Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: VEPZ01001547.1 Hibiscus syriacus cultivar Beakdansim tig00003041_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: 10425128
ACGTcount: A:0.33, C:0.17, G:0.17, T:0.33
File 9 of 51
Found at i:1743335 original size:21 final size:21
Alignment explanation
Indices: 1743308--1743357 Score: 82
Period size: 21 Copynumber: 2.4 Consensus size: 21
1743298 CCAGCACAAC
1743308 CAACTCCAACTACCGAGAAGT
1 CAACTCCAACTACCGAGAAGT
* *
1743329 TAACTCCAACTACCGAGCAGT
1 CAACTCCAACTACCGAGAAGT
1743350 CAACTCCA
1 CAACTCCA
1743358 GCACACGCCT
Statistics
Matches: 26, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
21 26 1.00
ACGTcount: A:0.36, C:0.36, G:0.12, T:0.16
Consensus pattern (21 bp):
CAACTCCAACTACCGAGAAGT
Found at i:1746527 original size:200 final size:199
Alignment explanation
Indices: 1746184--1746857 Score: 1125
Period size: 200 Copynumber: 3.4 Consensus size: 199
1746174 CAAGCGATCA
*
1746184 ATACTTTTGGTCCAGAATGAATGCCCAACAAGGTGCACGCATAAAGTGTCGATACATTTATTGTA
1 ATACTTTTGGTCCAGAATGAATGCCCAACGAGGTGCACGCATAAAGTGTCGATACATTTATTGTA
1746249 AGTATCGATCCCAAAAACATCGAAACTGATAATTATAAAGTAATAGGTAAATTTACAATGTAACC
66 AGTATCGATCCCAAAAACATCGAAACTGATAATTATAAAGTAATAGGTAAATTTACAATGTAACC
* *
1746314 GGTAAAAATATACCAGTTTTATGATATAATATGTCAACATAATGTATCGATACTTTTTAAATTTA
131 GGTAAAAATATACC-GTTTTATGACATAATATGTCAACATAATGTATCGATACTTTTTAAATTTG
1746379 TGTCG
195 TGTCG
* **
1746384 ATACTTTTGGTCCAGAATTG-ATGCCCAACGAGGTGCATGCATAAAGTGTCGATACATTTATCAT
1 ATACTTTTGGTCCAGAA-TGAATGCCCAACGAGGTGCACGCATAAAGTGTCGATACATTTATTGT
* * *
1746448 AAGTATCAATCCTAAAAACATCGAAACCGATAATTATAAAGTAATAGGTAAATTTACAATGTAAC
65 AAGTATCGATCCCAAAAACATCGAAACTGATAATTATAAAGTAATAGGTAAATTTACAATGTAAC
* * * *
1746513 CGGTAAAAATATACCGGTTTTATGACATAATAGGTCAACATAATATATTGATACTTTTTACATTT
130 CGGTAAAAATATACC-GTTTTATGACATAATATGTCAACATAATGTATCGATACTTTTTAAATTT
1746578 GTGTCG
194 GTGTCG
*
1746584 ATACTTTTGGTCTAGAATGAATGCCCAACGAGGTGCACGCATAAAGTGTCGATACATTTATTGTA
1 ATACTTTTGGTCCAGAATGAATGCCCAACGAGGTGCACGCATAAAGTGTCGATACATTTATTGTA
*
1746649 AGTATCGATCCCAAAAACATCAAAACTGATAATTATAAAGTAATAGGTAAATTTACAATGTAACC
66 AGTATCGATCCCAAAAACATCGAAACTGATAATTATAAAGTAATAGGTAAATTTACAATGTAACC
* * * *
1746714 GATAAAAATATAACGATTTTATGACAGAATATGTCAACATAATGTATCGATACTTTTTAAATTCG
131 GGTAAAAATATACCG-TTTTATGACATAATATGTCAACATAATGTATCGATACTTTTTAAATTTG
1746779 TGTCG
195 TGTCG
*
1746784 ATACTTTTGGTCCAGAATGAATGCCCAACGAGGTGCACGCATAAAGTTTCGATACATTTATTGTA
1 ATACTTTTGGTCCAGAATGAATGCCCAACGAGGTGCACGCATAAAGTGTCGATACATTTATTGTA
1746849 AGTATCGAT
66 AGTATCGAT
1746858 ACATAATGAT
Statistics
Matches: 439, Mismatches: 32, Indels: 6
0.92 0.07 0.01
Matches are distributed among these distances:
199 3 0.01
200 434 0.99
201 2 0.00
ACGTcount: A:0.38, C:0.15, G:0.16, T:0.32
Consensus pattern (199 bp):
ATACTTTTGGTCCAGAATGAATGCCCAACGAGGTGCACGCATAAAGTGTCGATACATTTATTGTA
AGTATCGATCCCAAAAACATCGAAACTGATAATTATAAAGTAATAGGTAAATTTACAATGTAACC
GGTAAAAATATACCGTTTTATGACATAATATGTCAACATAATGTATCGATACTTTTTAAATTTGT
GTCG
Found at i:1750119 original size:3 final size:3
Alignment explanation
Indices: 1750111--1750369 Score: 112
Period size: 3 Copynumber: 88.7 Consensus size: 3
1750101 TATTTTATTT
* * *
1750111 TAA TAA TAA TAA TAA TTAA TAA TAA TAA CAC TAA TAA TAG TAA TAA
1 TAA TAA TAA TAA TAA -TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA
* * * * *
1750157 TAA T-A TAA T-A TAA AAA TAA TAT TAA TAG TAA TAA TAC TAA T-A GAA
1 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA
* * * ** * * * *
1750202 TAG TTA TAC TGACA TAA TGT TAA TAG CAA TAA TACT TAA CAA -AA GTAA
1 TAA TAA TAA T-A-A TAA TAA TAA TAA TAA TAA TA-A TAA TAA TAA -TAA
* ** *
1750250 TAA TAA T-A TAA TAA TAG T-A TAA GGA TAA TAA T-A TAA TAA TAA AAA
1 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA
* * **
1750295 TAC TAA T-A TAA TAT TTG TAA T-A TAA T-A TAA TAA T-A TAA T-A TCAA
1 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA T-AA
* * * *
1750339 TAG TAC TAA TAC TAA T-A TAA TAT TAA TAA TA
1 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TA
1750370 GTACTAATGA
Statistics
Matches: 182, Mismatches: 55, Indels: 38
0.66 0.20 0.14
Matches are distributed among these distances:
2 24 0.13
3 146 0.80
4 11 0.06
5 1 0.01
ACGTcount: A:0.56, C:0.05, G:0.05, T:0.34
Consensus pattern (3 bp):
TAA
Found at i:1750155 original size:34 final size:34
Alignment explanation
Indices: 1750111--1750192 Score: 103
Period size: 34 Copynumber: 2.4 Consensus size: 34
1750101 TATTTTATTT
* * *
1750111 TAATAATAATAATAAT-TAATAATAATAACACTAA
1 TAATAGTAATAATAATATAAT-ATAAAAACAATAA
* *
1750145 TAATAGTAATAATAATATAATATAAAAATAATAT
1 TAATAGTAATAATAATATAATATAAAAACAATAA
1750179 TAATAGTAATAATA
1 TAATAGTAATAATA
1750193 CTAATAGAAT
Statistics
Matches: 42, Mismatches: 5, Indels: 2
0.86 0.10 0.04
Matches are distributed among these distances:
34 38 0.90
35 4 0.10
ACGTcount: A:0.61, C:0.02, G:0.02, T:0.34
Consensus pattern (34 bp):
TAATAGTAATAATAATATAATATAAAAACAATAA
Found at i:1750262 original size:8 final size:8
Alignment explanation
Indices: 1750249--1750334 Score: 56
Period size: 8 Copynumber: 10.8 Consensus size: 8
1750239 AACAAAAGTA
1750249 ATAATAAT
1 ATAATAAT
1750257 ATAATAAT
1 ATAATAAT
*
1750265 AGT-ATAAGG
1 A-TAATAA-T
1750274 ATAATAAT
1 ATAATAAT
1750282 ATAAT-A-
1 ATAATAAT
1750288 ATAA-AA-
1 ATAATAAT
*
1750294 ATACTAAT
1 ATAATAAT
*
1750302 ATAATATTT
1 ATAATA-AT
*
1750311 GTAATATAAT
1 AT-A-ATAAT
1750321 ATAATAAT
1 ATAATAAT
1750329 ATAATA
1 ATAATA
1750335 TCAATAGTAC
Statistics
Matches: 61, Mismatches: 8, Indels: 18
0.70 0.09 0.21
Matches are distributed among these distances:
6 8 0.13
7 3 0.05
8 35 0.57
9 9 0.15
10 3 0.05
11 3 0.05
ACGTcount: A:0.58, C:0.01, G:0.05, T:0.36
Consensus pattern (8 bp):
ATAATAAT
Found at i:1750291 original size:14 final size:14
Alignment explanation
Indices: 1750247--1750369 Score: 76
Period size: 14 Copynumber: 8.8 Consensus size: 14
1750237 TTAACAAAAG
1750247 TAATAATAATATAA
1 TAATAATAATATAA
*
1750261 TAATAGTATAAGGATAA
1 TAATA--ATAA-TATAA
1750278 TAAT-ATAATAATAA
1 TAATAATAAT-ATAA
* *
1750292 AAATACTAATATAA
1 TAATAATAATATAA
* **
1750306 TATTTGTAATATAA
1 TAATAATAATATAA
1750320 T-ATAATAATATAA
1 TAATAATAATATAA
* *
1750333 T-ATCAAT-A-GTAC
1 TAAT-AATAATATAA
*
1750345 TAATACTAATATAA
1 TAATAATAATATAA
*
1750359 TATTAATAATA
1 TAATAATAATA
1750370 GTACTAATGA
Statistics
Matches: 82, Mismatches: 18, Indels: 18
0.69 0.15 0.15
Matches are distributed among these distances:
12 5 0.06
13 16 0.20
14 45 0.55
15 4 0.05
16 4 0.05
17 8 0.10
ACGTcount: A:0.56, C:0.03, G:0.04, T:0.37
Consensus pattern (14 bp):
TAATAATAATATAA
Found at i:1750306 original size:53 final size:53
Alignment explanation
Indices: 1750249--1750382 Score: 141
Period size: 53 Copynumber: 2.5 Consensus size: 53
1750239 AACAAAAGTA
*
1750249 ATAATAATATAATAATAGTATAAGGATAATAATAT-AATAATAAAAATACTAAT
1 ATAATAAT-TAATAATAGTATAATGATAATAATATCAATAATAAAAATACTAAT
* * * * **
1750302 ATAATATTTGTAAT-ATAATATAATAAT-ATAATATCAATAGTACTAATACTAAT
1 ATAATA-AT-TAATAATAGTATAATGATAATAATATCAATAATAAAAATACTAAT
1750355 ATAAT-ATTAATAATAGTACTAATGATAA
1 ATAATAATTAATAATAGTA-TAATGATAA
1750383 GTGATAATGT
Statistics
Matches: 65, Mismatches: 11, Indels: 10
0.76 0.13 0.12
Matches are distributed among these distances:
50 4 0.06
51 6 0.09
52 13 0.20
53 37 0.57
54 5 0.08
ACGTcount: A:0.55, C:0.04, G:0.05, T:0.36
Consensus pattern (53 bp):
ATAATAATTAATAATAGTATAATGATAATAATATCAATAATAAAAATACTAAT
Found at i:1752447 original size:9 final size:9
Alignment explanation
Indices: 1752433--1752458 Score: 52
Period size: 9 Copynumber: 2.9 Consensus size: 9
1752423 GAAATCGGTT
1752433 AATTAACCG
1 AATTAACCG
1752442 AATTAACCG
1 AATTAACCG
1752451 AATTAACC
1 AATTAACC
1752459 TTTAAATATA
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
9 17 1.00
ACGTcount: A:0.46, C:0.23, G:0.08, T:0.23
Consensus pattern (9 bp):
AATTAACCG
Found at i:1752595 original size:17 final size:17
Alignment explanation
Indices: 1752573--1752611 Score: 71
Period size: 17 Copynumber: 2.4 Consensus size: 17
1752563 TGAATCAAAT
1752573 TAATTAGATATTATTTA
1 TAATTAGATATTATTTA
1752590 TAATTAGATATTATTTA
1 TAATTAGATATTATTTA
1752607 -AATTA
1 TAATTA
1752612 ATTGTAAATT
Statistics
Matches: 22, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
16 5 0.23
17 17 0.77
ACGTcount: A:0.44, C:0.00, G:0.05, T:0.51
Consensus pattern (17 bp):
TAATTAGATATTATTTA
Found at i:1756918 original size:3 final size:3
Alignment explanation
Indices: 1756910--1756943 Score: 59
Period size: 3 Copynumber: 11.3 Consensus size: 3
1756900 AAATATGAAT
*
1756910 TAA TAA TAA TAA TGA TAA TAA TAA TAA TAA TAA T
1 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA T
1756944 TATTATTATT
Statistics
Matches: 29, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
3 29 1.00
ACGTcount: A:0.62, C:0.00, G:0.03, T:0.35
Consensus pattern (3 bp):
TAA
Found at i:1757555 original size:101 final size:103
Alignment explanation
Indices: 1757426--1757653 Score: 327
Period size: 101 Copynumber: 2.2 Consensus size: 103
1757416 GAAACAAACT
* * *
1757426 CAAAGATTATGTTTTAAGAGACACTGTCTCAAGTGAGACAAAACTTGTTTAAAGGGAAACAGACT
1 CAAA-ATT-TGTTTTAAGAGAAACTGTCTCAAGGGAGACAAAAATTGTTTAAAGGGAAACAGACT
*
1757491 CAAAGA-TCT-T-TTCAAGAAAAAACTGTCTCAAGAGAGA
64 CAAAGATTCTGTGTTCAACAAAAAACTGTCTCAAGAGAGA
1757528 CAAAACTTTGTTTTAAGAGAAACTGTCTCAAGGGAGACAAAAATTGTTTAAAGGGAAACAGACTC
1 CAAAA-TTTGTTTTAAGAGAAACTGTCTCAAGGGAGACAAAAATTGTTTAAAGGGAAACAGACTC
* * * *
1757593 AAAGATTTTGTGTTTAACAAGAAACTGTCTCAAGGGAGA
65 AAAGATTCTGTGTTCAACAAAAAACTGTCTCAAGAGAGA
*
1757632 CAAAATTTGTTTCAAGAGAAAC
1 CAAAATTTGTTTTAAGAGAAAC
1757654 AGACTCAAAG
Statistics
Matches: 113, Mismatches: 9, Indels: 7
0.88 0.07 0.05
Matches are distributed among these distances:
101 60 0.53
102 8 0.07
103 17 0.15
104 28 0.25
ACGTcount: A:0.42, C:0.14, G:0.19, T:0.25
Consensus pattern (103 bp):
CAAAATTTGTTTTAAGAGAAACTGTCTCAAGGGAGACAAAAATTGTTTAAAGGGAAACAGACTCA
AAGATTCTGTGTTCAACAAAAAACTGTCTCAAGAGAGA
Found at i:1757558 original size:37 final size:36
Alignment explanation
Indices: 1757510--1757586 Score: 109
Period size: 37 Copynumber: 2.1 Consensus size: 36
1757500 TTTCAAGAAA
* *
1757510 AAACTGTCTCAAGAGAGACAAAACTTTGTTTTAAGAG
1 AAACTGTCTCAAGAGAGACAAAA-ATTGTTTAAAGAG
* *
1757547 AAACTGTCTCAAGGGAGACAAAAATTGTTTAAAGGG
1 AAACTGTCTCAAGAGAGACAAAAATTGTTTAAAGAG
1757583 AAAC
1 AAAC
1757587 AGACTCAAAG
Statistics
Matches: 36, Mismatches: 4, Indels: 1
0.88 0.10 0.02
Matches are distributed among these distances:
36 14 0.39
37 22 0.61
ACGTcount: A:0.43, C:0.13, G:0.21, T:0.23
Consensus pattern (36 bp):
AAACTGTCTCAAGAGAGACAAAAATTGTTTAAAGAG
Found at i:1757558 original size:65 final size:65
Alignment explanation
Indices: 1757369--1757550 Score: 235
Period size: 65 Copynumber: 2.8 Consensus size: 65
1757359 TTTAGGGATG
* *
1757369 ATGTTTCAAGAGAAACCGTCTCAAGAGAGACAAAACTTGTTTCAAAG-GAAACAAACTCAAAGAT
1 ATGTTTCAAGAGAAACTGTCTCAAGAGAGACAAAACTTGTTT-AAAGAGAAACAGACTCAAAGAT
1757433 T
65 T
* * * *
1757434 ATGTTTTAAGAGACACTGTCTCAAGTGAGACAAAACTTGTTTAAAGGGAAACAGACTCAAAGA-T
1 ATGTTTCAAGAGAAACTGTCTCAAGAGAGACAAAACTTGTTTAAAGAGAAACAGACTCAAAGATT
* * *
1757498 CT-TTTCAAGAAAAAACTGTCTCAAGAGAGACAAAACTTTGTTTTAAGAGAAAC
1 ATGTTTCAAG-AGAAACTGTCTCAAGAGAGACAAAAC-TTGTTTAAAGAGAAAC
1757551 TGTCTCAAGG
Statistics
Matches: 102, Mismatches: 12, Indels: 6
0.85 0.10 0.05
Matches are distributed among these distances:
63 6 0.06
64 29 0.28
65 67 0.66
ACGTcount: A:0.43, C:0.15, G:0.18, T:0.24
Consensus pattern (65 bp):
ATGTTTCAAGAGAAACTGTCTCAAGAGAGACAAAACTTGTTTAAAGAGAAACAGACTCAAAGATT
Found at i:1758920 original size:12 final size:12
Alignment explanation
Indices: 1758899--1758958 Score: 54
Period size: 12 Copynumber: 5.2 Consensus size: 12
1758889 TTCTTGCCCC
1758899 TTTTTCTTTGTT
1 TTTTTCTTTGTT
*
1758911 TTTTTTTTTGTT
1 TTTTTCTTTGTT
* **
1758923 TCTTTGC-TCATT
1 T-TTTTCTTTGTT
1758935 TTTTTC--TGTT
1 TTTTTCTTTGTT
1758945 TTTTTCTTTGTT
1 TTTTTCTTTGTT
1758957 TT
1 TT
1758959 GATTTGATCT
Statistics
Matches: 37, Mismatches: 8, Indels: 6
0.73 0.16 0.12
Matches are distributed among these distances:
10 8 0.22
11 4 0.11
12 22 0.59
13 3 0.08
ACGTcount: A:0.02, C:0.10, G:0.08, T:0.80
Consensus pattern (12 bp):
TTTTTCTTTGTT
Found at i:1760361 original size:12 final size:12
Alignment explanation
Indices: 1760341--1760381 Score: 55
Period size: 12 Copynumber: 3.4 Consensus size: 12
1760331 TTAATTTAAA
*
1760341 TTTTCGTGTAAT
1 TTTTAGTGTAAT
1760353 TTTTAGTGTAAT
1 TTTTAGTGTAAT
* *
1760365 TTTTAGTTTTAT
1 TTTTAGTGTAAT
1760377 TTTTA
1 TTTTA
1760382 AATAATAATT
Statistics
Matches: 26, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
12 26 1.00
ACGTcount: A:0.20, C:0.02, G:0.12, T:0.66
Consensus pattern (12 bp):
TTTTAGTGTAAT
Found at i:1762552 original size:13 final size:14
Alignment explanation
Indices: 1762494--1762603 Score: 57
Period size: 14 Copynumber: 7.5 Consensus size: 14
1762484 AATGAATTTT
*
1762494 ATATTTAAATATTAA
1 ATATTAAAATA-TAA
*
1762509 A-ATAAAAAT-TAA
1 ATATTAAAATATAA
* *
1762521 ATATT-TAATTTAA
1 ATATTAAAATATAA
1762534 ATATTAAAATATAA
1 ATATTAAAATATAA
1762548 A-ATTAAAGATTTCATTTAA
1 ATATTAAA-A--T-A--TAA
*
1762567 ATATTAAAATAAAA
1 ATATTAAAATATAA
*
1762581 ATAATTAAATATAAAA
1 AT-ATTAAA-ATATAA
1762597 ATATTAA
1 ATATTAA
1762604 TATTATTCAC
Statistics
Matches: 76, Mismatches: 7, Indels: 24
0.71 0.07 0.22
Matches are distributed among these distances:
12 7 0.09
13 16 0.21
14 18 0.24
15 12 0.16
16 10 0.13
17 2 0.03
19 5 0.07
20 6 0.08
ACGTcount: A:0.60, C:0.01, G:0.01, T:0.38
Consensus pattern (14 bp):
ATATTAAAATATAA
Found at i:1762565 original size:33 final size:32
Alignment explanation
Indices: 1762491--1762582 Score: 148
Period size: 33 Copynumber: 2.8 Consensus size: 32
1762481 TACAATGAAT
*
1762491 TTTATATTTAAATATTAAAATAAAAATTAAATA
1 TTTA-ATTTAAATATTAAAATAAAAATTAAAGA
1762524 TTTAATTTAAATATTAAAATATAAAATTAAAGA
1 TTTAATTTAAATATTAAAATA-AAAATTAAAGA
*
1762557 TTTCATTTAAATATTAAAATAAAAAT
1 TTTAATTTAAATATTAAAATAAAAAT
1762583 AATTAAATAT
Statistics
Matches: 56, Mismatches: 2, Indels: 3
0.92 0.03 0.05
Matches are distributed among these distances:
32 22 0.39
33 34 0.61
ACGTcount: A:0.57, C:0.01, G:0.01, T:0.41
Consensus pattern (32 bp):
TTTAATTTAAATATTAAAATAAAAATTAAAGA
Found at i:1762589 original size:15 final size:15
Alignment explanation
Indices: 1762565--1762603 Score: 62
Period size: 15 Copynumber: 2.6 Consensus size: 15
1762555 GATTTCATTT
1762565 AAATATTAAA-ATAA
1 AAATATTAAATATAA
1762579 AAATAATTAAATATAA
1 AAAT-ATTAAATATAA
1762595 AAATATTAA
1 AAATATTAA
1762604 TATTATTCAC
Statistics
Matches: 23, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
14 4 0.17
15 11 0.48
16 8 0.35
ACGTcount: A:0.69, C:0.00, G:0.00, T:0.31
Consensus pattern (15 bp):
AAATATTAAATATAA
Found at i:1762670 original size:11 final size:11
Alignment explanation
Indices: 1762654--1762866 Score: 94
Period size: 11 Copynumber: 17.7 Consensus size: 11
1762644 AAATAATCAA
*
1762654 TATTAAATTAC
1 TATTAAATTAT
*
1762665 TATTAAATCAT
1 TATTAAATTAT
*
1762676 TATTAGTATTCAT
1 TATTA-AATT-AT
1762689 TATTAAATTAT
1 TATTAAATTAT
1762700 TATTACTAATTAT
1 TATTA--AATTAT
1762713 TA-TAAATTCAT
1 TATTAAATT-AT
*
1762724 TATTAGTAATCAT
1 TATTA--AATTAT
*
1762737 TATTAGTAATCAT
1 TATTA--AATTAT
*
1762750 TATTAAATCAT
1 TATTAAATTAT
*
1762761 TAGTATCAAATAAT
1 TA-T-T-AAATTAT
1762775 TA--AATTATTAT
1 TATTAA--ATTAT
1762786 TATTAAATTAT
1 TATTAAATTAT
1762797 TA--AATATTAT
1 TATTAA-ATTAT
*
1762807 TATTAAATCTTTAG
1 TATTAAA---TTAT
*
1762821 TATTAAATCATTAG
1 TATT-AA--ATTAT
*
1762835 TATTAAATCAT
1 TATTAAATTAT
1762846 TATTAGTAATTAT
1 TATTA--AATTAT
1762859 TATTAAAT
1 TATTAAAT
1762867 CAATAGCATT
Statistics
Matches: 164, Mismatches: 12, Indels: 52
0.72 0.05 0.23
Matches are distributed among these distances:
9 4 0.02
10 11 0.07
11 58 0.35
12 12 0.07
13 50 0.30
14 26 0.16
15 2 0.01
17 1 0.01
ACGTcount: A:0.43, C:0.06, G:0.03, T:0.48
Consensus pattern (11 bp):
TATTAAATTAT
Found at i:1762690 original size:13 final size:13
Alignment explanation
Indices: 1762672--1762754 Score: 77
Period size: 13 Copynumber: 6.7 Consensus size: 13
1762662 TACTATTAAA
1762672 TCATTATTAGTAT
1 TCATTATTAGTAT
*
1762685 TCATTATTA-AAT
1 TCATTATTAGTAT
*
1762697 T-ATTATTACTAAT
1 TCATTATTAGT-AT
*
1762710 T-ATTA-TA-AAT
1 TCATTATTAGTAT
*
1762720 TCATTATTAGTAA
1 TCATTATTAGTAT
*
1762733 TCATTATTAGTAA
1 TCATTATTAGTAT
1762746 TCATTATTA
1 TCATTATTA
1762755 AATCATTAGT
Statistics
Matches: 60, Mismatches: 5, Indels: 10
0.80 0.07 0.13
Matches are distributed among these distances:
10 3 0.05
11 11 0.18
12 7 0.12
13 39 0.65
ACGTcount: A:0.39, C:0.07, G:0.04, T:0.51
Consensus pattern (13 bp):
TCATTATTAGTAT
Found at i:1762696 original size:24 final size:23
Alignment explanation
Indices: 1762660--1762868 Score: 129
Period size: 24 Copynumber: 8.7 Consensus size: 23
1762650 TCAATATTAA
*
1762660 ATTACTATTAAATCATTATTAGT
1 ATTATTATTAAATCATTATTAGT
* *
1762683 ATTCATTATTAAATTATTATTACT
1 ATT-ATTATTAAATCATTATTAGT
1762707 AATTATTA-TAAATTCATTATTAGT
1 -ATTATTATTAAA-TCATTATTAGT
* *
1762731 AATCATTATTAGTAATCATTATTAAAT
1 -ATTATTATTA--AATCATTATT-AGT
* * * * *
1762758 CATTAGTATCAAATAATTA-AATT
1 -ATTATTATTAAATCATTATTAGT
* *
1762781 ATTATTATTAAATTATTA--AAT
1 ATTATTATTAAATCATTATTAGT
* *
1762802 ATTATTATTAAATCTTTAGTATTAAAT
1 ATTATTATTAAATC---ATTATT-AGT
*
1762829 CATTAGTATTAAATCATTATTAGT
1 -ATTATTATTAAATCATTATTAGT
1762853 AATTATTATTAAATCA
1 -ATTATTATTAAATCA
1762869 ATAGCATTAA
Statistics
Matches: 147, Mismatches: 25, Indels: 27
0.74 0.13 0.14
Matches are distributed among these distances:
21 15 0.10
22 15 0.10
23 9 0.06
24 56 0.38
25 17 0.12
26 8 0.05
27 14 0.10
28 13 0.09
ACGTcount: A:0.43, C:0.06, G:0.03, T:0.48
Consensus pattern (23 bp):
ATTATTATTAAATCATTATTAGT
Found at i:1762779 original size:8 final size:8
Alignment explanation
Indices: 1762768--1762814 Score: 50
Period size: 8 Copynumber: 6.5 Consensus size: 8
1762758 CATTAGTATC
*
1762768 AAATAATT
1 AAATTATT
1762776 AAATTATT
1 AAATTATT
1762784 --ATTATT
1 AAATTATT
1762790 AAATTATT
1 AAATTATT
1762798 AAA-TATT
1 AAATTATT
1762805 --ATTATT
1 AAATTATT
1762811 AAAT
1 AAAT
1762815 CTTTAGTATT
Statistics
Matches: 33, Mismatches: 1, Indels: 10
0.75 0.02 0.23
Matches are distributed among these distances:
5 1 0.03
6 10 0.30
7 4 0.12
8 18 0.55
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (8 bp):
AAATTATT
Found at i:1762790 original size:14 final size:14
Alignment explanation
Indices: 1762773--1762863 Score: 65
Period size: 14 Copynumber: 7.1 Consensus size: 14
1762763 GTATCAAATA
1762773 ATTAAATTATTATT
1 ATTAAATTATTATT
1762787 ATT-AA--A-T-T-
1 ATTAAATTATTATT
1762795 ATTAAA-TATTATT
1 ATTAAATTATTATT
*
1762808 ATTAAATCT-TTAGT
1 ATTAAAT-TATTATT
* *
1762822 ATTAAATCATTAGT
1 ATTAAATTATTATT
*
1762836 ATTAAATCATTATT
1 ATTAAATTATTATT
*
1762850 AGT-AATTATTATT
1 ATTAAATTATTATT
1762863 A
1 A
1762864 AATCAATAGC
Statistics
Matches: 64, Mismatches: 5, Indels: 17
0.74 0.06 0.20
Matches are distributed among these distances:
8 3 0.05
9 3 0.05
10 2 0.03
11 2 0.03
12 1 0.02
13 18 0.28
14 34 0.53
15 1 0.02
ACGTcount: A:0.43, C:0.03, G:0.03, T:0.51
Consensus pattern (14 bp):
ATTAAATTATTATT
Found at i:1762861 original size:52 final size:49
Alignment explanation
Indices: 1762773--1762884 Score: 134
Period size: 52 Copynumber: 2.2 Consensus size: 49
1762763 GTATCAAATA
* * * ** *
1762773 ATTAAATTATTATTATTAAATTATTAAATATTATTATTAAATCTTTAGT
1 ATTAAATCATTAGTATTAAATCATTAAATATTATTATTAAATCAATAGC
*
1762822 ATTAAATCATTAGTATTAAATCATTATTAGTAATTATTATTAAATCAATAGC
1 ATTAAATCATTAGTATTAAATCATTA--AAT-ATTATTATTAAATCAATAGC
1762874 ATTAAATCATT
1 ATTAAATCATT
1762885 TCATTATTAT
Statistics
Matches: 53, Mismatches: 7, Indels: 3
0.84 0.11 0.05
Matches are distributed among these distances:
49 23 0.43
51 2 0.04
52 28 0.53
ACGTcount: A:0.44, C:0.05, G:0.04, T:0.47
Consensus pattern (49 bp):
ATTAAATCATTAGTATTAAATCATTAAATATTATTATTAAATCAATAGC
Found at i:1762922 original size:43 final size:40
Alignment explanation
Indices: 1762821--1762918 Score: 98
Period size: 38 Copynumber: 2.5 Consensus size: 40
1762811 AAATCTTTAG
*
1762821 TATTAAATCATT-AGT-ATTAAATCATTATTAGTAATTAT
1 TATTAAATCATTAAATCATTAAATCATTATTAGTAATTAT
* * *
1762859 TATTAAATCA--ATAGCATTAAATCATTTCATTA-TTATTAAT
1 TATTAAATCATTAAATCATTAAATCA-TT-ATTAGTAATT-AT
1762899 TATTAAATCATTAAATCATT
1 TATTAAATCATTAAATCATT
1762919 TAAAAACATT
Statistics
Matches: 47, Mismatches: 6, Indels: 10
0.75 0.10 0.16
Matches are distributed among these distances:
38 19 0.40
39 6 0.13
40 16 0.34
42 6 0.13
ACGTcount: A:0.43, C:0.08, G:0.03, T:0.46
Consensus pattern (40 bp):
TATTAAATCATTAAATCATTAAATCATTATTAGTAATTAT
Found at i:1765263 original size:14 final size:14
Alignment explanation
Indices: 1765244--1765293 Score: 57
Period size: 14 Copynumber: 3.6 Consensus size: 14
1765234 CTAATTCTCC
1765244 AATTAATTTGAGAA
1 AATTAATTTGAGAA
****
1765258 AATTAATTT-CTCC
1 AATTAATTTGAGAA
1765271 AATTAATTTGAGAA
1 AATTAATTTGAGAA
1765285 AATTAATTT
1 AATTAATTT
1765294 CTCCAGTTAA
Statistics
Matches: 27, Mismatches: 8, Indels: 2
0.73 0.22 0.05
Matches are distributed among these distances:
13 9 0.33
14 18 0.67
ACGTcount: A:0.44, C:0.06, G:0.08, T:0.42
Consensus pattern (14 bp):
AATTAATTTGAGAA
Found at i:1765272 original size:27 final size:27
Alignment explanation
Indices: 1765238--1765306 Score: 129
Period size: 27 Copynumber: 2.6 Consensus size: 27
1765228 AACCACCTAA
1765238 TTCTCCAATTAATTTGAGAAAATTAAT
1 TTCTCCAATTAATTTGAGAAAATTAAT
1765265 TTCTCCAATTAATTTGAGAAAATTAAT
1 TTCTCCAATTAATTTGAGAAAATTAAT
*
1765292 TTCTCCAGTTAATTT
1 TTCTCCAATTAATTT
1765307 CGCTCTCGCT
Statistics
Matches: 41, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
27 41 1.00
ACGTcount: A:0.36, C:0.13, G:0.07, T:0.43
Consensus pattern (27 bp):
TTCTCCAATTAATTTGAGAAAATTAAT
Found at i:1765317 original size:6 final size:6
Alignment explanation
Indices: 1765306--1765372 Score: 134
Period size: 6 Copynumber: 11.2 Consensus size: 6
1765296 CCAGTTAATT
1765306 TCGCTC TCGCTC TCGCTC TCGCTC TCGCTC TCGCTC TCGCTC TCGCTC
1 TCGCTC TCGCTC TCGCTC TCGCTC TCGCTC TCGCTC TCGCTC TCGCTC
1765354 TCGCTC TCGCTC TCGCTC T
1 TCGCTC TCGCTC TCGCTC T
1765373 TTTCCCTACA
Statistics
Matches: 61, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 61 1.00
ACGTcount: A:0.00, C:0.49, G:0.16, T:0.34
Consensus pattern (6 bp):
TCGCTC
Found at i:1765632 original size:23 final size:23
Alignment explanation
Indices: 1765602--1765653 Score: 104
Period size: 23 Copynumber: 2.3 Consensus size: 23
1765592 TTTTTTATTC
1765602 TATCCACTACATGTGTTTGTATA
1 TATCCACTACATGTGTTTGTATA
1765625 TATCCACTACATGTGTTTGTATA
1 TATCCACTACATGTGTTTGTATA
1765648 TATCCA
1 TATCCA
1765654 AAATCTGATG
Statistics
Matches: 29, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
23 29 1.00
ACGTcount: A:0.27, C:0.19, G:0.12, T:0.42
Consensus pattern (23 bp):
TATCCACTACATGTGTTTGTATA
Found at i:1776599 original size:16 final size:16
Alignment explanation
Indices: 1776567--1776611 Score: 63
Period size: 16 Copynumber: 2.8 Consensus size: 16
1776557 ATTTCAATTC
1776567 AAATTTTTATAACTTTA
1 AAATTTTTAT-ACTTTA
*
1776584 AAATTTTTATATTTTA
1 AAATTTTTATACTTTA
*
1776600 AAATTTATATAC
1 AAATTTTTATAC
1776612 GTCATAGTTA
Statistics
Matches: 25, Mismatches: 3, Indels: 1
0.86 0.10 0.03
Matches are distributed among these distances:
16 15 0.60
17 10 0.40
ACGTcount: A:0.42, C:0.04, G:0.00, T:0.53
Consensus pattern (16 bp):
AAATTTTTATACTTTA
Found at i:1777439 original size:146 final size:146
Alignment explanation
Indices: 1777235--1777523 Score: 569
Period size: 146 Copynumber: 2.0 Consensus size: 146
1777225 ACTAGATTAG
1777235 TGAGAATGCAAAATAAAAGCGGAAAAATAATACGCAAATTGATAACGGAATTCAGCTAATTATGC
1 TGAGAATGCAAAATAAAAGCGGAAAAATAATACGCAAATTGATAACGGAATTCAGCTAATTATGC
*
1777300 CTACGTTTCGGGACTGCTGCAAATCTTTTACTAAGAGAGAAAATTTACAAGTGTTTACAAAACAC
66 CTACGTTTCCGGACTGCTGCAAATCTTTTACTAAGAGAGAAAATTTACAAGTGTTTACAAAACAC
1777365 TCACTACTTACAATAA
131 TCACTACTTACAATAA
1777381 TGAGAATGCAAAATAAAAGCGGAAAAATAATACGCAAATTGATAACGGAATTCAGCTAATTATGC
1 TGAGAATGCAAAATAAAAGCGGAAAAATAATACGCAAATTGATAACGGAATTCAGCTAATTATGC
1777446 CTACGTTTCCGGACTGCTGCAAATCTTTTACTAAGAGAGAAAATTTACAAGTGTTTACAAAACAC
66 CTACGTTTCCGGACTGCTGCAAATCTTTTACTAAGAGAGAAAATTTACAAGTGTTTACAAAACAC
1777511 TCACTACTTACAA
131 TCACTACTTACAA
1777524 GAAAACTCTC
Statistics
Matches: 142, Mismatches: 1, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
146 142 1.00
ACGTcount: A:0.42, C:0.17, G:0.16, T:0.26
Consensus pattern (146 bp):
TGAGAATGCAAAATAAAAGCGGAAAAATAATACGCAAATTGATAACGGAATTCAGCTAATTATGC
CTACGTTTCCGGACTGCTGCAAATCTTTTACTAAGAGAGAAAATTTACAAGTGTTTACAAAACAC
TCACTACTTACAATAA
Found at i:1781035 original size:53 final size:53
Alignment explanation
Indices: 1780963--1781069 Score: 214
Period size: 53 Copynumber: 2.0 Consensus size: 53
1780953 CCTTCTTATA
1780963 GCAGTTATAACAGGTAAAATCGTTTTTTTTTCATTCTTGATTTTCCCCTTCTG
1 GCAGTTATAACAGGTAAAATCGTTTTTTTTTCATTCTTGATTTTCCCCTTCTG
1781016 GCAGTTATAACAGGTAAAATCGTTTTTTTTTCATTCTTGATTTTCCCCTTCTG
1 GCAGTTATAACAGGTAAAATCGTTTTTTTTTCATTCTTGATTTTCCCCTTCTG
1781069 G
1 G
1781070 ATTTGGATCT
Statistics
Matches: 54, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
53 54 1.00
ACGTcount: A:0.21, C:0.19, G:0.14, T:0.47
Consensus pattern (53 bp):
GCAGTTATAACAGGTAAAATCGTTTTTTTTTCATTCTTGATTTTCCCCTTCTG
Found at i:1792675 original size:225 final size:226
Alignment explanation
Indices: 1792284--1792736 Score: 899
Period size: 225 Copynumber: 2.0 Consensus size: 226
1792274 CCATTATCAC
1792284 CACTTTAGCCGGTACTTAGTCTGTCATATTTTCCTTTGAGGTAATTATCAAGGGGTAGCTCGCAC
1 CACTTTAGCCGGTACTTAGTCTGTCATATTTTCCTTTGAGGTAATTATCAAGGGGTAGCTCGCAC
1792349 CGTATCCCTTTTTAGATGCATCTCCAATTGTATAAACATCCGCCTCTGGAGTGTCCTTACTTTCC
66 CGTATCCCTTTTTAGATGCATCTCCAATTGTATAAACATCCGCCTCTGGAGTGTCCTTACTTTCC
1792414 TCGTAAAATTGTAGCTACTTTCTATCCATTATTAGTTGGATCAAGGCTCTAAATTCGACACATTC
131 TCGTAAAATTGTAGCTACTTTCTATCCATTATTAGTTGGATCAAGGCTCTAAATTCGACACATTC
1792479 TTATACATAATG-TTATCCTCATTGTGATAA
196 TTATACATAATGTTTATCCTCATTGTGATAA
1792509 CACTTTAGCCGGTACTTAGTCTGTCATATTTTCCTTTGAGGTAATTATCAAGGGGTAGCTCGCAC
1 CACTTTAGCCGGTACTTAGTCTGTCATATTTTCCTTTGAGGTAATTATCAAGGGGTAGCTCGCAC
1792574 CGTATCCCTTTTTAGATGCATCTCCAATTGTATAAACATCCGCCTCTGGAGTGTCCTTACTTTCC
66 CGTATCCCTTTTTAGATGCATCTCCAATTGTATAAACATCCGCCTCTGGAGTGTCCTTACTTTCC
1792639 TCGTAAAATTGTAGCTACTTTCTATCCATTATTAGTTGGATCAAGGCTCTAAATTCGACACATTC
131 TCGTAAAATTGTAGCTACTTTCTATCCATTATTAGTTGGATCAAGGCTCTAAATTCGACACATTC
1792704 TTATACATAATGTTTATCCTCATTGTGATAA
196 TTATACATAATGTTTATCCTCATTGTGATAA
1792735 CA
1 CA
1792737 ACAATGACTG
Statistics
Matches: 227, Mismatches: 0, Indels: 1
1.00 0.00 0.00
Matches are distributed among these distances:
225 207 0.91
226 20 0.09
ACGTcount: A:0.25, C:0.22, G:0.15, T:0.37
Consensus pattern (226 bp):
CACTTTAGCCGGTACTTAGTCTGTCATATTTTCCTTTGAGGTAATTATCAAGGGGTAGCTCGCAC
CGTATCCCTTTTTAGATGCATCTCCAATTGTATAAACATCCGCCTCTGGAGTGTCCTTACTTTCC
TCGTAAAATTGTAGCTACTTTCTATCCATTATTAGTTGGATCAAGGCTCTAAATTCGACACATTC
TTATACATAATGTTTATCCTCATTGTGATAA
Found at i:1796223 original size:25 final size:25
Alignment explanation
Indices: 1796177--1796233 Score: 62
Period size: 25 Copynumber: 2.3 Consensus size: 25
1796167 ATTTGCTGAC
* *
1796177 TTGTTGTTGTTGTTCTACGTTTGTT
1 TTGTTGTTGTTGTGCGACGTTTGTT
* *
1796202 TTGTTTTTGTTGTGCGATGTTT-TT
1 TTGTTGTTGTTGTGCGACGTTTGTT
*
1796226 TTTTTGTT
1 TTGTTGTT
1796234 TTCTTCGATA
Statistics
Matches: 26, Mismatches: 6, Indels: 1
0.79 0.18 0.03
Matches are distributed among these distances:
24 8 0.31
25 18 0.69
ACGTcount: A:0.04, C:0.05, G:0.23, T:0.68
Consensus pattern (25 bp):
TTGTTGTTGTTGTGCGACGTTTGTT
Found at i:1805517 original size:40 final size:40
Alignment explanation
Indices: 1805421--1805521 Score: 105
Period size: 40 Copynumber: 2.5 Consensus size: 40
1805411 ATGATAACAT
*
1805421 GGTTCCTACGTGATGAGGACGACTGGTTATCAAGGGTGACAC
1 GGTTCCTACGTGATGAGGACGACTGG-T-TCAAGGGAGACAC
** * * * *
1805463 GACTCCTACTTGATGAGGAGGTCTGG-TCAGGGGAAGACAC
1 GGTTCCTACGTGATGAGGACGACTGGTTCAAGGG-AGACAC
1805503 GGTTCCTACGTGATGAGGA
1 GGTTCCTACGTGATGAGGA
1805522 TGGTTGGCCA
Statistics
Matches: 48, Mismatches: 10, Indels: 4
0.77 0.16 0.06
Matches are distributed among these distances:
39 6 0.12
40 21 0.44
42 21 0.44
ACGTcount: A:0.24, C:0.19, G:0.35, T:0.23
Consensus pattern (40 bp):
GGTTCCTACGTGATGAGGACGACTGGTTCAAGGGAGACAC
Found at i:1805680 original size:31 final size:31
Alignment explanation
Indices: 1805612--1805676 Score: 78
Period size: 31 Copynumber: 2.1 Consensus size: 31
1805602 GACAAAATTC
** * * *
1805612 GTTTCAAGGGAAATGATCTCAAAGATGTTTT
1 GTTTCAAGGGAAACAAACTCAAAGATATTGT
1805643 GTTTCAAGGGAAACAAACTCAAAGATA-TGT
1 GTTTCAAGGGAAACAAACTCAAAGATATTGT
1805673 GTTT
1 GTTT
1805677 TCAAAAGAAA
Statistics
Matches: 29, Mismatches: 5, Indels: 1
0.83 0.14 0.03
Matches are distributed among these distances:
30 6 0.21
31 23 0.79
ACGTcount: A:0.35, C:0.11, G:0.22, T:0.32
Consensus pattern (31 bp):
GTTTCAAGGGAAACAAACTCAAAGATATTGT
Found at i:1805715 original size:66 final size:63
Alignment explanation
Indices: 1805640--1806128 Score: 330
Period size: 66 Copynumber: 7.4 Consensus size: 63
1805630 TCAAAGATGT
*
1805640 TTTGTTTCAAGGGAAACAAACTCAAAGATATGTGTTTTCAAAAGAAAATGTCTC-GAGAGACAAC
1 TTTGTTTCAA-GGAAACAAACTCAAAGAT-T-TGTTTTCAAAAGAAACTGTCTCAGAGAGACAA-
*
1805704 AT
62 AA
* * *
1805706 TTTGTTTCAAAGGAAACAAACTCAAAGATTTTGTGTTTCCAAAGAAACTGCCTCAAGAGAGATAA
1 TTTGTTTC-AAGGAAACAAACTCAAAGA-TTTGT-TTTCAAAAGAAACTGTCTC-AGAGAGACAA
1805771 AA
62 AA
** * * * *
1805773 TTTGTTTCAATGGAAATGATCTCAAAGATGTTCGTTTT-AAGAGAAACGGTCTCAAGAGAGTCAA
1 TTTGTTTCAA-GGAAACAAACTCAAAGAT-TT-GTTTTCAAAAGAAACTGTCTC-AGAGAGACAA
1805837 AA
62 AA
* * * *
1805839 CTTTGTTTTCATA-GAATCAGACTCAAAGATTT-TTCTTCAAAAGAAACTGTCTCAATAAAGACA
1 -TTTG-TTTCA-AGGAAACAAACTCAAAGATTTGTT-TTCAAAAGAAACTGTCTC-AGAGAGACA
1805902 AAA
61 AAA
* * * *
1805905 TTTGTTTCCAAAGAAATAGACTCAAAGATTT-TTCTCAAAAGAAACTGTCTCAAGAGAGACAAAA
1 TTTGTTT-CAAGGAAACAAACTCAAAGATTTGTTTTCAAAAGAAACTGTCTC-AGAGAGAC-AAA
1805969 A
63 A
* * ** ** *
1805970 TTTGTTTCAAAAGAAAC-AACTCAAAGATGGGTTTTGTTTCAAGGGAAACAATCTCAAAG-GTAT
1 TTTGTTTC-AAGGAAACAAACTCAAAGAT---TTGT-TTTCAAAAGAAACTGTCTCAGAGAG-A-
* *
1806033 TAAAT
59 CAAAA
* * * * *
1806038 TTTGTTTCCAAAGAAACAAACTCAAAGATTT-TTCTAAAAAGAAATTGTCTCAAGAGAGATAAAA
1 TTTGTTT-CAAGGAAACAAACTCAAAGATTTGTTTTCAAAAGAAACTGTCTC-AGAGAGACAAAA
*
1806102 CTTTGTTTCACGAGAAAC-AACTCAAAG
1 -TTTGTTTCAAG-GAAACAAACTCAAAG
1806129 GATACTGATA
Statistics
Matches: 343, Mismatches: 50, Indels: 62
0.75 0.11 0.14
Matches are distributed among these distances:
64 68 0.20
65 65 0.19
66 95 0.28
67 50 0.15
68 38 0.11
69 27 0.08
ACGTcount: A:0.41, C:0.14, G:0.16, T:0.29
Consensus pattern (63 bp):
TTTGTTTCAAGGAAACAAACTCAAAGATTTGTTTTCAAAAGAAACTGTCTCAGAGAGACAAAA
Found at i:1806006 original size:32 final size:32
Alignment explanation
Indices: 1805970--1806066 Score: 95
Period size: 36 Copynumber: 2.9 Consensus size: 32
1805960 GAGACAAAAA
***
1805970 TTTGTTTCAAAAGAAACAACTCAAAGATGGGT
1 TTTGTTTCAAAAGAAACAACTCAAAGATAAAT
**
1806002 TTTGTTTCAAGGGAAACAATCTCAAAGGTATTAAAT
1 TTTGTTTCAAAAGAAACAA-CTCAAA-G-A-TAAAT
*
1806038 TTTGTTTCCAAAGAAACAAACTCAAAGAT
1 TTTGTTTCAAAAGAAAC-AACTCAAAGAT
1806067 TTTTCTAAAA
Statistics
Matches: 52, Mismatches: 8, Indels: 9
0.75 0.12 0.13
Matches are distributed among these distances:
32 17 0.33
33 7 0.13
34 2 0.04
35 2 0.04
36 22 0.42
37 2 0.04
ACGTcount: A:0.41, C:0.13, G:0.15, T:0.30
Consensus pattern (32 bp):
TTTGTTTCAAAAGAAACAACTCAAAGATAAAT
Found at i:1806266 original size:32 final size:33
Alignment explanation
Indices: 1806211--1806277 Score: 100
Period size: 32 Copynumber: 2.1 Consensus size: 33
1806201 ATTGAAACCC
* *
1806211 CAAAGATGCCCCAACATTCGATGTTGATTGCTT
1 CAAAGACGCCCCAACATTAGATGTTGATTGCTT
*
1806244 CAAAGACG-CCCAATATTAGATGTTGATTGCTT
1 CAAAGACGCCCCAACATTAGATGTTGATTGCTT
1806276 CA
1 CA
1806278 GCACTGATTC
Statistics
Matches: 31, Mismatches: 3, Indels: 1
0.89 0.09 0.03
Matches are distributed among these distances:
32 24 0.77
33 7 0.23
ACGTcount: A:0.30, C:0.22, G:0.18, T:0.30
Consensus pattern (33 bp):
CAAAGACGCCCCAACATTAGATGTTGATTGCTT
Found at i:1807371 original size:17 final size:16
Alignment explanation
Indices: 1807324--1807432 Score: 86
Period size: 17 Copynumber: 6.9 Consensus size: 16
1807314 TTTTATTCTC
*
1807324 TTTCTTTGAT-TTTTT
1 TTTCTTTGCTCTTTTT
* *
1807339 TCTCTTTG-T-TTCTT
1 TTTCTTTGCTCTTTTT
1807353 TTTCTTTGCTCTTTGTT
1 TTTCTTTGCTCTTT-TT
* *
1807370 TTTCTTTGTTGTTTTT
1 TTTCTTTGCTCTTTTT
1807386 CTTTCTTTG--C-TTTT
1 -TTTCTTTGCTCTTTTT
*
1807400 TCTCTTTGCTCTTTGTT
1 TTTCTTTGCTCTTT-TT
1807417 TTTCTTTGCTTCTTTT
1 TTTCTTTGC-TCTTTT
1807433 CTCTTTGTTT
Statistics
Matches: 76, Mismatches: 9, Indels: 16
0.75 0.09 0.16
Matches are distributed among these distances:
13 7 0.09
14 16 0.21
15 9 0.12
16 6 0.08
17 33 0.43
18 5 0.07
ACGTcount: A:0.01, C:0.17, G:0.09, T:0.73
Consensus pattern (16 bp):
TTTCTTTGCTCTTTTT
Found at i:1807382 original size:34 final size:34
Alignment explanation
Indices: 1807335--1807443 Score: 107
Period size: 34 Copynumber: 3.1 Consensus size: 34
1807325 TTCTTTGATT
*
1807335 TTTTTCTCT-TTGTTTCTTTTTCTTTGCTCTTTG
1 TTTTTCTTTGTTGTTTCTTTTTCTTTGCTCTTTG
* *
1807368 TTTTTCTTTGTTGTTT-TTCTTTCTTTGCTTTTTC
1 TTTTTCTTTGTTGTTTCTT-TTTCTTTGCTCTTTG
*
1807402 TCTTTGCTCTTTGTT-TTTCTTTGCTTCTTTTCTCTTTG
1 T-TTT--TCTTTGTTGTTTCTTT--TTCTTTGCTCTTTG
1807440 TTTT
1 TTTT
1807444 GATTTGATCT
Statistics
Matches: 62, Mismatches: 6, Indels: 12
0.77 0.08 0.15
Matches are distributed among these distances:
33 10 0.16
34 20 0.32
35 3 0.05
36 4 0.06
37 13 0.21
38 12 0.19
ACGTcount: A:0.00, C:0.17, G:0.09, T:0.73
Consensus pattern (34 bp):
TTTTTCTTTGTTGTTTCTTTTTCTTTGCTCTTTG
Found at i:1807409 original size:47 final size:48
Alignment explanation
Indices: 1807324--1807434 Score: 149
Period size: 47 Copynumber: 2.4 Consensus size: 48
1807314 TTTTATTCTC
* *
1807324 TTTCTTTGATTTTTTTC--TCTTTGTTTCTTTTTCTTTGCTCTTTGTT
1 TTTCTTTGATTTTTTTCTTTCTTTGCTTCTTTCTCTTTGCTCTTTGTT
1807370 TTTCTTTG-TTGTTTTTCTTTCTTTGCTT-TTTCTCTTTGCTCTTTGTT
1 TTTCTTTGATT-TTTTTCTTTCTTTGCTTCTTTCTCTTTGCTCTTTGTT
* *
1807417 TTTCTTTGCTTCTTTTCT
1 TTTCTTTGATTTTTTTCT
1807435 CTTTGTTTTG
Statistics
Matches: 58, Mismatches: 3, Indels: 7
0.85 0.04 0.10
Matches are distributed among these distances:
45 2 0.03
46 14 0.24
47 32 0.55
48 10 0.17
ACGTcount: A:0.01, C:0.17, G:0.09, T:0.73
Consensus pattern (48 bp):
TTTCTTTGATTTTTTTCTTTCTTTGCTTCTTTCTCTTTGCTCTTTGTT
Found at i:1807449 original size:25 final size:25
Alignment explanation
Indices: 1807402--1807449 Score: 69
Period size: 25 Copynumber: 1.9 Consensus size: 25
1807392 TTGCTTTTTC
**
1807402 TCTTTGCTCTTTGTTTTTCTTTGCT
1 TCTTTGCTCTTTGTTTTGATTTGCT
*
1807427 TCTTTTCTCTTTGTTTTGATTTG
1 TCTTTGCTCTTTGTTTTGATTTG
1807450 ATCTTCGCAC
Statistics
Matches: 20, Mismatches: 3, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
25 20 1.00
ACGTcount: A:0.02, C:0.17, G:0.12, T:0.69
Consensus pattern (25 bp):
TCTTTGCTCTTTGTTTTGATTTGCT
Found at i:1809034 original size:11 final size:11
Alignment explanation
Indices: 1809018--1809064 Score: 51
Period size: 11 Copynumber: 4.2 Consensus size: 11
1809008 GATATTAATA
1809018 AAATAAAATTT
1 AAATAAAATTT
1809029 AAATAAAA-TT
1 AAATAAAATTT
1809039 AAATAATAATTTT
1 AAATAA-AA-TTT
* *
1809052 TAATAATATTT
1 AAATAAAATTT
1809063 AA
1 AA
1809065 TTTTAAAATA
Statistics
Matches: 30, Mismatches: 3, Indels: 6
0.77 0.08 0.15
Matches are distributed among these distances:
10 8 0.27
11 14 0.47
12 1 0.03
13 7 0.23
ACGTcount: A:0.60, C:0.00, G:0.00, T:0.40
Consensus pattern (11 bp):
AAATAAAATTT
Found at i:1809238 original size:26 final size:26
Alignment explanation
Indices: 1809209--1809289 Score: 66
Period size: 26 Copynumber: 3.2 Consensus size: 26
1809199 AATAAAGCAA
1809209 TAAAAATACAATTAGAATGATATATT
1 TAAAAATACAATTAGAATGATATATT
* *
1809235 TAAAAGCAGTA-AAATA-AAT-A-ACGA--
1 TAAAA--A-TACAATTAGAATGATA-TATT
1809259 TAAAAATACAATTAGAATGATATATT
1 TAAAAATACAATTAGAATGATATATT
1809285 TAAAA
1 TAAAA
1809290 GCAGTAAAAT
Statistics
Matches: 41, Mismatches: 4, Indels: 20
0.63 0.06 0.31
Matches are distributed among these distances:
21 2 0.05
22 5 0.12
23 3 0.07
24 7 0.17
25 2 0.05
26 12 0.29
27 3 0.07
28 5 0.12
29 2 0.05
ACGTcount: A:0.58, C:0.05, G:0.09, T:0.28
Consensus pattern (26 bp):
TAAAAATACAATTAGAATGATATATT
Found at i:1809269 original size:50 final size:50
Alignment explanation
Indices: 1809208--1809303 Score: 192
Period size: 50 Copynumber: 1.9 Consensus size: 50
1809198 AAATAAAGCA
1809208 ATAAAAATACAATTAGAATGATATATTTAAAAGCAGTAAAATAAATAACG
1 ATAAAAATACAATTAGAATGATATATTTAAAAGCAGTAAAATAAATAACG
1809258 ATAAAAATACAATTAGAATGATATATTTAAAAGCAGTAAAATAAAT
1 ATAAAAATACAATTAGAATGATATATTTAAAAGCAGTAAAATAAAT
1809304 GAACACATTT
Statistics
Matches: 46, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
50 46 1.00
ACGTcount: A:0.58, C:0.05, G:0.09, T:0.27
Consensus pattern (50 bp):
ATAAAAATACAATTAGAATGATATATTTAAAAGCAGTAAAATAAATAACG
Found at i:1809305 original size:27 final size:27
Alignment explanation
Indices: 1809224--1809305 Score: 70
Period size: 27 Copynumber: 3.2 Consensus size: 27
1809214 ATACAATTAG
1809224 AATGATATATTTAAAAGCAGTAAAATA
1 AATGATATATTTAAAAGCAGTAAAATA
* *
1809251 AAT-A-ACGA--TAAAA--A-TACAATTA
1 AATGATA-TATTTAAAAGCAGTA-AAATA
1809273 GAATGATATATTTAAAAGCAGTAAAATA
1 -AATGATATATTTAAAAGCAGTAAAATA
1809301 AATGA
1 AATGA
1809306 ACACATTTAA
Statistics
Matches: 41, Mismatches: 4, Indels: 20
0.63 0.06 0.31
Matches are distributed among these distances:
21 2 0.05
22 5 0.12
23 3 0.07
24 7 0.17
25 2 0.05
26 7 0.17
27 8 0.20
28 5 0.12
29 2 0.05
ACGTcount: A:0.57, C:0.05, G:0.11, T:0.27
Consensus pattern (27 bp):
AATGATATATTTAAAAGCAGTAAAATA
Found at i:1810037 original size:9 final size:9
Alignment explanation
Indices: 1810019--1810058 Score: 53
Period size: 9 Copynumber: 4.3 Consensus size: 9
1810009 TCCTCGTAAG
*
1810019 TTTCTCTTC
1 TTTCTTTTC
1810028 TTTCTTTTC
1 TTTCTTTTC
*
1810037 TTTTTTTTC
1 TTTCTTTTC
1810046 TTTCTGTTTC
1 TTTCT-TTTC
1810056 TTT
1 TTT
1810059 GCTGCTGAGA
Statistics
Matches: 27, Mismatches: 3, Indels: 1
0.87 0.10 0.03
Matches are distributed among these distances:
9 20 0.74
10 7 0.26
ACGTcount: A:0.00, C:0.20, G:0.03, T:0.78
Consensus pattern (9 bp):
TTTCTTTTC
Found at i:1810588 original size:3 final size:3
Alignment explanation
Indices: 1810580--1810729 Score: 255
Period size: 3 Copynumber: 50.0 Consensus size: 3
1810570 TTAATATATT
*
1810580 TAA TAA TAA TAA TAA TAA TAA TAA TGA TAA TAA TAA TAA TAA TAA TAA
1 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA
* *
1810628 TGA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TGA TAA
1 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA
* *
1810676 TAA TAA TAA TAA TAA TAA TAA TGA TAA TAA TAA TAA TAA TAA AAA TAA
1 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA
1810724 TAA TAA
1 TAA TAA
1810730 ATCATATGGT
Statistics
Matches: 137, Mismatches: 10, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
3 137 1.00
ACGTcount: A:0.65, C:0.00, G:0.03, T:0.33
Consensus pattern (3 bp):
TAA
Found at i:1811244 original size:112 final size:113
Alignment explanation
Indices: 1810982--1811853 Score: 1156
Period size: 112 Copynumber: 7.8 Consensus size: 113
1810972 TCTTGATGAG
* * ***
1810982 TTCTTCTCATTATGAACTTCTTCATCCTTCTTTC-GATGAGTTCTTCTCA-TATGAACTTTCTCT
1 TTCTTCTCATTATGAACTTCTTCTTCCTTC-TTCAGATGAGTTCTTCTTATTATGAACTCGATCT
* * * *
1811045 AGAAAAGTTGATCCATCAAGTGATGGATTTGAGCAAAA--TCTGAACAAA
65 GGAAAAGCTAATCCATCAAGTGATAGATTTGAGCAAAAGGT-TGAACAAA
* *
1811093 TTCTTCTCATTATGAACTTCTTCATCCTTCTTCAGATGAG-TCTTCTTATTATGAACTCGAACTG
1 TTCTTCTCATTATGAACTTCTTCTTCCTTCTTCAGATGAGTTCTTCTTATTATGAACTCGATCTG
*
1811157 GAAAAGCTAATCTATCAAGTGATAGATTTGAGCAAAAGGTTGAACAAA
66 GAAAAGCTAATCCATCAAGTGATAGATTTGAGCAAAAGGTTGAACAAA
* * *
1811205 TTCTTCTCATTATGAACTTCTTCATCCTTCTTCATATGAGTTC-TCTTATTATGAACTCGAACTG
1 TTCTTCTCATTATGAACTTCTTCTTCCTTCTTCAGATGAGTTCTTCTTATTATGAACTCGATCTG
*
1811269 GAAAAGCTAATCTATCAAGTGATAGATTTGAGCAAAAGGTTGAACAAA
66 GAAAAGCTAATCCATCAAGTGATAGATTTGAGCAAAAGGTTGAACAAA
*
1811317 TTCTTCTCATTATGAACTTCTTCTTCCTTCTTCAGATGAGTTCTTCTTATTATGAACTCGAACTG
1 TTCTTCTCATTATGAACTTCTTCTTCCTTCTTCAGATGAGTTCTTCTTATTATGAACTCGATCTG
*
1811382 GAAAAGCTAATCTATCAAGTGATAGATTTGAGCAAAAGGTTGAACAAA
66 GAAAAGCTAATCCATCAAGTGATAGATTTGAGCAAAAGGTTGAACAAA
* **
1811430 TTCTTCTC-TTATGAA---CTTCTTCCTTCTTCAGATGAGTTCTTCTCATTATGAACTCTTTCTG
1 TTCTTCTCATTATGAACTTCTTCTTCCTTCTTCAGATGAGTTCTTCTTATTATGAACTCGATCTG
*
1811491 GAAAAGATAATCCATCAAGTGATAGATTTGAGCAAAAGGTTGAACAAA
66 GAAAAGCTAATCCATCAAGTGATAGATTTGAGCAAAAGGTTGAACAAA
* ***
1811539 TTCTTCTCATTATGAACTTCTTCTTCCTTCTTCAGATGAGTTCTTTTTATTATGAACTTTTTCTG
1 TTCTTCTCATTATGAACTTCTTCTTCCTTCTTCAGATGAGTTCTTCTTATTATGAACTCGATCTG
* * * * * *
1811604 GAAAGGCTGATCCA-CAATTGAT-GAATTCAGGTAAAAGGTTGAACAAA
66 GAAAAGCTAATCCATCAAGTGATAGATTTGA-GCAAAAGGTTGAACAAA
*
1811651 TTCTTCTCATTATGAACTTCTTCTTCCTTCTTCAGATGAGTTCTTCTCATTATGAACTTC--TCT
1 TTCTTCTCATTATGAACTTCTTCTTCCTTCTTCAGATGAGTTCTTCTTATTATGAAC-TCGATCT
* * *
1811714 GGAAAAGCTGATCCATCAAGTGAT-GAATTCAGGCAAAAGGTTGAACAAA
65 GGAAAAGCTAATCCATCAAGTGATAGATTTGA-GCAAAAGGTTGAACAAA
* ***
1811763 -TCTTC-CA-T-TGAACTTCTTCTTCCTTCTTCAGATGAGTTCTTC-TCTTATGAACTTTCTCTG
1 TTCTTCTCATTATGAACTTCTTCTTCCTTCTTCAGATGAGTTCTTCTTATTATGAACTCGATCTG
* * *
1811823 GAAATG-TCAATCCAACAAATGATAGATTTGA
66 GAAAAGCT-AATCCATCAAGTGATAGATTTGA
1811854 ATCTTTGCTA
Statistics
Matches: 700, Mismatches: 44, Indels: 36
0.90 0.06 0.05
Matches are distributed among these distances:
106 1 0.00
107 9 0.01
108 55 0.08
109 102 0.15
110 19 0.03
111 106 0.15
112 273 0.39
113 135 0.19
ACGTcount: A:0.30, C:0.19, G:0.14, T:0.37
Consensus pattern (113 bp):
TTCTTCTCATTATGAACTTCTTCTTCCTTCTTCAGATGAGTTCTTCTTATTATGAACTCGATCTG
GAAAAGCTAATCCATCAAGTGATAGATTTGAGCAAAAGGTTGAACAAA
Found at i:1811536 original size:334 final size:330
Alignment explanation
Indices: 1810982--1811853 Score: 1165
Period size: 334 Copynumber: 2.6 Consensus size: 330
1810972 TCTTGATGAG
*
1810982 TTCTTCTCATTATGAACTTCTTCATCCTTCTTTC-GATGAGTTCTTCTCA-TATGAACTTTCTCT
1 TTCTTCTCATTATGAACTTCTTCTTCCTTC-TTCAGATGAGTTCTTCTCATTATGAAC--TCTCT
* *
1811045 AGAAAAGTTGATCCATCAAGTGATGGATTTGAGCAAAA--TCTGAACAAATTCTTCTCATTATGA
63 GGAAAAGCTGATCCATCAAGTGAT-GATTTGAGCAAAAGGT-TGAACAAATTCTTCTC-TTATGA
* *** *
1811108 ACTTCTTCATCCTTCTTCAGATGAG-TCTTCTTATTATGAACTCGAACTGGAAAAGCTAATCTAT
125 ACTTC-T--TCCTTCTTCAGATGAGTTCTTCTCATTATGAACTCTTTCTGGAAAAG-TAATCCAT
1811172 CAAGTGATAGATTTGAGCAAAAGGTTGAACAAATTCTTCTCATTATGAACTTCTTCATCCTTCTT
186 CAAGTGATAGATTTGAGCAAAAGGTTGAACAAATTCTTCTCATTATGAACTTCTTCATCCTTCTT
* * * *
1811237 CATATGAGTTC-TCTTATTATGAACTCGAACTGGAAAAGCTAATCTATCAAGTGATAGATTTGA-
251 CAGATGAGTTCTTCTTATTATGAACTCGAACTGGAAAAGCTAATCCA-CAAGTGAT-GAATTCAG
1811300 GCAAAAGGTTGAACAAA
314 GCAAAAGGTTGAACAAA
* *
1811317 TTCTTCTCATTATGAACTTCTTCTTCCTTCTTCAGATGAGTTCTTCTTATTATGAACTCGAACTG
1 TTCTTCTCATTATGAACTTCTTCTTCCTTCTTCAGATGAGTTCTTCTCATTATGAACTC--TCTG
* *
1811382 GAAAAGCTAATCTATCAAGTGATAGATTTGAGCAAAAGGTTGAACAAATTCTTCTCTTATGAACT
64 GAAAAGCTGATCCATCAAGTGAT-GATTTGAGCAAAAGGTTGAACAAATTCTTCTCTTATGAACT
1811447 TCTTCCTTCTTCAGATGAGTTCTTCTCATTATGAACTCTTTCTGGAAAAGATAATCCATCAAGTG
128 TCTTCCTTCTTCAGATGAGTTCTTCTCATTATGAACTCTTTCTGGAAAAG-TAATCCATCAAGTG
*
1811512 ATAGATTTGAGCAAAAGGTTGAACAAATTCTTCTCATTATGAACTTCTTCTTCCTTCTTCAGATG
192 ATAGATTTGAGCAAAAGGTTGAACAAATTCTTCTCATTATGAACTTCTTCATCCTTCTTCAGATG
* **** * * * *
1811577 AGTTCTTTTTATTATGAACTTTTTCTGGAAAGGCTGATCCACAATTGATGAATTCAGGTAAAAGG
257 AGTTCTTCTTATTATGAACTCGAACTGGAAAAGCTAATCCACAAGTGATGAATTCAGGCAAAAGG
1811642 TTGAACAAA
322 TTGAACAAA
1811651 TTCTTCTCATTATGAACTTCTTCTTCCTTCTTCAGATGAGTTCTTCTCATTATGAACTTCTCTGG
1 TTCTTCTCATTATGAACTTCTTCTTCCTTCTTCAGATGAGTTCTTCTCATTATGAAC-TCTCTGG
* * *
1811716 AAAAGCTGATCCATCAAGTGATGAATTCAGGCAAAAGGTTGAACAAA-TCTTC-CAT-TGAACTT
65 AAAAGCTGATCCATCAAGTGATGATTTGA-GCAAAAGGTTGAACAAATTCTTCTCTTATGAA---
* *
1811778 CTTCTTCCTTCTTCAGATGAGTTCTTCTC-TTATGAACT-TTCTCTGGAAATGTCAATCCAACAA
126 CTTCTTCCTTCTTCAGATGAGTTCTTCTCATTATGAACTCTT-TCTGGAAAAGT-AATCCATCAA
*
1811841 ATGATAGATTTGA
189 GTGATAGATTTGA
1811854 ATCTTTGCTA
Statistics
Matches: 483, Mismatches: 38, Indels: 35
0.87 0.07 0.06
Matches are distributed among these distances:
330 4 0.01
331 5 0.01
332 49 0.10
333 91 0.19
334 191 0.40
335 73 0.15
336 53 0.11
337 16 0.03
338 1 0.00
ACGTcount: A:0.30, C:0.19, G:0.14, T:0.37
Consensus pattern (330 bp):
TTCTTCTCATTATGAACTTCTTCTTCCTTCTTCAGATGAGTTCTTCTCATTATGAACTCTCTGGA
AAAGCTGATCCATCAAGTGATGATTTGAGCAAAAGGTTGAACAAATTCTTCTCTTATGAACTTCT
TCCTTCTTCAGATGAGTTCTTCTCATTATGAACTCTTTCTGGAAAAGTAATCCATCAAGTGATAG
ATTTGAGCAAAAGGTTGAACAAATTCTTCTCATTATGAACTTCTTCATCCTTCTTCAGATGAGTT
CTTCTTATTATGAACTCGAACTGGAAAAGCTAATCCACAAGTGATGAATTCAGGCAAAAGGTTGA
ACAAA
Found at i:1812064 original size:203 final size:199
Alignment explanation
Indices: 1811709--1812110 Score: 752
Period size: 203 Copynumber: 2.0 Consensus size: 199
1811699 ATTATGAACT
1811709 TCTCTGGAAAAGCTGATCCATCAAGTGATGAATTCAGGCAAAAGGTTGAACAAATCTTCCATTGA
1 TCTCTGGAAAAGCTGATCCATCAAGTGATGAATTCAGGCAAAAGGTTGAACAAATCTTCCATTGA
1811774 ACTTCTTCTTCCTTCTTCAGATGAGTTCTTCTCTTATGAACTTTCTCTGGAAATGTCAATCCAAC
66 ACTTCTTCTTCCTTCTTCAGATGAGTTCTTCTCTTATGAACTTTCTCTGGAAATGTCAATCCAAC
1811839 AAATGATAGATTTGAATCTTTGCTAAAATCTTTGAAATTCCTGTTAAAAATTCAA-ATAGATGAA
131 AAATGATAGATTTGAATCTTTGCTAAAATCTTTGAAATTCCTGTTAAAAATTCAACATAGATGAA
1811903 AATG
196 AATG
1811907 TCTCTGGAAAAGCTGATCCATCAAGTGATGAATTCAGGCAAAAGGTTGAACAAATTCTTCTCATT
1 TCTCTGGAAAAGCTGATCCATCAAGTGATGAATTCAGGCAAAAGGTTGAACAAA-TCTTC-CA-T
1811972 ATGAACTTCTTCTTCCTTCTTCAGATGAGTTCTTCTCATTATGAACTTTCTCTGGAAATGTCAAT
63 -TGAACTTCTTCTTCCTTCTTCAGATGAGTTCTTCTC-TTATGAACTTTCTCTGGAAATGTCAAT
1812037 CCAACAAATGATAGATTTGAATCTTTGCTAAAATCTTTGAAATTCCTGTTAAAAATTCAACATAG
126 CCAACAAATGATAGATTTGAATCTTTGCTAAAATCTTTGAAATTCCTGTTAAAAATTCAACATAG
1812102 ATGAAAATG
191 ATGAAAATG
1812111 AATGAAAATG
Statistics
Matches: 198, Mismatches: 0, Indels: 6
0.97 0.00 0.03
Matches are distributed among these distances:
198 54 0.27
199 5 0.03
200 2 0.01
201 1 0.01
202 36 0.18
203 87 0.44
204 13 0.07
ACGTcount: A:0.33, C:0.18, G:0.14, T:0.35
Consensus pattern (199 bp):
TCTCTGGAAAAGCTGATCCATCAAGTGATGAATTCAGGCAAAAGGTTGAACAAATCTTCCATTGA
ACTTCTTCTTCCTTCTTCAGATGAGTTCTTCTCTTATGAACTTTCTCTGGAAATGTCAATCCAAC
AAATGATAGATTTGAATCTTTGCTAAAATCTTTGAAATTCCTGTTAAAAATTCAACATAGATGAA
AATG
Found at i:1812927 original size:83 final size:83
Alignment explanation
Indices: 1812788--1814077 Score: 2302
Period size: 83 Copynumber: 15.5 Consensus size: 83
1812778 CCTACCGAAT
* *
1812788 CAGATCAGATAACTCAAAGAACACTTCCAGAAGATGCTATGAGCATACTCATTTTCCAAATTCAA
1 CAGATCAGATAACTCAAAGAACACTTCCAGAAGATGCTATGAGCATATTCATTTTCCAACTTCAA
1812853 TGATTGGTTTTACCAAAC
66 TGATTGGTTTTACCAAAC
*
1812871 CAGATCAGATAACTCAAAGAACACTTCCAGAAGATGCTATGAGCATATTCATTTTCCAAATTCAA
1 CAGATCAGATAACTCAAAGAACACTTCCAGAAGATGCTATGAGCATATTCATTTTCCAACTTCAA
1812936 TGATTGGTTTTACCAAAC
66 TGATTGGTTTTACCAAAC
1812954 CAGATCAGATAACTCAAAGAACACTTCCAGAAGATGCTATGAGCATATTCATTTTCCAACTTCAA
1 CAGATCAGATAACTCAAAGAACACTTCCAGAAGATGCTATGAGCATATTCATTTTCCAACTTCAA
1813019 TGATTGGTTTTACCAAAC
66 TGATTGGTTTTACCAAAC
* * *
1813037 CAGATCAGATAACTCAAAGAACACTTCCAGAAGATGCTATGAGCACATTCATTTCCCAAATTCAA
1 CAGATCAGATAACTCAAAGAACACTTCCAGAAGATGCTATGAGCATATTCATTTTCCAACTTCAA
1813102 TGATTGGTTTTACCAAAC
66 TGATTGGTTTTACCAAAC
1813120 CAGATCAGATAACTCAAAGAACACTTCCAGAAGATGCTATGAGCATATTCATCTTT-CAACTTCA
1 CAGATCAGATAACTCAAAGAACACTTCCAGAAGATGCTATGAGCATATTCAT-TTTCCAACTTCA
1813184 ATGATTGGTTTTACCAAAC
65 ATGATTGGTTTTACCAAAC
* *
1813203 CAGATCACATAACTCAAAGAACACTTCCAAAAGATGCTATGAGCATATTCATTTTCCAACTTCAA
1 CAGATCAGATAACTCAAAGAACACTTCCAGAAGATGCTATGAGCATATTCATTTTCCAACTTCAA
1813268 TGATTGGTTTTACCAAAC
66 TGATTGGTTTTACCAAAC
* * * *
1813286 CAGATCAGATAACTCAAAGAAAACTTCCAGAAGATGCTATGAGCACATTCATTTCCCAAATTCAA
1 CAGATCAGATAACTCAAAGAACACTTCCAGAAGATGCTATGAGCATATTCATTTTCCAACTTCAA
1813351 TGATTGGTTTTACCAAAC
66 TGATTGGTTTTACCAAAC
1813369 CAGATCAGATAACTCAAAGAACACTTCCAGAAGATGCTATGAGCATATTCATCTTT-CAACTTCA
1 CAGATCAGATAACTCAAAGAACACTTCCAGAAGATGCTATGAGCATATTCAT-TTTCCAACTTCA
1813433 ATGATTGGTTTTACCAAAC
65 ATGATTGGTTTTACCAAAC
*
1813452 CAGATCAGATAACTCAAAGAAAACTTCCAGAAGATGCTATGAGCATATTCATTTTCCAACTTCAA
1 CAGATCAGATAACTCAAAGAACACTTCCAGAAGATGCTATGAGCATATTCATTTTCCAACTTCAA
1813517 TGATTGGTTTTACCAAAC
66 TGATTGGTTTTACCAAAC
* * *
1813535 CAGATCAGATAACTCAAAGAACACTTCCAGAAGATGCTATGAGCACATTCATTTCCCAAATTCAA
1 CAGATCAGATAACTCAAAGAACACTTCCAGAAGATGCTATGAGCATATTCATTTTCCAACTTCAA
1813600 TGATTGGTTTTACCAAAC
66 TGATTGGTTTTACCAAAC
1813618 CAGATCAGATAACTCAAAGAACACTTCCAGAAGATGCTATGAGCATATTCATCTTT-CAACTTCA
1 CAGATCAGATAACTCAAAGAACACTTCCAGAAGATGCTATGAGCATATTCAT-TTTCCAACTTCA
1813682 ATGATTGGTTTTACCAAAC
65 ATGATTGGTTTTACCAAAC
*
1813701 CAGATCAGATAACTCAAAGAACACTTCCAAAAGATGCTATGAGCATATTCATTTTCCAACTTCAA
1 CAGATCAGATAACTCAAAGAACACTTCCAGAAGATGCTATGAGCATATTCATTTTCCAACTTCAA
1813766 TGATTGGTTTTACCAAAC
66 TGATTGGTTTTACCAAAC
*
1813784 CAGATCAGATAACTCAAAGAAAACTTCCAGAAGATGCTATGAGCATATTCATCTTT-CAACTTCA
1 CAGATCAGATAACTCAAAGAACACTTCCAGAAGATGCTATGAGCATATTCAT-TTTCCAACTTCA
1813848 ATGATTGGTTTTACCAAAC
65 ATGATTGGTTTTACCAAAC
* * *
1813867 CAGATCAGATAACTCAAAGAAAACTTCCAGAAGATGCTATGAGCACATTCATTTTCCAAATTCAA
1 CAGATCAGATAACTCAAAGAACACTTCCAGAAGATGCTATGAGCATATTCATTTTCCAACTTCAA
1813932 TGATTGGTTTTACCAAAC
66 TGATTGGTTTTACCAAAC
1813950 CAGATCAGATAACTCAAAGAACACTTCCAGAAGATGCTATGAGCATATTCATCTTT-CAACTTCA
1 CAGATCAGATAACTCAAAGAACACTTCCAGAAGATGCTATGAGCATATTCAT-TTTCCAACTTCA
1814014 ATGATTGGTTTTACCAAAC
65 ATGATTGGTTTTACCAAAC
*
1814033 CAGATCAGATAACTCAAAGAACACTTACAGAAGATGCTATGAGCA
1 CAGATCAGATAACTCAAAGAACACTTCCAGAAGATGCTATGAGCA
1814078 CCTGGCATTT
Statistics
Matches: 1161, Mismatches: 37, Indels: 18
0.95 0.03 0.01
Matches are distributed among these distances:
82 12 0.01
83 1137 0.98
84 12 0.01
ACGTcount: A:0.37, C:0.22, G:0.13, T:0.28
Consensus pattern (83 bp):
CAGATCAGATAACTCAAAGAACACTTCCAGAAGATGCTATGAGCATATTCATTTTCCAACTTCAA
TGATTGGTTTTACCAAAC
Found at i:1815267 original size:9 final size:9
Alignment explanation
Indices: 1815231--1815303 Score: 52
Period size: 9 Copynumber: 8.8 Consensus size: 9
1815221 TTGACCCCCC
1815231 TTTTTCT-T
1 TTTTTCTCT
*
1815239 TTTTTAT-T
1 TTTTTCTCT
* *
1815247 TTTTTTTAT
1 TTTTTCTCT
1815256 TTTTTCTC-
1 TTTTTCTCT
*
1815264 -TTTTAT-T
1 TTTTTCTCT
1815271 -TTTTCTCT
1 TTTTTCTCT
1815279 TTTCTT-TCT
1 TTT-TTCTCT
1815288 TTTTTCTCT
1 TTTTTCTCT
1815297 TTTTTCT
1 TTTTTCT
1815304 TCAAGCATAA
Statistics
Matches: 53, Mismatches: 6, Indels: 11
0.76 0.09 0.16
Matches are distributed among these distances:
7 10 0.19
8 16 0.30
9 25 0.47
10 2 0.04
ACGTcount: A:0.04, C:0.14, G:0.00, T:0.82
Consensus pattern (9 bp):
TTTTTCTCT
Found at i:1815267 original size:14 final size:13
Alignment explanation
Indices: 1815231--1815304 Score: 64
Period size: 14 Copynumber: 5.6 Consensus size: 13
1815221 TTGACCCCCC
1815231 TTTTTCTTTTT-T
1 TTTTTCTTTTTAT
1815243 TATTTT-TTTTTAT
1 T-TTTTCTTTTTAT
1815256 TTTTTCTCTTTTAT
1 TTTTTCT-TTTTAT
*
1815270 TTTTTCTCTTTTCT
1 TTTTTCT-TTTTAT
* *
1815284 TTCTTT-TTTCTCT
1 TT-TTTCTTTTTAT
1815297 TTTTTCTT
1 TTTTTCTT
1815305 CAAGCATAAT
Statistics
Matches: 54, Mismatches: 2, Indels: 11
0.81 0.03 0.16
Matches are distributed among these distances:
12 13 0.24
13 16 0.30
14 22 0.41
15 3 0.06
ACGTcount: A:0.04, C:0.14, G:0.00, T:0.82
Consensus pattern (13 bp):
TTTTTCTTTTTAT
Found at i:1822314 original size:166 final size:165
Alignment explanation
Indices: 1822033--1822363 Score: 621
Period size: 166 Copynumber: 2.0 Consensus size: 165
1822023 CATCATACTG
1822033 TCTTGAGAATTGCAATATTGGCTTCAATTTTCTCCAGCTTCATTCTATTTTGCTTGTTCTTTATT
1 TCTTGAGAATTGCAATATTGGCTTCAATTTTCTCCAGCTTCATTCTATTTTGCTTGTTCTTTATT
1822098 ATACTGTTCCTCAATACGTTGTATTTTATCCTCCATAATTCTCTTAGTAGCTTGTCTAGTACCGT
66 ATACTGTTCCTCAATACGTTGTATTTTATCCTCCATAATTCTCTTAGTAGCTTGTCTAGTACCGT
1822163 AGTGATGTTGTA-TTCTC-TTTGGCCAGAATAACT
131 AGTGATGTTGTATTTCTCTTTTGGCCAGAATAACT
1822196 TCTTGAGAATTTGCAATATTGGCTTCAATTTTCTCCAGCTTCATTCTCATTTCTGCTTGTTCTTT
1 TCTTGAGAA-TTGCAATATTGGCTTCAATTTTCTCCAGCTTCATTCT-ATTT-TGCTTGTTCTTT
1822261 ATTATACTGTTCCTCAATACGTTGTATTTTATCCTCCATAATTCTCTTAGTAGCTTGTCTAGTAC
63 ATTATACTGTTCCTCAATACGTTGTATTTTATCCTCCATAATTCTCTTAGTAGCTTGTCTAGTAC
1822326 CGTAGTGATGTTGTATTTCTCTTTTGGCCAGAATAACT
128 CGTAGTGATGTTGTATTTCTCTTTTGGCCAGAATAACT
1822364 GCGATTGAAA
Statistics
Matches: 163, Mismatches: 0, Indels: 5
0.97 0.00 0.03
Matches are distributed among these distances:
163 9 0.06
164 37 0.23
165 4 0.02
166 92 0.56
167 5 0.03
168 16 0.10
ACGTcount: A:0.21, C:0.20, G:0.14, T:0.46
Consensus pattern (165 bp):
TCTTGAGAATTGCAATATTGGCTTCAATTTTCTCCAGCTTCATTCTATTTTGCTTGTTCTTTATT
ATACTGTTCCTCAATACGTTGTATTTTATCCTCCATAATTCTCTTAGTAGCTTGTCTAGTACCGT
AGTGATGTTGTATTTCTCTTTTGGCCAGAATAACT
Found at i:1827404 original size:15 final size:14
Alignment explanation
Indices: 1827380--1827421 Score: 57
Period size: 15 Copynumber: 2.9 Consensus size: 14
1827370 CCTCGGTAAG
*
1827380 TTTCTCTTCTTTCTT
1 TTTCTTTTCTTTC-T
1827395 TTTCTTTTCTTTCT
1 TTTCTTTTCTTTCT
1827409 TTTCTGTTTCTTT
1 TTTCT-TTTCTTT
1827422 GCTGCTGAGA
Statistics
Matches: 25, Mismatches: 1, Indels: 2
0.89 0.04 0.07
Matches are distributed among these distances:
14 6 0.24
15 19 0.76
ACGTcount: A:0.00, C:0.21, G:0.02, T:0.76
Consensus pattern (14 bp):
TTTCTTTTCTTTCT
Found at i:1827412 original size:20 final size:20
Alignment explanation
Indices: 1827380--1827421 Score: 59
Period size: 20 Copynumber: 2.1 Consensus size: 20
1827370 CCTCGGTAAG
*
1827380 TTTCTCTTCTTTCTTTTTCT
1 TTTCTCTTCTTTCTGTTTCT
1827400 TTTCT-TTCTTTTCTGTTTCT
1 TTTCTCTTC-TTTCTGTTTCT
1827420 TT
1 TT
1827422 GCTGCTGAGA
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
19 3 0.15
20 17 0.85
ACGTcount: A:0.00, C:0.21, G:0.02, T:0.76
Consensus pattern (20 bp):
TTTCTCTTCTTTCTGTTTCT
Found at i:1827514 original size:22 final size:22
Alignment explanation
Indices: 1827465--1827515 Score: 57
Period size: 22 Copynumber: 2.3 Consensus size: 22
1827455 GTATCTTGTT
*
1827465 TCTCTGTTTTTCTCTCCGTCTC
1 TCTCTGTTTTTCTCTCCATCTC
* ** *
1827487 TGTCTGTTTTTCTCTGTATTTC
1 TCTCTGTTTTTCTCTCCATCTC
1827509 TCTCTGT
1 TCTCTGT
1827516 CTTCTTTTTT
Statistics
Matches: 23, Mismatches: 6, Indels: 0
0.79 0.21 0.00
Matches are distributed among these distances:
22 23 1.00
ACGTcount: A:0.02, C:0.27, G:0.12, T:0.59
Consensus pattern (22 bp):
TCTCTGTTTTTCTCTCCATCTC
Found at i:1827958 original size:3 final size:3
Alignment explanation
Indices: 1827950--1828084 Score: 225
Period size: 3 Copynumber: 45.0 Consensus size: 3
1827940 TTAATATATT
*
1827950 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TGA TAA TAA TAA TAA
1 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA
* *
1827998 TAA TAA TAA TAA TAA AAA TAA TAA TAA TAA TGA TAA TAA TAA TAA TAA
1 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA
* *
1828046 TAA TGA TAA TAA TAA TAA TAA TAA AAA TAA TAA TAA TAA
1 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA
1828085 ATCAATATGG
Statistics
Matches: 122, Mismatches: 10, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
3 122 1.00
ACGTcount: A:0.66, C:0.00, G:0.02, T:0.32
Consensus pattern (3 bp):
TAA
Found at i:1828252 original size:6 final size:6
Alignment explanation
Indices: 1828213--1828265 Score: 54
Period size: 6 Copynumber: 8.5 Consensus size: 6
1828203 AAATGCTTAA
* *
1828213 AAATG- AAATGC AGATAC AAAATGC AAAGATGC AAATGC AAATGC AAATGC
1 AAATGC AAATGC AAATGC -AAATGC -AA-ATGC AAATGC AAATGC AAATGC
1828263 AAA
1 AAA
1828266 AATGTTGATC
Statistics
Matches: 41, Mismatches: 4, Indels: 5
0.82 0.08 0.10
Matches are distributed among these distances:
5 5 0.12
6 23 0.56
7 9 0.22
8 4 0.10
ACGTcount: A:0.55, C:0.13, G:0.17, T:0.15
Consensus pattern (6 bp):
AAATGC
Found at i:1828253 original size:21 final size:20
Alignment explanation
Indices: 1828220--1828259 Score: 53
Period size: 20 Copynumber: 1.9 Consensus size: 20
1828210 TAAAAATGAA
*
1828220 ATGCAGATACAAAATGCAAAG
1 ATGCAAATAC-AAATGCAAAG
*
1828241 ATGCAAATGCAAATGCAAA
1 ATGCAAATACAAATGCAAA
1828260 TGCAAAAATG
Statistics
Matches: 17, Mismatches: 2, Indels: 1
0.85 0.10 0.05
Matches are distributed among these distances:
20 9 0.53
21 8 0.47
ACGTcount: A:0.53, C:0.15, G:0.17, T:0.15
Consensus pattern (20 bp):
ATGCAAATACAAATGCAAAG
Found at i:1828268 original size:14 final size:14
Alignment explanation
Indices: 1828231--1828269 Score: 55
Period size: 12 Copynumber: 2.9 Consensus size: 14
1828221 TGCAGATACA
*
1828231 AAATGCAAAGATGC
1 AAATGCAAAAATGC
1828245 AAATGC--AAATGC
1 AAATGCAAAAATGC
1828257 AAATGCAAAAATG
1 AAATGCAAAAATG
1828270 TTGATCCCAA
Statistics
Matches: 22, Mismatches: 1, Indels: 4
0.81 0.04 0.15
Matches are distributed among these distances:
12 11 0.50
14 11 0.50
ACGTcount: A:0.54, C:0.13, G:0.18, T:0.15
Consensus pattern (14 bp):
AAATGCAAAAATGC
Found at i:1830686 original size:16 final size:16
Alignment explanation
Indices: 1830667--1830699 Score: 57
Period size: 16 Copynumber: 2.1 Consensus size: 16
1830657 TTAAATAAAG
*
1830667 AAATACAAATGGAAAT
1 AAATACAAATAGAAAT
1830683 AAATACAAATAGAAAT
1 AAATACAAATAGAAAT
1830699 A
1 A
1830700 TGAGAAATAA
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
16 16 1.00
ACGTcount: A:0.67, C:0.06, G:0.09, T:0.18
Consensus pattern (16 bp):
AAATACAAATAGAAAT
Found at i:1830925 original size:30 final size:30
Alignment explanation
Indices: 1830856--1830942 Score: 88
Period size: 30 Copynumber: 2.9 Consensus size: 30
1830846 AAGTATTTTA
*
1830856 AATTAAAAGGACCAAAATAG-AAAAAACAT
1 AATTAAAAGGACCAAAATAGTAAAAAACAG
* *
1830885 ACACTCAAAGGACCAAAATAGTAAAAATA-AG
1 A-ATTAAAAGGACCAAAATAGTAAAAA-ACAG
* * *
1830916 AATTTAAAGGACTAAAATGGTAAAAAA
1 AATTAAAAGGACCAAAATAGTAAAAAA
1830943 ACTTAAAGGG
Statistics
Matches: 48, Mismatches: 7, Indels: 6
0.79 0.11 0.10
Matches are distributed among these distances:
29 2 0.04
30 38 0.79
31 7 0.15
32 1 0.02
ACGTcount: A:0.61, C:0.10, G:0.13, T:0.16
Consensus pattern (30 bp):
AATTAAAAGGACCAAAATAGTAAAAAACAG
Found at i:1830990 original size:30 final size:30
Alignment explanation
Indices: 1830947--1831003 Score: 78
Period size: 30 Copynumber: 1.9 Consensus size: 30
1830937 AAAAAAACTT
*
1830947 AAAGGGCTAAAATAACAATAACAGAAAGTC
1 AAAGGGCTAAAATAACAAAAACAGAAAGTC
* * *
1830977 AAAGGTCTTAAATAACAAAAATAGAAA
1 AAAGGGCTAAAATAACAAAAACAGAAA
1831004 TTTGAGGGGA
Statistics
Matches: 23, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
30 23 1.00
ACGTcount: A:0.60, C:0.11, G:0.14, T:0.16
Consensus pattern (30 bp):
AAAGGGCTAAAATAACAAAAACAGAAAGTC
Found at i:1832541 original size:16 final size:17
Alignment explanation
Indices: 1832522--1832553 Score: 57
Period size: 16 Copynumber: 1.9 Consensus size: 17
1832512 ATAATAATTA
1832522 AAATAAAAT-ATAAAAC
1 AAATAAAATAATAAAAC
1832538 AAATAAAATAATAAAA
1 AAATAAAATAATAAAA
1832554 AAACTACAAA
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
16 9 0.60
17 6 0.40
ACGTcount: A:0.78, C:0.03, G:0.00, T:0.19
Consensus pattern (17 bp):
AAATAAAATAATAAAAC
Found at i:1845620 original size:19 final size:18
Alignment explanation
Indices: 1845581--1845625 Score: 63
Period size: 18 Copynumber: 2.4 Consensus size: 18
1845571 ACTTTTGATA
* *
1845581 TTTATTATAAAGTTTATT
1 TTTATTTTAAAGTTAATT
1845599 TTTATTTTAAAGTCTAATT
1 TTTATTTTAAAGT-TAATT
1845618 TTTATTTT
1 TTTATTTT
1845626 TGAAATCATA
Statistics
Matches: 24, Mismatches: 2, Indels: 1
0.89 0.07 0.04
Matches are distributed among these distances:
18 12 0.50
19 12 0.50
ACGTcount: A:0.29, C:0.02, G:0.04, T:0.64
Consensus pattern (18 bp):
TTTATTTTAAAGTTAATT
Found at i:1846522 original size:15 final size:14
Alignment explanation
Indices: 1846497--1846528 Score: 55
Period size: 15 Copynumber: 2.2 Consensus size: 14
1846487 GTTTTTCCAC
1846497 TATATTGGTGACAT
1 TATATTGGTGACAT
1846511 TATATATGGTGACAT
1 TATAT-TGGTGACAT
1846526 TAT
1 TAT
1846529 GCATAATCAT
Statistics
Matches: 17, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
14 5 0.29
15 12 0.71
ACGTcount: A:0.31, C:0.06, G:0.19, T:0.44
Consensus pattern (14 bp):
TATATTGGTGACAT
Found at i:1846848 original size:194 final size:193
Alignment explanation
Indices: 1846519--1846928 Score: 552
Period size: 194 Copynumber: 2.1 Consensus size: 193
1846509 ATTATATATG
* *
1846519 GTGACATTATGCAT-AATCATCATTCATAATATTATTAGGTAACAATATATTATGTCACTAAAAA
1 GTGACATTATGCATAAAT-GTCATTCATAATATTATTAAGTAACAATATATTATGTCACTAAAAA
** *
1846583 TGTGACAATATCTCTTTCACCACATATAAGTTGATTTTAATGTATTATTTGTGACAATATAAATT
65 TGTGACAATATCTCTTTCACCACATATAAGTTGATTTTAATGTATTATCCGTGACAATATAAATC
** *
1846648 ATCAATAACGAAATCTTATTTAATTTAGTGACGTAACCAACTGTCATAGAATATAAATTATAAA
130 ATCAATAACGAAATCTTACATAATTTAGTGACATAACCAACTGTCATAGAATATAAATTATAAA
*
1846712 GTGACATTATGCATAAATGTCATTCATAATATTATTAAGTAACATTTATATTATGTCACTAAAAA
1 GTGACATTATGCATAAATGTCATTCATAATATTATTAAGTAACA-ATATATTATGTCACTAAAAA
* ** ** *
1846777 TTTGACAATATCTCTTTCGTCACATATTGGTTGATTTTAATGTATTATCCGTGACGATATAAATC
65 TGTGACAATATCTCTTTCACCACATATAAGTTGATTTTAATGTATTATCCGTGACAATATAAATC
* * ** ** * * *
1846842 ATCAATAATGAAATTTTACATAATTTAGTGACATAATTAGTTGTCATTGAATATTAATTATATA
130 ATCAATAACGAAATCTTACATAATTTAGTGACATAACCAACTGTCATAGAATATAAATTATAAA
* **
1846906 GTGACGTTATATATAAATGTCAT
1 GTGACATTATGCATAAATGTCAT
1846929 CCATGCAACT
Statistics
Matches: 188, Mismatches: 27, Indels: 3
0.86 0.12 0.01
Matches are distributed among these distances:
193 38 0.20
194 150 0.80
ACGTcount: A:0.39, C:0.11, G:0.11, T:0.39
Consensus pattern (193 bp):
GTGACATTATGCATAAATGTCATTCATAATATTATTAAGTAACAATATATTATGTCACTAAAAAT
GTGACAATATCTCTTTCACCACATATAAGTTGATTTTAATGTATTATCCGTGACAATATAAATCA
TCAATAACGAAATCTTACATAATTTAGTGACATAACCAACTGTCATAGAATATAAATTATAAA
Found at i:1848541 original size:26 final size:26
Alignment explanation
Indices: 1848505--1848557 Score: 106
Period size: 26 Copynumber: 2.0 Consensus size: 26
1848495 CAATCGAGGA
1848505 CATCAACTGCATACTTAGAACTTGCC
1 CATCAACTGCATACTTAGAACTTGCC
1848531 CATCAACTGCATACTTAGAACTTGCC
1 CATCAACTGCATACTTAGAACTTGCC
1848557 C
1 C
1848558 GAATGCAATA
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:0.30, C:0.32, G:0.11, T:0.26
Consensus pattern (26 bp):
CATCAACTGCATACTTAGAACTTGCC
Found at i:1850143 original size:39 final size:39
Alignment explanation
Indices: 1850076--1850155 Score: 117
Period size: 39 Copynumber: 2.1 Consensus size: 39
1850066 ATTCGTACTC
* * *
1850076 TTTTATATTTCTATAATAAATTAGATAAACTAAAGTTTA
1 TTTTATATTTCTATAATAAATGAGATAAAATAAAATTTA
1850115 TTTTATATTTCTATAATAAATCGA-ATAAAATAAAATTTA
1 TTTTATATTTCTATAATAAAT-GAGATAAAATAAAATTTA
1850154 TT
1 TT
1850156 CAAAGAATAT
Statistics
Matches: 37, Mismatches: 3, Indels: 2
0.88 0.07 0.05
Matches are distributed among these distances:
39 36 0.97
40 1 0.03
ACGTcount: A:0.45, C:0.05, G:0.04, T:0.46
Consensus pattern (39 bp):
TTTTATATTTCTATAATAAATGAGATAAAATAAAATTTA
Found at i:1851111 original size:16 final size:17
Alignment explanation
Indices: 1851086--1851118 Score: 50
Period size: 16 Copynumber: 2.0 Consensus size: 17
1851076 ATTAAACATC
1851086 TAAATCTTTAAAATATA
1 TAAATCTTTAAAATATA
*
1851103 TAAAT-TTTAAATTATA
1 TAAATCTTTAAAATATA
1851119 CATGAATTAT
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
16 10 0.67
17 5 0.33
ACGTcount: A:0.52, C:0.03, G:0.00, T:0.45
Consensus pattern (17 bp):
TAAATCTTTAAAATATA
Found at i:1852057 original size:29 final size:30
Alignment explanation
Indices: 1852002--1852059 Score: 82
Period size: 29 Copynumber: 2.0 Consensus size: 30
1851992 CATTTGGAGT
*
1852002 AACGGAATGAAACGTTAGACACCAAACTAG
1 AACGAAATGAAACGTTAGACACCAAACTAG
* *
1852032 AACGAAAT-AAACGTTAGGCACTAAACTA
1 AACGAAATGAAACGTTAGACACCAAACTA
1852060 AAAAAACGGA
Statistics
Matches: 25, Mismatches: 3, Indels: 1
0.86 0.10 0.03
Matches are distributed among these distances:
29 18 0.72
30 7 0.28
ACGTcount: A:0.48, C:0.19, G:0.17, T:0.16
Consensus pattern (30 bp):
AACGAAATGAAACGTTAGACACCAAACTAG
Found at i:1852626 original size:19 final size:19
Alignment explanation
Indices: 1852602--1852650 Score: 89
Period size: 19 Copynumber: 2.6 Consensus size: 19
1852592 AATGCATTTT
*
1852602 ATGCATCGATGCACATACC
1 ATGCATCGATGCACAAACC
1852621 ATGCATCGATGCACAAACC
1 ATGCATCGATGCACAAACC
1852640 ATGCATCGATG
1 ATGCATCGATG
1852651 AACTCTGGCC
Statistics
Matches: 29, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
19 29 1.00
ACGTcount: A:0.33, C:0.29, G:0.18, T:0.20
Consensus pattern (19 bp):
ATGCATCGATGCACAAACC
Found at i:1852717 original size:83 final size:82
Alignment explanation
Indices: 1852537--1852698 Score: 220
Period size: 83 Copynumber: 1.9 Consensus size: 82
1852527 TTTCAAAGTA
* *
1852537 ATGCACCGATGCACCAATCCATGCATCGATGCACCATGGATTAAATTGAACATCGAATGCATTTT
1 ATGCACCGATGCA-CAAACCATGCATCGATGAACCATGGATT-AATTGAACATCGAATGCATTTT
1852602 ATGCATCGATGCACATACC
64 ATGCATCGATGCACATACC
* * *
1852621 ATGCATCGATGCACAAACCATGCATCGATGAACTC-TGGCCTT-TTTGAAACATCGAATGCATTT
1 ATGCACCGATGCACAAACCATGCATCGATGAAC-CATGG-ATTAATTG-AACATCGAATGCATTT
1852684 TATGCATCGATGCAC
63 TATGCATCGATGCAC
1852699 TCTTAGTGCA
Statistics
Matches: 70, Mismatches: 5, Indels: 7
0.85 0.06 0.09
Matches are distributed among these distances:
82 3 0.04
83 52 0.74
84 15 0.21
ACGTcount: A:0.31, C:0.25, G:0.17, T:0.27
Consensus pattern (82 bp):
ATGCACCGATGCACAAACCATGCATCGATGAACCATGGATTAATTGAACATCGAATGCATTTTAT
GCATCGATGCACATACC
Found at i:1858168 original size:22 final size:22
Alignment explanation
Indices: 1858140--1858240 Score: 132
Period size: 22 Copynumber: 4.6 Consensus size: 22
1858130 ACACCTAACA
1858140 GTGCATCGATGCATCCTTGAAT
1 GTGCATCGATGCATCCTTGAAT
1858162 GTGCATCGATGCATCCTTGAAT
1 GTGCATCGATGCATCCTTGAAT
* * *
1858184 GTGCATCGATACA-CCATGAAG
1 GTGCATCGATGCATCCTTGAAT
* *
1858205 GTGCACCGATGCACGCCTTGAAT
1 GTGCATCGATGCA-TCCTTGAAT
*
1858228 GTGAATCGATGCA
1 GTGCATCGATGCA
1858241 CAAGGTCATC
Statistics
Matches: 68, Mismatches: 9, Indels: 3
0.85 0.11 0.04
Matches are distributed among these distances:
21 17 0.25
22 34 0.50
23 17 0.25
ACGTcount: A:0.26, C:0.24, G:0.25, T:0.26
Consensus pattern (22 bp):
GTGCATCGATGCATCCTTGAAT
Found at i:1863300 original size:22 final size:22
Alignment explanation
Indices: 1863275--1863326 Score: 95
Period size: 22 Copynumber: 2.4 Consensus size: 22
1863265 ATAAATTCTA
*
1863275 TCAATTTGGTCATAATTTTAAT
1 TCAATTTAGTCATAATTTTAAT
1863297 TCAATTTAGTCATAATTTTAAT
1 TCAATTTAGTCATAATTTTAAT
1863319 TCAATTTA
1 TCAATTTA
1863327 ATAAATTTAA
Statistics
Matches: 29, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
22 29 1.00
ACGTcount: A:0.35, C:0.10, G:0.06, T:0.50
Consensus pattern (22 bp):
TCAATTTAGTCATAATTTTAAT
Found at i:1864953 original size:14 final size:14
Alignment explanation
Indices: 1864936--1864965 Score: 51
Period size: 14 Copynumber: 2.1 Consensus size: 14
1864926 TAATCTTCAC
1864936 AAAATAAATAAATT
1 AAAATAAATAAATT
*
1864950 AAAATTAATAAATT
1 AAAATAAATAAATT
1864964 AA
1 AA
1864966 TTTTATATCT
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:0.70, C:0.00, G:0.00, T:0.30
Consensus pattern (14 bp):
AAAATAAATAAATT
Found at i:1871251 original size:2 final size:2
Alignment explanation
Indices: 1871244--1871270 Score: 54
Period size: 2 Copynumber: 13.5 Consensus size: 2
1871234 TCAATCTACA
1871244 AT AT AT AT AT AT AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT AT A
1871271 ATTTATAAAA
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:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (2 bp):
AT
Found at i:1871450 original size:13 final size:13
Alignment explanation
Indices: 1871434--1871491 Score: 71
Period size: 13 Copynumber: 4.5 Consensus size: 13
1871424 CGCAATGAGT
1871434 GTCATAAATGCAC
1 GTCATAAATGCAC
**
1871447 GTCATAAATGTGC
1 GTCATAAATGCAC
***
1871460 GTCATAAATGTGT
1 GTCATAAATGCAC
1871473 GTCATAAATGCAC
1 GTCATAAATGCAC
1871486 GTCATA
1 GTCATA
1871492 GATTTAAGAC
Statistics
Matches: 39, Mismatches: 6, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
13 39 1.00
ACGTcount: A:0.34, C:0.17, G:0.19, T:0.29
Consensus pattern (13 bp):
GTCATAAATGCAC
Found at i:1874090 original size:24 final size:24
Alignment explanation
Indices: 1874052--1874163 Score: 84
Period size: 24 Copynumber: 4.8 Consensus size: 24
1874042 ATAAATTATA
* *
1874052 CCAAAGTACCACGTAGTATTTGTC
1 CCAAAGGACCACGTAGAATTTGTC
*
1874076 CCAAAGGACCGCGTAGAATTTGTC
1 CCAAAGGACCACGTAGAATTTGTC
* * ** *
1874100 CCGAAGGACCACATA-AAAATATC
1 CCAAAGGACCACGTAGAATTTGTC
* * *
1874123 CCAAAAGACCACATAG-ATTAGTC
1 CCAAAGGACCACGTAGAATTTGTC
* **
1874146 CCGAAGGACTGCGTAGAA
1 CCAAAGGACCACGTAGAA
1874164 CCCTCGACTC
Statistics
Matches: 66, Mismatches: 20, Indels: 4
0.73 0.22 0.04
Matches are distributed among these distances:
23 32 0.48
24 34 0.52
ACGTcount: A:0.37, C:0.25, G:0.20, T:0.19
Consensus pattern (24 bp):
CCAAAGGACCACGTAGAATTTGTC
Found at i:1875670 original size:102 final size:102
Alignment explanation
Indices: 1875550--1875753 Score: 408
Period size: 102 Copynumber: 2.0 Consensus size: 102
1875540 AATTAATCCT
1875550 TAAACTTATCACTTTATTCAAATTAAACCATCAAACTTTACATTCCTATACTTTAGTCACTAACC
1 TAAACTTATCACTTTATTCAAATTAAACCATCAAACTTTACATTCCTATACTTTAGTCACTAACC
1875615 CAATATTTGGGGTATTACAATTCTCTCCCTTAAGAAA
66 CAATATTTGGGGTATTACAATTCTCTCCCTTAAGAAA
1875652 TAAACTTATCACTTTATTCAAATTAAACCATCAAACTTTACATTCCTATACTTTAGTCACTAACC
1 TAAACTTATCACTTTATTCAAATTAAACCATCAAACTTTACATTCCTATACTTTAGTCACTAACC
1875717 CAATATTTGGGGTATTACAATTCTCTCCCTTAAGAAA
66 CAATATTTGGGGTATTACAATTCTCTCCCTTAAGAAA
1875754 ATTCATCCTC
Statistics
Matches: 102, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
102 102 1.00
ACGTcount: A:0.35, C:0.23, G:0.06, T:0.36
Consensus pattern (102 bp):
TAAACTTATCACTTTATTCAAATTAAACCATCAAACTTTACATTCCTATACTTTAGTCACTAACC
CAATATTTGGGGTATTACAATTCTCTCCCTTAAGAAA
Found at i:1880424 original size:136 final size:136
Alignment explanation
Indices: 1879399--1880431 Score: 1202
Period size: 136 Copynumber: 7.6 Consensus size: 136
1879389 AGCTAAGATT
* * * * * *
1879399 GAACAAGTTCTTTTCATTATGAACTTCTTCTTCCTC-ATCGAATGAGTTCTTCTCATTATTAACT
1 GAACAAGCTCTTCTCATTATGAACTTCTTCTCCCTCTGTCGGATGAGTTCTTCTCATTATGAACT
* ** * * ** * **
1879463 CTCTATCGGAAATGTTAATCCCTCAAACGAGGTGTTGCTGATTC-AAAGTGT-TGTGAATCGACC
66 CTCCATTTGAAATGTTAATCCCTCAAGCGAGGCGTCACTGATTCGAAA-TATCT-TGAATCGAGT
*
1879526 AATAGGTC
129 GATAGGTC
* * *
1879534 GAACAAGCTCTTCTCATTGTGAACTTCTTCTCCCTCTGTCAGATGAGTTCTTCTCATTATAAACT
1 GAACAAGCTCTTCTCATTATGAACTTCTTCTCCCTCTGTCGGATGAGTTCTTCTCATTATGAACT
* * * * ** *
1879599 CTCCA-TCGTAAATGTCAATCCCTCAAGCGAGGCATCAATGATTCGAAATGCCATGAATCGAGTG
66 CTCCATTTG-AAATGTTAATCCCTCAAGCGAGGCGTCACTGATTCGAAATATCTTGAATCGAGTG
1879663 ATAGGTC
130 ATAGGTC
* * *
1879670 GAACAAGCTCTTCTCATTATGATCTTCTTCTCCCTTTGTCAGATGAGTTCTTCTCATTATGAACT
1 GAACAAGCTCTTCTCATTATGAACTTCTTCTCCCTCTGTCGGATGAGTTCTTCTCATTATGAACT
* * * * * * * * *
1879735 CACCATTTGAAATGTCAATCCCTCAAGCGAGACGTTACTGATTTGAAATACCGTGAATCGAGCGG
66 CTCCATTTGAAATGTTAATCCCTCAAGCGAGGCGTCACTGATTCGAAATATCTTGAATCGAGTGA
1879800 TAGGTC
131 TAGGTC
* * * *
1879806 GAACAAGCTCTTCTCACTATGAACTTCTTATCCCTCTGTCGGATGAGTTATTCTCATTATGATCT
1 GAACAAGCTCTTCTCATTATGAACTTCTTCTCCCTCTGTCGGATGAGTTCTTCTCATTATGAACT
* ** * *
1879871 CTCCATCAT-AAAT-TTCAATCCCTTTAGCGAGGTGTCACTGATTCGAAGTAT-TATGAATCGAG
66 CTCCAT-TTGAAATGTT-AATCCCTCAAGCGAGGCGTCACTGATTCGAAATATCT-TGAATCGAG
**
1879933 CAATAGGTC
128 TGATAGGTC
*
1879942 GAACAAGCTATTCTCATTATGAACTTCTTCTCCCTCTGTCGGATGAGTTCTTCTCATTATGAACT
1 GAACAAGCTCTTCTCATTATGAACTTCTTCTCCCTCTGTCGGATGAGTTCTTCTCATTATGAACT
** * * * *
1880007 CTTTA-TCGAAAATATCAATCCCTCAAGCGAGGCGTCACTGATTTGAAATA-CTGTGAATCGAGT
66 CTCCATTTG-AAATGTTAATCCCTCAAGCGAGGCGTCACTGATTCGAAATATCT-TGAATCGAGT
1880070 GATAGGTC
129 GATAGGTC
* * * * *
1880078 AAACAAGCGCTTATCATTATGAACTTCTTCTCCCACTGTAGGATGAGTTCTTCTCATTATGAACT
1 GAACAAGCTCTTCTCATTATGAACTTCTTCTCCCTCTGTCGGATGAGTTCTTCTCATTATGAACT
* * * * *
1880143 CTACATTTGAAATGTTAATCCCTTAATGCTAGGCGTCACTGATTCAAAATATCGTGAATCGAGTG
66 CTCCATTTGAAATGTTAATCCCTCAA-GCGAGGCGTCACTGATTCGAAATATCTTGAATCGAGTG
*
1880208 ATATGTC
130 ATAGGTC
* *
1880215 AAACAAGCTTTTCTCATTATGAACTTCTTCTCCCTCTGTCGGATGAGTTCTTCTCATTATGAACT
1 GAACAAGCTCTTCTCATTATGAACTTCTTCTCCCTCTGTCGGATGAGTTCTTCTCATTATGAACT
* * * * *
1880280 CTCAATTTGAAATCTTAATCCCTCAAGCCAGGCGTCACTGATTCAAAATGTCTTGAATCGAGTGA
66 CTCCATTTGAAATGTTAATCCCTCAAGCGAGGCGTCACTGATTCGAAATATCTTGAATCGAGTGA
*
1880345 TAGGTT
131 TAGGTC
* * *
1880351 AAACAAACTCTTCTCATTATGAACTTCTTCTCCCTCTGTCGGATGATTTCTTCTCATTATGAACT
1 GAACAAGCTCTTCTCATTATGAACTTCTTCTCCCTCTGTCGGATGAGTTCTTCTCATTATGAACT
*
1880416 CTCTATTTGAAATGTT
66 CTCCATTTGAAATGTT
1880432 GATTGGTTTA
Statistics
Matches: 770, Mismatches: 113, Indels: 29
0.84 0.12 0.03
Matches are distributed among these distances:
135 34 0.04
136 606 0.79
137 129 0.17
138 1 0.00
ACGTcount: A:0.27, C:0.23, G:0.16, T:0.35
Consensus pattern (136 bp):
GAACAAGCTCTTCTCATTATGAACTTCTTCTCCCTCTGTCGGATGAGTTCTTCTCATTATGAACT
CTCCATTTGAAATGTTAATCCCTCAAGCGAGGCGTCACTGATTCGAAATATCTTGAATCGAGTGA
TAGGTC
Found at i:1882354 original size:8 final size:8
Alignment explanation
Indices: 1882343--1882402 Score: 59
Period size: 8 Copynumber: 7.5 Consensus size: 8
1882333 GTCATTTTCC
1882343 TTTTTCTTT
1 TTTTTC-TT
1882352 TTTTTCTT
1 TTTTTCTT
**
1882360 TTTCCCTT
1 TTTTTCTT
*
1882368 TCTTTCTT
1 TTTTTCTT
*
1882376 TCTTTCTT
1 TTTTTCTT
*
1882384 TCTTT-TT
1 TTTTTCTT
1882391 TTTTTCTT
1 TTTTTCTT
1882399 TTTT
1 TTTT
1882403 CCTATGTCTT
Statistics
Matches: 44, Mismatches: 6, Indels: 3
0.83 0.11 0.06
Matches are distributed among these distances:
7 6 0.14
8 32 0.73
9 6 0.14
ACGTcount: A:0.00, C:0.18, G:0.00, T:0.82
Consensus pattern (8 bp):
TTTTTCTT
Found at i:1882372 original size:4 final size:4
Alignment explanation
Indices: 1882365--1882403 Score: 55
Period size: 4 Copynumber: 10.2 Consensus size: 4
1882355 TTCTTTTTCC
*
1882365 CTTT CTTT CTTT CTTT CTTT CTTT -TTT TTTT CTTT -TTT C
1 CTTT CTTT CTTT CTTT CTTT CTTT CTTT CTTT CTTT CTTT C
1882404 CTATGTCTTT
Statistics
Matches: 32, Mismatches: 1, Indels: 4
0.86 0.03 0.11
Matches are distributed among these distances:
3 6 0.19
4 26 0.81
ACGTcount: A:0.00, C:0.21, G:0.00, T:0.79
Consensus pattern (4 bp):
CTTT
Found at i:1882380 original size:12 final size:11
Alignment explanation
Indices: 1882366--1882403 Score: 58
Period size: 11 Copynumber: 3.4 Consensus size: 11
1882356 TCTTTTTCCC
1882366 TTTCTTTCTTT
1 TTTCTTTCTTT
1882377 CTTTCTTTCTTT
1 -TTTCTTTCTTT
*
1882389 TTTTTTTCTTT
1 TTTCTTTCTTT
1882400 TTTC
1 TTTC
1882404 CTATGTCTTT
Statistics
Matches: 24, Mismatches: 2, Indels: 1
0.89 0.07 0.04
Matches are distributed among these distances:
11 13 0.54
12 11 0.46
ACGTcount: A:0.00, C:0.18, G:0.00, T:0.82
Consensus pattern (11 bp):
TTTCTTTCTTT
Found at i:1886422 original size:34 final size:33
Alignment explanation
Indices: 1886383--1886467 Score: 91
Period size: 34 Copynumber: 2.5 Consensus size: 33
1886373 GATTAATGAC
* *
1886383 TAAAATGAAACAAAACAAAAATTA-GTGACTAATT
1 TAAAAT-AAATAAAACAAAAA-TAGGTGACTAAAT
* *
1886417 TAAAATAAATAACAATACAAATAGGTGACTAAAT
1 TAAAATAAATAA-AACAAAAATAGGTGACTAAAT
1886451 TAAAATAAAATAAAACA
1 TAAAAT-AAATAAAACA
1886468 GAATGATGAA
Statistics
Matches: 43, Mismatches: 5, Indels: 6
0.80 0.09 0.11
Matches are distributed among these distances:
33 7 0.16
34 30 0.70
35 6 0.14
ACGTcount: A:0.62, C:0.08, G:0.07, T:0.22
Consensus pattern (33 bp):
TAAAATAAATAAAACAAAAATAGGTGACTAAAT
Found at i:1898593 original size:20 final size:19
Alignment explanation
Indices: 1898528--1898594 Score: 52
Period size: 20 Copynumber: 3.6 Consensus size: 19
1898518 GCATTCAAGG
*
1898528 GGTATCGATACCTGAAGAAA
1 GGTATCGATACCT-AAGGAA
*
1898548 AGTATCGATACC-AA-G--
1 GGTATCGATACCTAAGGAA
* *
1898563 GGTACCAATACCTTAAGGAA
1 GGTATCGATACC-TAAGGAA
1898583 GGTATCGATACC
1 GGTATCGATACC
1898595 ATCTTTGAAC
Statistics
Matches: 35, Mismatches: 7, Indels: 10
0.67 0.13 0.19
Matches are distributed among these distances:
15 9 0.26
17 2 0.06
18 3 0.09
20 21 0.60
ACGTcount: A:0.37, C:0.19, G:0.22, T:0.21
Consensus pattern (19 bp):
GGTATCGATACCTAAGGAA
Found at i:1899321 original size:23 final size:23
Alignment explanation
Indices: 1899270--1899321 Score: 61
Period size: 22 Copynumber: 2.3 Consensus size: 23
1899260 GATTCGAGGG
* * * *
1899270 TTTCATAGGTCCTTCGGGACATA
1 TTTCATAAGTACTTAGGGACAAA
1899293 -TTCATAAGTACTTAGGGACAAA
1 TTTCATAAGTACTTAGGGACAAA
1899315 TTTCATA
1 TTTCATA
1899322 TGCCACTCAG
Statistics
Matches: 24, Mismatches: 4, Indels: 2
0.80 0.13 0.07
Matches are distributed among these distances:
22 18 0.75
23 6 0.25
ACGTcount: A:0.31, C:0.17, G:0.17, T:0.35
Consensus pattern (23 bp):
TTTCATAAGTACTTAGGGACAAA
Found at i:1900392 original size:17 final size:17
Alignment explanation
Indices: 1900370--1900405 Score: 56
Period size: 17 Copynumber: 2.1 Consensus size: 17
1900360 GAGTGTCACA
1900370 TTGACTT-TTCAAAAACT
1 TTGACTTATT-AAAAACT
1900387 TTGACTTATTAAAAACT
1 TTGACTTATTAAAAACT
1900404 TT
1 TT
1900406 AAACTTTTTA
Statistics
Matches: 18, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
17 16 0.89
18 2 0.11
ACGTcount: A:0.36, C:0.14, G:0.06, T:0.44
Consensus pattern (17 bp):
TTGACTTATTAAAAACT
Found at i:1901114 original size:24 final size:23
Alignment explanation
Indices: 1901087--1901185 Score: 119
Period size: 24 Copynumber: 4.2 Consensus size: 23
1901077 ATAAATTGCA
1901087 CCGAAGTG-CCACATAGTATTTGTC
1 CCGAAG-GACCACATAG-ATTTGTC
* *
1901111 CCGAAAGACCGCATAGAATTTGTC
1 CCGAAGGACCACATAG-ATTTGTC
* **
1901135 CCGAAGGACCACAAAGAAATGTC
1 CCGAAGGACCACATAGATTTGTC
1901158 CCGAAGGACCACATAGATTTGTC
1 CCGAAGGACCACATAGATTTGTC
1901181 CCGAA
1 CCGAA
1901186 TGACTGTGTA
Statistics
Matches: 63, Mismatches: 11, Indels: 3
0.82 0.14 0.04
Matches are distributed among these distances:
23 31 0.49
24 32 0.51
ACGTcount: A:0.33, C:0.26, G:0.21, T:0.19
Consensus pattern (23 bp):
CCGAAGGACCACATAGATTTGTC
Found at i:1905733 original size:60 final size:60
Alignment explanation
Indices: 1905617--1905738 Score: 158
Period size: 59 Copynumber: 2.0 Consensus size: 60
1905607 ACGAGTTTAG
* *
1905617 AACATATAAATAGTCGGATGATCTTTTTGTAACTTTTAATAGTCGGGGACTCAACAAAAC
1 AACATATAAATAGTCGGATGATCCTTTTGTAACTTTTAATACTCGGGGACTCAACAAAAC
* * **
1905677 AACAT-TATATAGTC-GAGTGATCCTTTTGTAACTTTTAATACTTGGATTACTCAACAAAAC
1 AACATATAAATAGTCGGA-TGATCCTTTTGTAACTTTTAATACTCGG-GGACTCAACAAAAC
1905737 AA
1 AA
1905739 TTTCATATTC
Statistics
Matches: 54, Mismatches: 6, Indels: 4
0.84 0.09 0.06
Matches are distributed among these distances:
58 2 0.04
59 33 0.61
60 19 0.35
ACGTcount: A:0.37, C:0.16, G:0.14, T:0.34
Consensus pattern (60 bp):
AACATATAAATAGTCGGATGATCCTTTTGTAACTTTTAATACTCGGGGACTCAACAAAAC
Found at i:1913042 original size:17 final size:16
Alignment explanation
Indices: 1913013--1913059 Score: 51
Period size: 16 Copynumber: 2.9 Consensus size: 16
1913003 GTGGTAAGAA
1913013 ATTTATTTT-ATATTAGT
1 ATTT-TTTTAATA-TAGT
*
1913030 ATTTTTTTAATATATT
1 ATTTTTTTAATATAGT
*
1913046 ATTTTTTTATTATA
1 ATTTTTTTAATATA
1913060 TTTATGTAAA
Statistics
Matches: 27, Mismatches: 2, Indels: 3
0.84 0.06 0.09
Matches are distributed among these distances:
16 20 0.74
17 7 0.26
ACGTcount: A:0.30, C:0.00, G:0.02, T:0.68
Consensus pattern (16 bp):
ATTTTTTTAATATAGT
Found at i:1913048 original size:16 final size:16
Alignment explanation
Indices: 1913029--1913082 Score: 62
Period size: 15 Copynumber: 3.6 Consensus size: 16
1913019 TTTATATTAG
1913029 TATTTTTTTAATATAT
1 TATTTTTTTAATATAT
1913045 TATTTTTTT-AT-TA-
1 TATTTTTTTAATATAT
* *
1913058 TATTTATGTAA-ATAT
1 TATTTTTTTAATATAT
1913073 TATTTTTTTA
1 TATTTTTTTA
1913083 TTAAAATAAT
Statistics
Matches: 31, Mismatches: 4, Indels: 7
0.74 0.10 0.17
Matches are distributed among these distances:
13 7 0.23
14 5 0.16
15 10 0.32
16 9 0.29
ACGTcount: A:0.30, C:0.00, G:0.02, T:0.69
Consensus pattern (16 bp):
TATTTTTTTAATATAT
Found at i:1913080 original size:28 final size:29
Alignment explanation
Indices: 1913011--1913085 Score: 93
Period size: 28 Copynumber: 2.7 Consensus size: 29
1913001 TAGTGGTAAG
* * *
1913011 AAAT-TTA-TTTTATATTAGTATTTTTTT
1 AAATATTATTTTTTTATTAGTATTTATGT
1913038 AATATATTATTTTTTTATTA-TATTTATGT
1 AA-ATATTATTTTTTTATTAGTATTTATGT
1913067 AAATATTATTTTTTTATTA
1 AAATATTATTTTTTTATTA
1913086 AAATAATATT
Statistics
Matches: 42, Mismatches: 3, Indels: 5
0.84 0.06 0.10
Matches are distributed among these distances:
27 2 0.05
28 19 0.45
29 12 0.29
30 9 0.21
ACGTcount: A:0.32, C:0.00, G:0.03, T:0.65
Consensus pattern (29 bp):
AAATATTATTTTTTTATTAGTATTTATGT
Found at i:1914803 original size:20 final size:21
Alignment explanation
Indices: 1914759--1914805 Score: 60
Period size: 21 Copynumber: 2.3 Consensus size: 21
1914749 GCAGGGGTAC
* *
1914759 ATGCCCAGCCCTCCACTTCAT
1 ATGCCAAGCCCACCACTTCAT
*
1914780 ATGCCAAGCCCACCAGTT-AT
1 ATGCCAAGCCCACCACTTCAT
1914800 ATGCCA
1 ATGCCA
1914806 TCTCCGCAGG
Statistics
Matches: 23, Mismatches: 3, Indels: 1
0.85 0.11 0.04
Matches are distributed among these distances:
20 8 0.35
21 15 0.65
ACGTcount: A:0.26, C:0.40, G:0.13, T:0.21
Consensus pattern (21 bp):
ATGCCAAGCCCACCACTTCAT
Found at i:1914852 original size:21 final size:21
Alignment explanation
Indices: 1914809--1914901 Score: 111
Period size: 21 Copynumber: 4.5 Consensus size: 21
1914799 TATGCCATCT
* * *
1914809 CCGCAGGGTTTCAT-TCGAGC
1 CCGCAGGGTTACATGCCTAGC
*
1914829 CCGCAGGGTTACATTCCTAGC
1 CCGCAGGGTTACATGCCTAGC
1914850 CCGCCA-GGTTACATGCCTAGC
1 CCG-CAGGGTTACATGCCTAGC
1914871 CCGCCA-GGTTACATGCCTAGC
1 CCG-CAGGGTTACATGCCTAGC
1914892 CCGCAGGGTT
1 CCGCAGGGTT
1914902 TTATACCATA
Statistics
Matches: 66, Mismatches: 4, Indels: 5
0.88 0.05 0.07
Matches are distributed among these distances:
20 15 0.23
21 49 0.74
22 2 0.03
ACGTcount: A:0.17, C:0.34, G:0.27, T:0.22
Consensus pattern (21 bp):
CCGCAGGGTTACATGCCTAGC
Found at i:1915462 original size:33 final size:33
Alignment explanation
Indices: 1915413--1915495 Score: 105
Period size: 33 Copynumber: 2.5 Consensus size: 33
1915403 AAATGTTTTT
*
1915413 AAAATACAAATTATATTATTCGAAATTTAAAATA
1 AAAATACAAATAATATTATTC-AAATTTAAAATA
* *
1915447 AAAATA-AAATAATATTATTCAAATTTAAATTT
1 AAAATACAAATAATATTATTCAAATTTAAAATA
* *
1915479 AAAATATAAATAGTATT
1 AAAATACAAATAATATT
1915496 CAAAATTTAA
Statistics
Matches: 44, Mismatches: 4, Indels: 3
0.86 0.08 0.06
Matches are distributed among these distances:
32 16 0.36
33 22 0.50
34 6 0.14
ACGTcount: A:0.57, C:0.04, G:0.02, T:0.37
Consensus pattern (33 bp):
AAAATACAAATAATATTATTCAAATTTAAAATA
Found at i:1916608 original size:255 final size:254
Alignment explanation
Indices: 1915900--1916902 Score: 1806
Period size: 255 Copynumber: 4.0 Consensus size: 254
1915890 TTACCTGATT
1915900 TACTGATATATCTAGTGTCCCCGAGGGACATGAGTGACATAATAGGGCAATGATAACATATTCTC
1 TACTGATATATCTAGTGTCCCCGAGGGACATGAGTGACATAATAGGGCAATGATAACATATTCTC
****
1915965 TGACGAAATAATGGAAGGCGCGCCCCGGGAACGCGCCTTCATGT--CCCCTGAGAATAATAGGTA
66 TGACGAAATAATGGAAGGCGCGCCCCGGGAACGCGCCTTCATGTGAATAGTGA-AATAATAGGTA
1916028 CTGATATATCTAGTGTCCCCGAGGGACATGAGTGACATAATAGGGCAATGATAACATATTCTCTG
130 CTGATATATCTAGTGTCCCCGAGGGACATGAGTGACATAATAGGGCAATGATAACATATTCTCTG
1916093 ACGAAATAATGGAAGGCGCGCCCCCGGGAACGCGCCTTCATGTGAATAGT-AAATAATAGG
195 ACGAAATAATGGAAGGCGCGCCCCC-GGAACGCGCCTTCATGTGAATAGTGAAATAATAGG
1916153 TACTG--ATATCTAGTGTCCCCGAGGGACATGAGTGACATAATAGGGCAATGATAACATATTCTC
1 TACTGATATATCTAGTGTCCCCGAGGGACATGAGTGACATAATAGGGCAATGATAACATATTCTC
*
1916216 TGATGAAATAATGGAAGGCGCGCCCCGGGAACGCGCCTTCATGTGAATAGTGAAATAATAGGTAC
66 TGACGAAATAATGGAAGGCGCGCCCCGGGAACGCGCCTTCATGTGAATAGTGAAATAATAGGTAC
1916281 TGATATATCTAGTGTCCCCGAGGGACATGAGTGACATAATAGGGCAATGATAACATATTCTCTGA
131 TGATATATCTAGTGTCCCCGAGGGACATGAGTGACATAATAGGGCAATGATAACATATTCTCTGA
1916346 CGAAATAATGGAAGGCGCGCCCCCGGAAACGCGCCTTCATGTGAATAGTGAAATAATAGG
196 CGAAATAATGGAAGGCGCGCCCCCGG-AACGCGCCTTCATGTGAATAGTGAAATAATAGG
*
1916406 TACCGATATATCTAGTGT-CCCGAGGGACATGAGTGACATAATAGGGCAATGATAACATATTCTC
1 TACTGATATATCTAGTGTCCCCGAGGGACATGAGTGACATAATAGGGCAATGATAACATATTCTC
* *
1916470 TGACGAAATAATGGAAGGCGTGCCCCCGGGAACGCGCGTTCATGTGAATAGTGAAATAATAGGTA
66 TGACGAAATAATGGAAGGCGCG-CCCCGGGAACGCGCCTTCATGTGAATAGTGAAATAATAGGTA
1916535 CTGATATATCTAGTGTCCCCGAGGGACATGAGTGACATAATAGGGCAATGATAACATATTCTCTG
130 CTGATATATCTAGTGTCCCCGAGGGACATGAGTGACATAATAGGGCAATGATAACATATTCTCTG
*
1916600 ATGAAATAATGGAAGGCGCGCCCCCGGAACGCGCCTTCATGTGAATAGTGAAATAATAGG
195 ACGAAATAATGGAAGGCGCGCCCCCGGAACGCGCCTTCATGTGAATAGTGAAATAATAGG
1916660 TACTGATATATCTAGTGTCCCCGAGGGACATGAGTGACATAATAGGGCAATGATAACATA-T-TC
1 TACTGATATATCTAGTGTCCCCGAGGGACATGAGTGACATAATAGGGCAATGATAACATATTCTC
1916723 TGACGAAATAATGGAAGGCGCGCCCCCGGGAACGCGCCTTCATGTGAATAGTGAAATAATAGGTA
66 TGACGAAATAATGGAAGGCGCG-CCCCGGGAACGCGCCTTCATGTGAATAGTGAAATAATAGGTA
*
1916788 CTGATATATCTAGTGTCCCCGAGGGACATGAGTGACATAATAGGACAATGATAACATATTCTCTG
130 CTGATATATCTAGTGTCCCCGAGGGACATGAGTGACATAATAGGGCAATGATAACATATTCTCTG
1916853 ACGAAATAATGGAAGGCGCGCCCCCAGGAACGCGCCTTCATGTGAATAGT
195 ACGAAATAATGGAAGGCGCGCCCCC-GGAACGCGCCTTCATGTGAATAGT
1916903 ACTCCGATTA
Statistics
Matches: 726, Mismatches: 15, Indels: 17
0.96 0.02 0.02
Matches are distributed among these distances:
251 103 0.14
252 123 0.17
253 175 0.24
254 141 0.19
255 184 0.25
ACGTcount: A:0.32, C:0.20, G:0.26, T:0.23
Consensus pattern (254 bp):
TACTGATATATCTAGTGTCCCCGAGGGACATGAGTGACATAATAGGGCAATGATAACATATTCTC
TGACGAAATAATGGAAGGCGCGCCCCGGGAACGCGCCTTCATGTGAATAGTGAAATAATAGGTAC
TGATATATCTAGTGTCCCCGAGGGACATGAGTGACATAATAGGGCAATGATAACATATTCTCTGA
CGAAATAATGGAAGGCGCGCCCCCGGAACGCGCCTTCATGTGAATAGTGAAATAATAGG
Found at i:1916840 original size:126 final size:128
Alignment explanation
Indices: 1915900--1916902 Score: 1812
Period size: 127 Copynumber: 7.9 Consensus size: 128
1915890 TTACCTGATT
1915900 TACTGATATATCTAGTGTCCCCGAGGGACATGAGTGACATAATAGGGCAATGATAACATATTCTC
1 TACTGATATATCTAGTGTCCCCGAGGGACATGAGTGACATAATAGGGCAATGATAACATATTCTC
****
1915965 TGACGAAATAATGGAAGGCGCG-CCCCGGGAACGCGCCTTCATGT--CCCCTGAGAATAATAGG
66 TGACGAAATAATGGAAGGCGCGCCCCCGGGAACGCGCCTTCATGTGAATAGTGA-AATAATAGG
1916026 TACTGATATATCTAGTGTCCCCGAGGGACATGAGTGACATAATAGGGCAATGATAACATATTCTC
1 TACTGATATATCTAGTGTCCCCGAGGGACATGAGTGACATAATAGGGCAATGATAACATATTCTC
1916091 TGACGAAATAATGGAAGGCGCGCCCCCGGGAACGCGCCTTCATGTGAATAGT-AAATAATAGG
66 TGACGAAATAATGGAAGGCGCGCCCCCGGGAACGCGCCTTCATGTGAATAGTGAAATAATAGG
1916153 TACTG--ATATCTAGTGTCCCCGAGGGACATGAGTGACATAATAGGGCAATGATAACATATTCTC
1 TACTGATATATCTAGTGTCCCCGAGGGACATGAGTGACATAATAGGGCAATGATAACATATTCTC
*
1916216 TGATGAAATAATGGAAGGCGCG-CCCCGGGAACGCGCCTTCATGTGAATAGTGAAATAATAGG
66 TGACGAAATAATGGAAGGCGCGCCCCCGGGAACGCGCCTTCATGTGAATAGTGAAATAATAGG
1916278 TACTGATATATCTAGTGTCCCCGAGGGACATGAGTGACATAATAGGGCAATGATAACATATTCTC
1 TACTGATATATCTAGTGTCCCCGAGGGACATGAGTGACATAATAGGGCAATGATAACATATTCTC
*
1916343 TGACGAAATAATGGAAGGCGCGCCCCCGGAAACGCGCCTTCATGTGAATAGTGAAATAATAGG
66 TGACGAAATAATGGAAGGCGCGCCCCCGGGAACGCGCCTTCATGTGAATAGTGAAATAATAGG
*
1916406 TACCGATATATCTAGTGT-CCCGAGGGACATGAGTGACATAATAGGGCAATGATAACATATTCTC
1 TACTGATATATCTAGTGTCCCCGAGGGACATGAGTGACATAATAGGGCAATGATAACATATTCTC
* *
1916470 TGACGAAATAATGGAAGGCGTGCCCCCGGGAACGCGCGTTCATGTGAATAGTGAAATAATAGG
66 TGACGAAATAATGGAAGGCGCGCCCCCGGGAACGCGCCTTCATGTGAATAGTGAAATAATAGG
1916533 TACTGATATATCTAGTGTCCCCGAGGGACATGAGTGACATAATAGGGCAATGATAACATATTCTC
1 TACTGATATATCTAGTGTCCCCGAGGGACATGAGTGACATAATAGGGCAATGATAACATATTCTC
*
1916598 TGATGAAATAATGGAAGGCGCGCCCCC-GGAACGCGCCTTCATGTGAATAGTGAAATAATAGG
66 TGACGAAATAATGGAAGGCGCGCCCCCGGGAACGCGCCTTCATGTGAATAGTGAAATAATAGG
1916660 TACTGATATATCTAGTGTCCCCGAGGGACATGAGTGACATAATAGGGCAATGATAACATA-T-TC
1 TACTGATATATCTAGTGTCCCCGAGGGACATGAGTGACATAATAGGGCAATGATAACATATTCTC
1916723 TGACGAAATAATGGAAGGCGCGCCCCCGGGAACGCGCCTTCATGTGAATAGTGAAATAATAGG
66 TGACGAAATAATGGAAGGCGCGCCCCCGGGAACGCGCCTTCATGTGAATAGTGAAATAATAGG
*
1916786 TACTGATATATCTAGTGTCCCCGAGGGACATGAGTGACATAATAGGACAATGATAACATATTCTC
1 TACTGATATATCTAGTGTCCCCGAGGGACATGAGTGACATAATAGGGCAATGATAACATATTCTC
*
1916851 TGACGAAATAATGGAAGGCGCGCCCCCAGGAACGCGCCTTCATGTGAATAGT
66 TGACGAAATAATGGAAGGCGCGCCCCCGGGAACGCGCCTTCATGTGAATAGT
1916903 ACTCCGATTA
Statistics
Matches: 848, Mismatches: 18, Indels: 20
0.96 0.02 0.02
Matches are distributed among these distances:
124 29 0.03
125 122 0.14
126 182 0.21
127 333 0.39
128 181 0.21
129 1 0.00
ACGTcount: A:0.32, C:0.20, G:0.26, T:0.23
Consensus pattern (128 bp):
TACTGATATATCTAGTGTCCCCGAGGGACATGAGTGACATAATAGGGCAATGATAACATATTCTC
TGACGAAATAATGGAAGGCGCGCCCCCGGGAACGCGCCTTCATGTGAATAGTGAAATAATAGG
Found at i:1916986 original size:8 final size:8
Alignment explanation
Indices: 1916973--1917013 Score: 57
Period size: 8 Copynumber: 5.2 Consensus size: 8
1916963 TCACAATCTT
1916973 TCAAATTC
1 TCAAATTC
1916981 TCAAATTC
1 TCAAATTC
* *
1916989 CCAAACTC
1 TCAAATTC
1916997 T-AAATTC
1 TCAAATTC
1917004 TCAAATTC
1 TCAAATTC
1917012 TC
1 TC
1917014 TGAAAATGAG
Statistics
Matches: 28, Mismatches: 4, Indels: 2
0.82 0.12 0.06
Matches are distributed among these distances:
7 6 0.21
8 22 0.79
ACGTcount: A:0.37, C:0.29, G:0.00, T:0.34
Consensus pattern (8 bp):
TCAAATTC
Found at i:1921994 original size:12 final size:10
Alignment explanation
Indices: 1921953--1921993 Score: 57
Period size: 10 Copynumber: 4.1 Consensus size: 10
1921943 TTTATCACAA
1921953 CAAATTCTCT
1 CAAATTCTCT
1921963 CAAATTCTCT
1 CAAATTCTCT
1921973 -AAATTTCTCT
1 CAAA-TTCTCT
*
1921983 CAAATACTCT
1 CAAATTCTCT
1921993 C
1 C
1921994 TTTTTAAGGT
Statistics
Matches: 28, Mismatches: 1, Indels: 4
0.85 0.03 0.12
Matches are distributed among these distances:
9 3 0.11
10 22 0.79
11 3 0.11
ACGTcount: A:0.32, C:0.29, G:0.00, T:0.39
Consensus pattern (10 bp):
CAAATTCTCT
Found at i:1922042 original size:13 final size:14
Alignment explanation
Indices: 1922014--1922042 Score: 51
Period size: 14 Copynumber: 2.1 Consensus size: 14
1922004 ATATTTTATA
1922014 ATATTTTTACTATT
1 ATATTTTTACTATT
1922028 ATATTTTTACT-TT
1 ATATTTTTACTATT
1922041 AT
1 AT
1922043 TTAATATTTT
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
13 4 0.27
14 11 0.73
ACGTcount: A:0.28, C:0.07, G:0.00, T:0.66
Consensus pattern (14 bp):
ATATTTTTACTATT
Found at i:1922250 original size:110 final size:111
Alignment explanation
Indices: 1922117--1922337 Score: 363
Period size: 110 Copynumber: 2.0 Consensus size: 111
1922107 TGGAAATCAT
*
1922117 ATATCTCTACACTTTGCTGATACGGTAACATTTTAACGTTTTAATTTAATTTAAATTATAAGTAA
1 ATATCTCGACACTTTGCTGATACGGTAACATTTTAACGTTTTAATTTAATTTAAATTATAAGTAA
* * * * *
1922182 TATTTAGTT-ATTTATTTAATGCATGATTATTAGATTAACAATTAA
66 TAATTAATTGATTCATTTAATGCATAATCATTAGATTAACAATTAA
*
1922227 ATATCTCGACACTTTGCTGATACGGTAACATTTTAACGTTTTAATTTAATTTAAATTATTAGTAA
1 ATATCTCGACACTTTGCTGATACGGTAACATTTTAACGTTTTAATTTAATTTAAATTATAAGTAA
*
1922292 TAATTAATTGATTCATTTAATGCATAATCATTAGATTAAGAATTAA
66 TAATTAATTGATTCATTTAATGCATAATCATTAGATTAACAATTAA
1922338 TTTTTGTAAT
Statistics
Matches: 102, Mismatches: 8, Indels: 1
0.92 0.07 0.01
Matches are distributed among these distances:
110 70 0.69
111 32 0.31
ACGTcount: A:0.37, C:0.10, G:0.10, T:0.44
Consensus pattern (111 bp):
ATATCTCGACACTTTGCTGATACGGTAACATTTTAACGTTTTAATTTAATTTAAATTATAAGTAA
TAATTAATTGATTCATTTAATGCATAATCATTAGATTAACAATTAA
Found at i:1923861 original size:18 final size:18
Alignment explanation
Indices: 1923834--1923870 Score: 65
Period size: 18 Copynumber: 2.1 Consensus size: 18
1923824 CCAGCAGCCA
*
1923834 CCGCAGCCATATATGATG
1 CCGCAACCATATATGATG
1923852 CCGCAACCATATATGATG
1 CCGCAACCATATATGATG
1923870 C
1 C
1923871 TGCCATCGCC
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
18 18 1.00
ACGTcount: A:0.30, C:0.30, G:0.19, T:0.22
Consensus pattern (18 bp):
CCGCAACCATATATGATG
Found at i:1924393 original size:24 final size:24
Alignment explanation
Indices: 1924366--1924441 Score: 66
Period size: 25 Copynumber: 3.1 Consensus size: 24
1924356 TTTATTATAT
1924366 TTGTATTTACTTTATTTTGTTAAA
1 TTGTATTTACTTTATTTTGTTAAA
* * *
1924390 TTGTAATTT-TTTTATTATT-TCTCAT
1 TTGT-ATTTACTTTATT-TTGT-TAAA
*
1924415 TTAATATTTACTTTATTTTGTTAAA
1 TT-GTATTTACTTTATTTTGTTAAA
1924440 TT
1 TT
1924442 TGTTGGACTT
Statistics
Matches: 39, Mismatches: 7, Indels: 11
0.68 0.12 0.19
Matches are distributed among these distances:
24 11 0.28
25 20 0.51
26 8 0.21
ACGTcount: A:0.25, C:0.05, G:0.05, T:0.64
Consensus pattern (24 bp):
TTGTATTTACTTTATTTTGTTAAA
Found at i:1924442 original size:26 final size:26
Alignment explanation
Indices: 1924369--1924442 Score: 77
Period size: 26 Copynumber: 2.9 Consensus size: 26
1924359 ATTATATTTG
1924369 TATTTACTTTATTTTGTTAAATTGTAA
1 TATTTACTTTATTTTGTTAAATT-TAA
*
1924396 T-TTT--TTTATTATT-TCT-CATTTAA
1 TATTTACTTTATT-TTGT-TAAATTTAA
1924419 TATTTACTTTATTTTGTTAAATTT
1 TATTTACTTTATTTTGTTAAATTT
1924443 GTTGGACTTT
Statistics
Matches: 38, Mismatches: 2, Indels: 15
0.69 0.04 0.27
Matches are distributed among these distances:
23 4 0.11
24 13 0.34
25 6 0.16
26 14 0.37
27 1 0.03
ACGTcount: A:0.26, C:0.05, G:0.04, T:0.65
Consensus pattern (26 bp):
TATTTACTTTATTTTGTTAAATTTAA
Found at i:1928112 original size:47 final size:46
Alignment explanation
Indices: 1928061--1928149 Score: 115
Period size: 47 Copynumber: 1.9 Consensus size: 46
1928051 AAAAATTTAA
* *
1928061 GAGCTCAATTAAAACTCGAGACTCGAGTTCGATTGAAGCTCGATTCT
1 GAGCTCAATTAAAACTCGAGACT-GAGCTCGATTCAAGCTCGATTCT
* * **
1928108 GAGCTCAATTCAAGCTCGATTCTGAGCTCGATTCAAGCTCGA
1 GAGCTCAATTAAAACTCGAGACTGAGCTCGATTCAAGCTCGA
1928150 CATTGCCCCA
Statistics
Matches: 36, Mismatches: 6, Indels: 1
0.84 0.14 0.02
Matches are distributed among these distances:
46 17 0.47
47 19 0.53
ACGTcount: A:0.28, C:0.24, G:0.21, T:0.27
Consensus pattern (46 bp):
GAGCTCAATTAAAACTCGAGACTGAGCTCGATTCAAGCTCGATTCT
Found at i:1928118 original size:12 final size:12
Alignment explanation
Indices: 1928097--1928141 Score: 65
Period size: 12 Copynumber: 3.8 Consensus size: 12
1928087 GTTCGATTGA
1928097 AGCTCGATTCTG
1 AGCTCGATTCTG
* *
1928109 AGCTCAATTC-A
1 AGCTCGATTCTG
1928120 AGCTCGATTCTG
1 AGCTCGATTCTG
1928132 AGCTCGATTC
1 AGCTCGATTC
1928142 AAGCTCGACA
Statistics
Matches: 28, Mismatches: 4, Indels: 2
0.82 0.12 0.06
Matches are distributed among these distances:
11 9 0.32
12 19 0.68
ACGTcount: A:0.22, C:0.27, G:0.20, T:0.31
Consensus pattern (12 bp):
AGCTCGATTCTG
Found at i:1928123 original size:23 final size:23
Alignment explanation
Indices: 1928096--1928149 Score: 99
Period size: 23 Copynumber: 2.3 Consensus size: 23
1928086 AGTTCGATTG
1928096 AAGCTCGATTCTGAGCTCAATTC
1 AAGCTCGATTCTGAGCTCAATTC
*
1928119 AAGCTCGATTCTGAGCTCGATTC
1 AAGCTCGATTCTGAGCTCAATTC
1928142 AAGCTCGA
1 AAGCTCGA
1928150 CATTGCCCCA
Statistics
Matches: 30, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
23 30 1.00
ACGTcount: A:0.26, C:0.26, G:0.20, T:0.28
Consensus pattern (23 bp):
AAGCTCGATTCTGAGCTCAATTC
Found at i:1928685 original size:14 final size:14
Alignment explanation
Indices: 1928668--1928699 Score: 55
Period size: 14 Copynumber: 2.3 Consensus size: 14
1928658 AATGAACATA
1928668 AACGAACATAACCG
1 AACGAACATAACCG
*
1928682 AACGAACATTACCG
1 AACGAACATAACCG
1928696 AACG
1 AACG
1928700 TTCACGAACG
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
14 17 1.00
ACGTcount: A:0.47, C:0.28, G:0.16, T:0.09
Consensus pattern (14 bp):
AACGAACATAACCG
Found at i:1929609 original size:22 final size:22
Alignment explanation
Indices: 1929569--1929626 Score: 64
Period size: 22 Copynumber: 2.6 Consensus size: 22
1929559 AATGTTAAAT
* *
1929569 TTTAAATAATAATATATATTTAA
1 TTTAAA-AATAATAGATATATAA
*
1929592 TTTAAAAATATTAGATATATAA
1 TTTAAAAATAATAGATATATAA
1929614 TTGTAAAAA-AATA
1 TT-TAAAAATAATA
1929627 AAATATGATA
Statistics
Matches: 30, Mismatches: 4, Indels: 3
0.81 0.11 0.08
Matches are distributed among these distances:
22 18 0.60
23 12 0.40
ACGTcount: A:0.55, C:0.00, G:0.03, T:0.41
Consensus pattern (22 bp):
TTTAAAAATAATAGATATATAA
Found at i:1929701 original size:20 final size:19
Alignment explanation
Indices: 1929668--1929718 Score: 59
Period size: 20 Copynumber: 2.6 Consensus size: 19
1929658 TAATTGTACA
*
1929668 ATATAAATAAATATCTACT-T
1 ATATAAA-AAATATATA-TAT
1929688 ATATAAAAATATATATATAT
1 ATATAAAAA-ATATATATAT
1929708 ATATAAAAAAT
1 ATATAAAAAAT
1929719 TAAATAGCAA
Statistics
Matches: 28, Mismatches: 1, Indels: 5
0.82 0.03 0.15
Matches are distributed among these distances:
19 5 0.18
20 23 0.82
ACGTcount: A:0.59, C:0.04, G:0.00, T:0.37
Consensus pattern (19 bp):
ATATAAAAAATATATATAT
Found at i:1936862 original size:7 final size:7
Alignment explanation
Indices: 1936852--1936882 Score: 53
Period size: 7 Copynumber: 4.4 Consensus size: 7
1936842 CTAATCCCTA
1936852 TACCATT
1 TACCATT
*
1936859 TACCAAT
1 TACCATT
1936866 TACCATT
1 TACCATT
1936873 TACCATT
1 TACCATT
1936880 TAC
1 TAC
1936883 AGTAAGTTCC
Statistics
Matches: 22, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
7 22 1.00
ACGTcount: A:0.32, C:0.29, G:0.00, T:0.39
Consensus pattern (7 bp):
TACCATT
Found at i:1937375 original size:13 final size:14
Alignment explanation
Indices: 1937347--1937376 Score: 53
Period size: 14 Copynumber: 2.2 Consensus size: 14
1937337 ATTTTTTGAA
1937347 TAAAAAATAAATAT
1 TAAAAAATAAATAT
1937361 TAAAAAATAAA-AT
1 TAAAAAATAAATAT
1937374 TAA
1 TAA
1937377 GTATTAAACT
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
13 5 0.31
14 11 0.69
ACGTcount: A:0.73, C:0.00, G:0.00, T:0.27
Consensus pattern (14 bp):
TAAAAAATAAATAT
Found at i:1937611 original size:22 final size:22
Alignment explanation
Indices: 1937585--1937626 Score: 57
Period size: 22 Copynumber: 1.9 Consensus size: 22
1937575 TTTATTTCTA
*
1937585 AAATTGTAAAAATATTTTTTAT
1 AAATTATAAAAATATTTTTTAT
**
1937607 AAATTATAAATTTATTTTTT
1 AAATTATAAAAATATTTTTT
1937627 TGGTACAAAG
Statistics
Matches: 17, Mismatches: 3, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
22 17 1.00
ACGTcount: A:0.43, C:0.00, G:0.02, T:0.55
Consensus pattern (22 bp):
AAATTATAAAAATATTTTTTAT
Found at i:1938014 original size:29 final size:32
Alignment explanation
Indices: 1937977--1938036 Score: 81
Period size: 29 Copynumber: 2.0 Consensus size: 32
1937967 AATTAATATG
* *
1937977 ATACTAAAAATTAATATTTAAT-TT-ATTTAT
1 ATACTAAAAAGTAAAATTTAATCTTAATTTAT
1938007 ATAC-AAAAAGTAAAATTTAATCTTAATTTA
1 ATACTAAAAAGTAAAATTTAATCTTAATTTA
1938037 AAATATAATA
Statistics
Matches: 26, Mismatches: 2, Indels: 3
0.84 0.06 0.10
Matches are distributed among these distances:
29 15 0.58
30 6 0.23
31 5 0.19
ACGTcount: A:0.50, C:0.05, G:0.02, T:0.43
Consensus pattern (32 bp):
ATACTAAAAAGTAAAATTTAATCTTAATTTAT
Found at i:1949103 original size:3 final size:3
Alignment explanation
Indices: 1949097--1949148 Score: 63
Period size: 3 Copynumber: 18.0 Consensus size: 3
1949087 TCCAATAATA
* * *
1949097 TAT TAT TAT TAT TA- TAT TAC AAT TAT TAT TAT CA- TAT TAT TAT TAT
1 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT
1949143 TAT TAT
1 TAT TAT
1949149 AAATATTACA
Statistics
Matches: 41, Mismatches: 6, Indels: 4
0.80 0.12 0.08
Matches are distributed among these distances:
2 3 0.07
3 38 0.93
ACGTcount: A:0.37, C:0.04, G:0.00, T:0.60
Consensus pattern (3 bp):
TAT
Found at i:1949123 original size:20 final size:20
Alignment explanation
Indices: 1949098--1949159 Score: 79
Period size: 20 Copynumber: 3.0 Consensus size: 20
1949088 CCAATAATAT
*
1949098 ATTATTATTATTATATTACA
1 ATTATTATTATAATATTACA
* **
1949118 ATTATTATTATCATATTATT
1 ATTATTATTATAATATTACA
1949138 ATTATTATTATAAATATTACA
1 ATTATTATTAT-AATATTACA
1949159 A
1 A
1949160 AATCGGAGCC
Statistics
Matches: 35, Mismatches: 6, Indels: 1
0.83 0.14 0.02
Matches are distributed among these distances:
20 28 0.80
21 7 0.20
ACGTcount: A:0.42, C:0.05, G:0.00, T:0.53
Consensus pattern (20 bp):
ATTATTATTATAATATTACA
Done.