC
1 TTTGCTTTGAGTAGGATATACTGGATCTATATTTTTCTAC
* *
8751416 TTTGCTTTGAGTAGGATTTACTGGATCTGTATTTTT
1 TTTGCTTTGAGTAGGATATACTGGATCTATATTTTT
8751452 TCATTGTCCT
Statistics
Matches: 32, Mismatches: 4, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
40 32 1.00
ACGTcount: A:0.20, C:0.09, G:0.18, T:0.53
Consensus pattern (40 bp):
TTTGCTTTGAGTAGGATATACTGGATCTATATTTTTCTAC
Found at i:8759730 original size:185 final size:176
Alignment explanation
Indices: 8759418--8759778 Score: 614
Period size: 185 Copynumber: 2.0 Consensus size: 176
8759408 TTTCTTTTCT
*
8759418 TTTTCCCATTTACGTATCCTTTAATCAAATATAGTTTTCTTTACCCTTTTTCTTGTACAAGCACT
1 TTTTCCCATTTACGTATCCTTCAATCAAATATAGTTTTCTTTACCCTTTTTCTTGTACAAGCACT
8759483 AATAATGTGGTAGCTGCTAGCTGACAATCTAGGCAAAGTTGTTTTGTATTTTCATTCCTTAAAAG
66 AATAATGTGGTAGCTGCTAGCTGACAATCTAGGCAAAGTTGTTTTGTATTTTCATTCCTTAAAAG
8759548 TTTTTTTTTTTTTTTTTATATATTCTTAGGAATTAAGGTGTTCTAATAGTTATAA
131 --------TTTTTTTTT-TATATTCTTAGGAATTAAGGTGTTCTAATAGTTATAA
*
8759603 TTTTCCCATTTACGTATCCTTCAATCAAATATAGTTTTCTTTTCCCTTTTTCTTGTACAAGCACT
1 TTTTCCCATTTACGTATCCTTCAATCAAATATAGTTTTCTTTACCCTTTTTCTTGTACAAGCACT
*
8759668 AATAATGTGGTAGCTGCTAGCTGACAATCTAGGCAAAGTTGTTTTGTATTTTTATTCCTTAAAAG
66 AATAATGTGGTAGCTGCTAGCTGACAATCTAGGCAAAGTTGTTTTGTATTTTCATTCCTTAAAAG
8759733 TTTTTTTTTTATATTCTTAGGAATTAAGGTGTTCTAATAGTTATAA
131 TTTTTTTTTTATATTCTTAGGAATTAAGGTGTTCTAATAGTTATAA
8759779 GGGCAAACAA
Statistics
Matches: 173, Mismatches: 3, Indels: 9
0.94 0.02 0.05
Matches are distributed among these distances:
176 37 0.21
177 9 0.05
185 127 0.73
ACGTcount: A:0.26, C:0.14, G:0.13, T:0.47
Consensus pattern (176 bp):
TTTTCCCATTTACGTATCCTTCAATCAAATATAGTTTTCTTTACCCTTTTTCTTGTACAAGCACT
AATAATGTGGTAGCTGCTAGCTGACAATCTAGGCAAAGTTGTTTTGTATTTTCATTCCTTAAAAG
TTTTTTTTTTATATTCTTAGGAATTAAGGTGTTCTAATAGTTATAA
Found at i:8759865 original size:24 final size:24
Alignment explanation
Indices: 8759816--8759865 Score: 57
Period size: 24 Copynumber: 2.1 Consensus size: 24
8759806 TTATTATACT
* *
8759816 TTTATTTTATTTCAGTACTCAAAC
1 TTTATTTTATTTCAGAAATCAAAC
*
8759840 TTTATTTTTATTTCA-AAATCACAC
1 TTTA-TTTTATTTCAGAAATCAAAC
8759864 TT
1 TT
8759866 AAAGTTTAGT
Statistics
Matches: 22, Mismatches: 3, Indels: 2
0.81 0.11 0.07
Matches are distributed among these distances:
24 12 0.55
25 10 0.45
ACGTcount: A:0.30, C:0.16, G:0.02, T:0.52
Consensus pattern (24 bp):
TTTATTTTATTTCAGAAATCAAAC
Found at i:8761808 original size:698 final size:695
Alignment explanation
Indices: 8760454--8762336 Score: 2967
Period size: 698 Copynumber: 2.7 Consensus size: 695
8760444 TTATAAGGGT
* *
8760454 ATTTCAGTACCCAAACTTTATTTTTATTTCAAAATCACACTTAAAGTTTAACTTATCTTTTATTT
1 ATTTCAGTACCCAAACTTTATTTTTATTTCAAAATCACACTTAAAGTTTAGCTTATATTTTATTT
*
8760519 TGGTATCCATTATTAAAAAATTAACAGAATTGTAGATATCATTTTAAGGGTAAATTATGTATTT-
66 TGGTATCCATTATTAAAAAATTAACAGAATTTTAGATATCATTTTAAGGGTAAATTATGTATTTA
*
8760583 GATATCTAAACTTTCAGTTTTAGCCCTTTTTAGTACCCAAACTTTTATTTTTTTCAAAATCATAC
131 G-TATCTAAACTTTCAGTTTTAGCCCTTTTTAGTA-CCAAACTTTTATTTTTTTCAAAATCATAA
* * *
8760648 CTAATATTTAGTTTTCATTTAATTTTAGTACCCGCCATTAAAAAACTTAACGCGTTTAGTTCCCA
194 CTAATGTTTAGTTTTCATTTAATTTTAGTACCCGCCATTAAAAAACTTAACGCGTTTAGTGCCTA
* * *
8760713 AACTATAGTTCTTGTCTGTTTTAGTACATGAACTTTAATTTGTTTTTCAAAACTCGGTGTTAAAT
259 AACTATAGTTTTTGTCCGTTTTAGTACATGAACTTTCATTT-TTTTTCAAAACTCGGTGTTAAAT
* *
8760778 TTTGAACGGTGTACTAAAATGAAACAAAAACA-AAAGTTTTTAACAAAGAGATAATAAAATGAAA
323 TTTGAACGGTGTACTAAAATGAAACAAAAA-ATAAAGTTTTTAACAGAG-GATACTAAAATGAAA
* * *
8760842 CAAAACTAAACTTTA-AGTACGATCTTGAAAAATTGAAAGTTTCGGTATTAAAACGAATCAAGAC
386 CAAAACTAAACTTTAGA-TACGGTCTTGAAAAATTGAAAGTTTAGGTACTAAAACGAATCAAGAC
* *
8760906 TGATAATCTAGATACTAAACACATAATTTA-CCC-TTTTAATGATTACATACAAGTTAACGTTAT
450 TGATAATCTAGATACTAAACACATAATTTACCCCTTTTTAATGATTACATACAAGTTAACGTGAC
* * *
8760969 TGTTAAGTTTTCTTGTACAAGTACTAATAATGTGCTAGCTGCTAGCTGACAATCTAGGCAAAGTT
515 CGTTAAGTTTTCTTGTACAAGTACTAATAATGTGCTAGCTGCAAACTGACAATCTAGGCAAAGTT
* * * *
8761034 TGTTTTGTATTTTTATTCCTTAAAAGATATTTTTTTTATATTCTTAGGAATTAAGGTGTTCTAAT
580 TGTTTTCTATTTTTATTCCTTAAAACATATTTTTTATATATTCTAAGGAATTAAGGTGTTCTAAT
*
8761099 AGTTATAAGGGTAAACTACACGTTTAGCACTTAAATTATTATTTTTATTTC
645 AGTTATAAGGGTAAACTACAAGTTTAGCACTTAAATTATTATTTTTATTTC
* *
8761150 ATTTCAGTACCCAAACTTTATTTTTATTTCAAGATCACACTTAAAGTTTAGCTTATGTTTTATTT
1 ATTTCAGTACCCAAACTTTATTTTTATTTCAAAATCACACTTAAAGTTTAGCTTATATTTTATTT
* * *
8761215 TGGTATCCATTATTAAAAAAATAAAATAATTTTAGATATCATTTTAAGGGTAAATTATGTATTTA
66 TGGTATCCATTATTAAAAAATTAACAGAATTTTAGATATCATTTTAAGGGTAAATTATGTATTTA
*
8761280 GTATCTAAACTTTCAGTTTTAGCCCTTCTTAGTATCCAAACTTTTATTTTTTTTCAAAATCATAA
131 GTATCTAAACTTTCAGTTTTAGCCCTTTTTAGTA-CCAAACTTTTA-TTTTTTTCAAAATCATAA
* *
8761345 CTAATGTTTAGTTTTCATTTAATTTTAGTACCCTTCCATTAAAAAACTTAATGCGTTTAGTGCCT
194 CTAATGTTTAGTTTTCATTTAATTTTAGTACCC-GCCATTAAAAAACTTAACGCGTTTAGTGCCT
*
8761410 AAACTATCAGTTTTTATCCGTTTTAGTACATGAACTTTCA-TTTTTTTCAAAACTCGGTGTTAAA
258 AAACTAT-AGTTTTTGTCCGTTTTAGTACATGAACTTTCATTTTTTTTCAAAACTCGGTGTTAAA
** * * *
8761474 TTTTGAACAATATACTAAAATGAAACAAAAAATTGAAGTTTTTAACAGAGGTATACTAAAATAAA
322 TTTTGAACGGTGTACTAAAATGAAACAAAAAA-TAAAGTTTTTAACAGAGG-ATACTAAAATGAA
*
8761539 ACAAAACTAAACTTTAGATACGGTCTTGAAAAATTGAAAGTTTAGGTACTAAAATGAATCAAGAC
385 ACAAAACTAAACTTTAGATACGGTCTTGAAAAATTGAAAGTTTAGGTACTAAAACGAATCAAGAC
*
8761604 TAATAATCTAGATACTAAACACATAATTTACCCCTTTTTAATGATTACATACAAGTTAACGTGAC
450 TGATAATCTAGATACTAAACACATAATTTACCCCTTTTTAATGATTACATACAAGTTAACGTGAC
*
8761669 CGTTAAGTTTTCTTGTACAAGTACTAATAATGTGCTAGCTGCAAACTGACAATCTAGGCGAAG-T
515 CGTTAAGTTTTCTTGTACAAGTACTAATAATGTGCTAGCTGCAAACTGACAATCTAGGCAAAGTT
*
8761733 TGTTTTCTATTTTTATTCCTTAAATCAT-TTTTTTATATATTCTAAGGAATTAAGGTGTTCTAAT
580 TGTTTTCTATTTTTATTCCTTAAAACATATTTTTTATATATTCTAAGGAATTAAGGTGTTCTAAT
*
8761797 AGTTATAAGGGTAAACTACAAGTTTATCACTTAAATTATTATTTTTATTTC
645 AGTTATAAGGGTAAACTACAAGTTTAGCACTTAAATTATTATTTTTATTTC
* * *
8761848 ATTTCAGTATCCAAACTTTATATTTATTTCAAAATCACACTTAAAGTTTAGTTTATATTTTATTT
1 ATTTCAGTACCCAAACTTTATTTTTATTTCAAAATCACACTTAAAGTTTAGCTTATATTTTATTT
*
8761913 TGGTATCCATTATTAAAAAATTAACAGAA-TTGATGATATCATTTTAAGGGTAAATTATGTATTT
66 TGGTATCCATTATTAAAAAATTAACAGAATTTTA-GATATCATTTTAAGGGTAAATTATGTATTT
* * * *
8761977 ATTACCTAAACTTTCAGTTTTAGCCATTTTTAGTACCTAAACTTTTATTTTTTTCAAAACCA-AA
130 AGTATCTAAACTTTCAGTTTTAGCCCTTTTTAGTACC-AAACTTTTATTTTTTTCAAAATCATAA
* *
8762041 CCTAATGTTTAGTTTTCATTTAATTTTAGTACCCGCCATTAAAAAAATTAACGCATTTAGTGCCT
194 -CTAATGTTTAGTTTTCATTTAATTTTAGTACCCGCCATTAAAAAACTTAACGCGTTTAGTGCCT
8762106 AAACTATTAGTTTTTGTCCGTTTTAGTACATGAACTTTCATTTTTTTTTCAAAACTCGGTGTTAA
258 AAACTA-TAGTTTTTGTCCGTTTTAGTACATGAACTTTCA-TTTTTTTTCAAAACTCGGTGTTAA
* *
8762171 ATTTTGAACGGTGTACTAAAATAAAACAAAAACTAAAGTTTTTAACAGAGGGATACTAAAATGAA
321 ATTTTGAACGGTGTACTAAAATGAAACAAAAAATAAAGTTTTTAACAGA-GGATACTAAAATGAA
* * * *
8762236 ACAAAAACTAAACTTTAGGTATGGTCTTGAAAAATTGAAAGTTTAGGTACTAAAACAAATCAACA
385 AC-AAAACTAAACTTTAGATACGGTCTTGAAAAATTGAAAGTTTAGGTACTAAAACGAATCAAGA
* *
8762301 TTGATAATCTAGCTACTAAACACATAATTTACCCCT
449 CTGATAATCTAGATACTAAACACATAATTTACCCCT
8762337 GTCGACATCC
Statistics
Matches: 1091, Mismatches: 78, Indels: 34
0.91 0.06 0.03
Matches are distributed among these distances:
696 232 0.21
697 183 0.17
698 531 0.49
699 58 0.05
700 87 0.08
ACGTcount: A:0.36, C:0.13, G:0.11, T:0.40
Consensus pattern (695 bp):
ATTTCAGTACCCAAACTTTATTTTTATTTCAAAATCACACTTAAAGTTTAGCTTATATTTTATTT
TGGTATCCATTATTAAAAAATTAACAGAATTTTAGATATCATTTTAAGGGTAAATTATGTATTTA
GTATCTAAACTTTCAGTTTTAGCCCTTTTTAGTACCAAACTTTTATTTTTTTCAAAATCATAACT
AATGTTTAGTTTTCATTTAATTTTAGTACCCGCCATTAAAAAACTTAACGCGTTTAGTGCCTAAA
CTATAGTTTTTGTCCGTTTTAGTACATGAACTTTCATTTTTTTTCAAAACTCGGTGTTAAATTTT
GAACGGTGTACTAAAATGAAACAAAAAATAAAGTTTTTAACAGAGGATACTAAAATGAAACAAAA
CTAAACTTTAGATACGGTCTTGAAAAATTGAAAGTTTAGGTACTAAAACGAATCAAGACTGATAA
TCTAGATACTAAACACATAATTTACCCCTTTTTAATGATTACATACAAGTTAACGTGACCGTTAA
GTTTTCTTGTACAAGTACTAATAATGTGCTAGCTGCAAACTGACAATCTAGGCAAAGTTTGTTTT
CTATTTTTATTCCTTAAAACATATTTTTTATATATTCTAAGGAATTAAGGTGTTCTAATAGTTAT
AAGGGTAAACTACAAGTTTAGCACTTAAATTATTATTTTTATTTC
Found at i:8762380 original size:3 final size:3
Alignment explanation
Indices: 8762367--8762401 Score: 54
Period size: 3 Copynumber: 12.0 Consensus size: 3
8762357 GAACCCGTCT
*
8762367 TTA TT- TTA TTA TTA TTA TTT TTA TTA TTA TTA TTA
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA
8762402 ACATTTATTT
Statistics
Matches: 29, Mismatches: 2, Indels: 2
0.88 0.06 0.06
Matches are distributed among these distances:
2 2 0.07
3 27 0.93
ACGTcount: A:0.29, C:0.00, G:0.00, T:0.71
Consensus pattern (3 bp):
TTA
Found at i:8762390 original size:15 final size:15
Alignment explanation
Indices: 8762370--8762400 Score: 62
Period size: 15 Copynumber: 2.1 Consensus size: 15
8762360 CCCGTCTTTA
8762370 TTTTATTATTATTAT
1 TTTTATTATTATTAT
8762385 TTTTATTATTATTAT
1 TTTTATTATTATTAT
8762400 T
1 T
8762401 AACATTTATT
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 16 1.00
ACGTcount: A:0.26, C:0.00, G:0.00, T:0.74
Consensus pattern (15 bp):
TTTTATTATTATTAT
Found at i:8767663 original size:290 final size:290
Alignment explanation
Indices: 8767129--8767710 Score: 968
Period size: 290 Copynumber: 2.0 Consensus size: 290
8767119 ACTGAATTAA
* * * * *
8767129 AAAATGATATTGAGCAATGGAGAAAGAATAGCAAGATGCATGAAGGTTAAGCCAAAAAGTCATTT
1 AAAACGATACTGAACAATGGAGAAAGAATAGAAAGATGCATGAAGGTCAAGCCAAAAAGTCATTT
* *
8767194 CATGTTTTACAGGTTGCAGAAAGAAGACATAATACAACCATGGATGATTTAGAAAGATGCAAAGT
66 CACGTTTTACAGGTTGCAGAAAGAAGACACAATACAACCATGGATGATTTAGAAAGATGCAAAGT
*
8767259 CGAGAATCATATGTTTGATATGTCCATAGCCAACATGGAAACTTCATATCAGCGCCACAAACATG
131 CGAGAATCAGATGTTTGATATGTCCATAGCCAACATGGAAACTTCATATCAGCGCCACAAACATG
* * *
8767324 AGATTGATGTTGAGCTAGAAGCCATTAGAGCCAGGAACAAGAGATTGATGAGGATTGTAGATAAT
196 AGATTAATGTTGAGCTAGAAGCCACTAGAGCCAGGAACAAGAGATTGATGAAGATTGTAGATAAT
*
8767389 TTTGAAAATGTTGCCCAATGAGTTCATAAC
261 TTTGAAAATGTTGCCCAAGGAGTTCATAAC
* *
8767419 AAAACGATACTGAACAATGGAGAAAGAATAGAAAGATGCATGAAGGTCAGGCCAAGAAGTCATTT
1 AAAACGATACTGAACAATGGAGAAAGAATAGAAAGATGCATGAAGGTCAAGCCAAAAAGTCATTT
* * * *
8767484 CACGTTTTACAGGTTGCGGAAAGAAGACGCAATACAACCATGGATGATTTGGAAAGATGCCAAGT
66 CACGTTTTACAGGTTGCAGAAAGAAGACACAATACAACCATGGATGATTTAGAAAGATGCAAAGT
* *
8767549 CGAGAATCAGATGTTTGATATGTCCATAGCCAACAT-GAAAGCTTCATATCATCGCCACAAGCAT
131 CGAGAATCAGATGTTTGATATGTCCATAGCCAACATGGAAA-CTTCATATCAGCGCCACAAACAT
8767613 GAGATTAATGTTGAGCTAGAAGCCACTAGAGCCAGGAACAAGAGATTGATGAAGATTGTAGATAA
195 GAGATTAATGTTGAGCTAGAAGCCACTAGAGCCAGGAACAAGAGATTGATGAAGATTGTAGATAA
8767678 TTTTGAAAATGTTGCCCAAGGAGTTCATAAC
260 TTTTGAAAATGTTGCCCAAGGAGTTCATAAC
8767709 AA
1 AA
8767711 TGAAGACTTT
Statistics
Matches: 271, Mismatches: 20, Indels: 2
0.92 0.07 0.01
Matches are distributed among these distances:
289 4 0.01
290 267 0.99
ACGTcount: A:0.39, C:0.15, G:0.23, T:0.24
Consensus pattern (290 bp):
AAAACGATACTGAACAATGGAGAAAGAATAGAAAGATGCATGAAGGTCAAGCCAAAAAGTCATTT
CACGTTTTACAGGTTGCAGAAAGAAGACACAATACAACCATGGATGATTTAGAAAGATGCAAAGT
CGAGAATCAGATGTTTGATATGTCCATAGCCAACATGGAAACTTCATATCAGCGCCACAAACATG
AGATTAATGTTGAGCTAGAAGCCACTAGAGCCAGGAACAAGAGATTGATGAAGATTGTAGATAAT
TTTGAAAATGTTGCCCAAGGAGTTCATAAC
Found at i:8769651 original size:22 final size:22
Alignment explanation
Indices: 8769623--8769699 Score: 77
Period size: 22 Copynumber: 3.4 Consensus size: 22
8769613 AAAAAGAGAG
* *
8769623 AGAAAAAGAACATG-GAAAAGAT
1 AGAAAAAGAA-AAGAGAAAAAAT
8769645 AGAAAAAGAAAAGAGAAAAAAT
1 AGAAAAAGAAAAGAGAAAAAAT
*
8769667 AGAAAAAGAAGAAGAAGAAGAAGA-
1 AGAAAAAGAA-AAG-AGAA-AAAAT
8769691 AGAAAAAGA
1 AGAAAAAGA
8769700 GAGAAAAAGA
Statistics
Matches: 48, Mismatches: 3, Indels: 6
0.84 0.05 0.11
Matches are distributed among these distances:
21 2 0.04
22 27 0.56
23 3 0.06
24 13 0.27
25 3 0.06
ACGTcount: A:0.71, C:0.01, G:0.23, T:0.04
Consensus pattern (22 bp):
AGAAAAAGAAAAGAGAAAAAAT
Found at i:8769657 original size:15 final size:14
Alignment explanation
Indices: 8769637--8769729 Score: 66
Period size: 15 Copynumber: 6.4 Consensus size: 14
8769627 AAAGAACATG
8769637 GAAAAGATAGAAAAA
1 GAAAAGA-AGAAAAA
*
8769652 GAAAAGAGAAAAAATA
1 GAAAAGA-AGAAAA-A
*
8769668 GAAAAAGAAGAAGAA
1 G-AAAAGAAGAAAAA
8769683 GAAGAAGAAGAAAAA
1 GAA-AAGAAGAAAAA
*
8769698 G-AGAGAA-AAAGAA
1 GAAAAGAAGAAA-AA
*
8769711 TAAAAGAA-AAAAA
1 GAAAAGAAGAAAAA
8769724 TGAAAA
1 -GAAAA
8769730 AAATAAATCA
Statistics
Matches: 63, Mismatches: 9, Indels: 13
0.74 0.11 0.15
Matches are distributed among these distances:
12 3 0.05
13 8 0.13
14 15 0.24
15 25 0.40
16 6 0.10
17 6 0.10
ACGTcount: A:0.74, C:0.00, G:0.22, T:0.04
Consensus pattern (14 bp):
GAAAAGAAGAAAAA
Found at i:8769663 original size:7 final size:6
Alignment explanation
Indices: 8769645--8769721 Score: 54
Period size: 6 Copynumber: 13.2 Consensus size: 6
8769635 TGGAAAAGAT
* * * * *
8769645 AGAAAA AG-AAA AGAGAA A-AAAT AGAAAA AGAAGA AGAAGA AGAAGA
1 AGAAAA AGAAAA AGAAAA AGAAAA AGAAAA AGAAAA AGAAAA AGAAAA
*
8769691 AGAAAA AG--AG AGAAAA AGAATAAA AGAAAA A
1 AGAAAA AGAAAA AGAAAA AG-A-AAA AGAAAA A
8769722 AATGAAAAAA
Statistics
Matches: 57, Mismatches: 8, Indels: 12
0.74 0.10 0.16
Matches are distributed among these distances:
4 3 0.05
5 8 0.14
6 39 0.68
7 2 0.04
8 5 0.09
ACGTcount: A:0.75, C:0.00, G:0.22, T:0.03
Consensus pattern (6 bp):
AGAAAA
Found at i:8769680 original size:3 final size:3
Alignment explanation
Indices: 8769667--8769710 Score: 52
Period size: 3 Copynumber: 14.3 Consensus size: 3
8769657 GAGAAAAAAT
* * *
8769667 AGA AAA AGA AGA AGA AGA AGA AGA AGA AAA AGA GAGA AAA AGA A
1 AGA AGA AGA AGA AGA AGA AGA AGA AGA AGA AGA -AGA AGA AGA A
8769711 TAAAAGAAAA
Statistics
Matches: 34, Mismatches: 6, Indels: 2
0.81 0.14 0.05
Matches are distributed among these distances:
3 31 0.91
4 3 0.09
ACGTcount: A:0.73, C:0.00, G:0.27, T:0.00
Consensus pattern (3 bp):
AGA
Found at i:8769688 original size:56 final size:57
Alignment explanation
Indices: 8769590--8769730 Score: 148
Period size: 56 Copynumber: 2.5 Consensus size: 57
8769580 ATAAATTCAT
* * * *
8769590 AAAAA-AATAAATAAAATAAAATA-AAAAAGAGAGAGAAAAAGAACATGGAAAAGATAG
1 AAAAAGAATAAA-AGAA-AAAATAGAAAAAGAGAGAGAAAAAGAACAAGAAAAAGAGAG
* * *
8769647 AAAAAGAA-AAGAGAAAAAATAGAAAAAGA-AGAAGAAGAAGAAGAAGAAAAAGAGAG
1 AAAAAGAATAAAAGAAAAAATAGAAAAAGAGAG-AGAAAAAGAACAAGAAAAAGAGAG
8769703 AAAAAGAATAAAAGAAAAAA-ATGAAAAA
1 AAAAAGAATAAAAGAAAAAATA-GAAAAA
8769731 AATAAATCAA
Statistics
Matches: 71, Mismatches: 8, Indels: 10
0.80 0.09 0.11
Matches are distributed among these distances:
55 8 0.11
56 38 0.54
57 23 0.32
58 2 0.03
ACGTcount: A:0.74, C:0.01, G:0.18, T:0.06
Consensus pattern (57 bp):
AAAAAGAATAAAAGAAAAAATAGAAAAAGAGAGAGAAAAAGAACAAGAAAAAGAGAG
Found at i:8769717 original size:8 final size:7
Alignment explanation
Indices: 8769647--8769722 Score: 62
Period size: 8 Copynumber: 9.7 Consensus size: 7
8769637 GAAAAGATAG
8769647 AAAAAGA
1 AAAAAGA
*
8769654 AAAGAGA
1 AAAAAGA
*
8769661 AAAAATA
1 AAAAAGA
8769668 GAAAAAGA
1 -AAAAAGA
8769676 AGAAGAAGA
1 A-AA-AAGA
8769685 AGAAGAAGA
1 A-AA-AAGA
8769694 AAAAGAGA
1 AAAA-AGA
8769702 GAAAAAGA
1 -AAAAAGA
8769710 ATAAAAGA
1 A-AAAAGA
8769718 AAAAA
1 AAAAA
8769723 ATGAAAAAAA
Statistics
Matches: 59, Mismatches: 4, Indels: 12
0.79 0.05 0.16
Matches are distributed among these distances:
7 18 0.31
8 23 0.39
9 18 0.31
ACGTcount: A:0.76, C:0.00, G:0.21, T:0.03
Consensus pattern (7 bp):
AAAAAGA
Found at i:8769733 original size:9 final size:8
Alignment explanation
Indices: 8769653--8769732 Score: 61
Period size: 9 Copynumber: 9.5 Consensus size: 8
8769643 ATAGAAAAAG
8769653 AAAAGAGAA
1 AAAAGA-AA
* *
8769662 AAAATAGA
1 AAAAGAAA
8769670 AAAAGAAGA
1 AAAAGAA-A
*
8769679 AGAAGAAGA
1 AAAAGAA-A
*
8769688 AGAAGAAA
1 AAAAGAAA
* *
8769696 AAGAGAGA
1 AAAAGAAA
*
8769704 AAAAGAAT
1 AAAAGAAA
8769712 AAAAGAAA
1 AAAAGAAA
8769720 AAAATGAAA
1 AAAA-GAAA
8769729 AAAA
1 AAAA
8769733 TAAATCAAAT
Statistics
Matches: 57, Mismatches: 12, Indels: 4
0.78 0.16 0.05
Matches are distributed among these distances:
8 28 0.49
9 29 0.51
ACGTcount: A:0.76, C:0.00, G:0.20, T:0.04
Consensus pattern (8 bp):
AAAAGAAA
Found at i:8774216 original size:2 final size:2
Alignment explanation
Indices: 8774205--8774250 Score: 78
Period size: 2 Copynumber: 24.0 Consensus size: 2
8774195 AGAAATCAAT
8774205 TA TA -A TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
8774246 T- TA TA
1 TA TA TA
8774251 GTTAATGATA
Statistics
Matches: 42, Mismatches: 0, Indels: 4
0.91 0.00 0.09
Matches are distributed among these distances:
1 2 0.05
2 40 0.95
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
TA
Found at i:8775647 original size:14 final size:16
Alignment explanation
Indices: 8775628--8775659 Score: 50
Period size: 14 Copynumber: 2.1 Consensus size: 16
8775618 GTTAAGGTAA
8775628 GAGGTA-TGAAGA-TT
1 GAGGTACTGAAGACTT
8775642 GAGGTACTGAAGACTT
1 GAGGTACTGAAGACTT
8775658 GA
1 GA
8775660 AGATTTATGG
Statistics
Matches: 16, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
14 6 0.38
15 6 0.38
16 4 0.25
ACGTcount: A:0.34, C:0.06, G:0.34, T:0.25
Consensus pattern (16 bp):
GAGGTACTGAAGACTT
Found at i:8775771 original size:15 final size:15
Alignment explanation
Indices: 8775747--8775779 Score: 57
Period size: 15 Copynumber: 2.2 Consensus size: 15
8775737 GTTAAAAAAG
8775747 ATTGTCAGAAAGGTA
1 ATTGTCAGAAAGGTA
*
8775762 ATTGTGAGAAAGGTA
1 ATTGTCAGAAAGGTA
8775777 ATT
1 ATT
8775780 TATTTAATAG
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
15 17 1.00
ACGTcount: A:0.39, C:0.03, G:0.27, T:0.30
Consensus pattern (15 bp):
ATTGTCAGAAAGGTA
Found at i:8776376 original size:29 final size:29
Alignment explanation
Indices: 8776334--8776390 Score: 105
Period size: 29 Copynumber: 2.0 Consensus size: 29
8776324 GTTATCCCTC
*
8776334 TGCTGGAAATGGATGTCTTGCATCTTCAT
1 TGCTGGAAATGGATGTCTTGCAACTTCAT
8776363 TGCTGGAAATGGATGTCTTGCAACTTCA
1 TGCTGGAAATGGATGTCTTGCAACTTCA
8776391 ACCGAACGAC
Statistics
Matches: 27, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
29 27 1.00
ACGTcount: A:0.23, C:0.18, G:0.25, T:0.35
Consensus pattern (29 bp):
TGCTGGAAATGGATGTCTTGCAACTTCAT
Found at i:8778564 original size:2 final size:2
Alignment explanation
Indices: 8778559--8778587 Score: 58
Period size: 2 Copynumber: 14.5 Consensus size: 2
8778549 CGTGTGTGTG
8778559 TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
8778588 CCAATTTGAC
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 27 1.00
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (2 bp):
TA
Found at i:8786186 original size:12 final size:12
Alignment explanation
Indices: 8786154--8786179 Score: 52
Period size: 12 Copynumber: 2.2 Consensus size: 12
8786144 TGACTTCTAA
8786154 TTGTCACACTTT
1 TTGTCACACTTT
8786166 TTGTCACACTTT
1 TTGTCACACTTT
8786178 TT
1 TT
8786180 TGCACACAAG
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 14 1.00
ACGTcount: A:0.15, C:0.23, G:0.08, T:0.54
Consensus pattern (12 bp):
TTGTCACACTTT
Found at i:8792877 original size:21 final size:21
Alignment explanation
Indices: 8792852--8792912 Score: 55
Period size: 21 Copynumber: 3.2 Consensus size: 21
8792842 ATAAACACTA
8792852 AGTGTCTTGGGTATACACTCT
1 AGTGTCTTGGGTATACACTCT
* *
8792873 AGTG---T---TATGCACT-A
1 AGTGTCTTGGGTATACACTCT
8792887 AGTGTCTTGGGTATACACTCT
1 AGTGTCTTGGGTATACACTCT
8792908 AGTGT
1 AGTGT
8792913 TATGCACTAA
Statistics
Matches: 29, Mismatches: 4, Indels: 14
0.62 0.09 0.30
Matches are distributed among these distances:
14 4 0.14
15 7 0.24
17 1 0.03
18 1 0.03
20 7 0.24
21 9 0.31
ACGTcount: A:0.21, C:0.16, G:0.25, T:0.38
Consensus pattern (21 bp):
AGTGTCTTGGGTATACACTCT
Found at i:8792978 original size:35 final size:35
Alignment explanation
Indices: 8792847--8792970 Score: 223
Period size: 35 Copynumber: 3.6 Consensus size: 35
8792837 CCGCCATAAA
8792847 CACTAAGTGTCTTGGGTATACACTCTAGTGTTATG
1 CACTAAGTGTCTTGGGTATACACTCTAGTGTTATG
8792882 CACTAAGTGTCTTGGGTATACACTCTAGTGTTATG
1 CACTAAGTGTCTTGGGTATACACTCTAGTGTTATG
**
8792917 CACTAAGTGTCTTGGGTATACACTCTAGT-TCCTG
1 CACTAAGTGTCTTGGGTATACACTCTAGTGTTATG
8792951 CACTAAGTGTCTTGGGTATA
1 CACTAAGTGTCTTGGGTATA
8792971 ATACTCTATT
Statistics
Matches: 87, Mismatches: 2, Indels: 1
0.97 0.02 0.01
Matches are distributed among these distances:
34 23 0.26
35 64 0.74
ACGTcount: A:0.23, C:0.19, G:0.23, T:0.36
Consensus pattern (35 bp):
CACTAAGTGTCTTGGGTATACACTCTAGTGTTATG
Found at i:8797530 original size:20 final size:20
Alignment explanation
Indices: 8797507--8797549 Score: 61
Period size: 20 Copynumber: 2.1 Consensus size: 20
8797497 ACTCAACCAC
8797507 ATGCAACTATATG-ATCCTAA
1 ATGCAACTATATGTA-CCTAA
*
8797527 ATGCAACTTTATGTACCTAA
1 ATGCAACTATATGTACCTAA
8797547 ATG
1 ATG
8797550 TACTTTAAGG
Statistics
Matches: 21, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
20 20 0.95
21 1 0.05
ACGTcount: A:0.37, C:0.19, G:0.12, T:0.33
Consensus pattern (20 bp):
ATGCAACTATATGTACCTAA
Done.