Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: VEPZ01008301.1 Hibiscus syriacus cultivar Beakdansim tig00110987_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: 3376434
ACGTcount: A:0.33, C:0.17, G:0.17, T:0.33
File 9 of 18
Found at i:1628289 original size:40 final size:40
Alignment explanation
Indices: 1628165--1628290 Score: 184
Period size: 40 Copynumber: 3.1 Consensus size: 40
1628155 AATTTGTAAA
*
1628165 TCGCAACACAGAAGCCAAATTCGCAACGCGATAGTCAAAT
1 TCGCAACACAGAAGTCAAATTCGCAACGCGATAGTCAAAT
* * *
1628205 TCGCAACACAAAAGTCAAATTCGCAATGCGAATTTGT-AAA-
1 TCGCAACACAGAAGTCAAATTCGCAACGCG-A-TAGTCAAAT
1628245 TCGCAACACAGAAGTCAAATTCGCAACGCGATAGTCAAAT
1 TCGCAACACAGAAGTCAAATTCGCAACGCGATAGTCAAAT
1628285 TCGCAA
1 TCGCAA
1628291 TGCGAAAGTC
Statistics
Matches: 75, Mismatches: 7, Indels: 8
0.83 0.08 0.09
Matches are distributed among these distances:
38 3 0.04
39 4 0.05
40 61 0.81
41 4 0.05
42 3 0.04
ACGTcount: A:0.40, C:0.25, G:0.17, T:0.18
Consensus pattern (40 bp):
TCGCAACACAGAAGTCAAATTCGCAACGCGATAGTCAAAT
Found at i:1628446 original size:22 final size:22
Alignment explanation
Indices: 1628421--1628482 Score: 106
Period size: 22 Copynumber: 2.8 Consensus size: 22
1628411 TCTCTCACTC
* *
1628421 TCTCCGGCGACATCCGTCCCCA
1 TCTCCGACGAAATCCGTCCCCA
1628443 TCTCCGACGAAATCCGTCCCCA
1 TCTCCGACGAAATCCGTCCCCA
1628465 TCTCCGACGAAATCCGTC
1 TCTCCGACGAAATCCGTC
1628483 TATCTCCATC
Statistics
Matches: 38, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
22 38 1.00
ACGTcount: A:0.19, C:0.45, G:0.16, T:0.19
Consensus pattern (22 bp):
TCTCCGACGAAATCCGTCCCCA
Found at i:1628843 original size:20 final size:19
Alignment explanation
Indices: 1628804--1628857 Score: 63
Period size: 20 Copynumber: 2.7 Consensus size: 19
1628794 AAATCGCAAA
*
1628804 GCGATTTTAGTTTCGGGTT
1 GCGATTTTAGTTTCGCGTT
*
1628823 GCGATTTTCATTTTCGCGTT
1 GCGATTTT-AGTTTCGCGTT
*
1628843 GCGAATTTAAGTTTC
1 GCG-ATTTTAGTTTC
1628858 AGAAACTTCT
Statistics
Matches: 29, Mismatches: 4, Indels: 3
0.81 0.11 0.08
Matches are distributed among these distances:
19 8 0.28
20 17 0.59
21 4 0.14
ACGTcount: A:0.15, C:0.15, G:0.24, T:0.46
Consensus pattern (19 bp):
GCGATTTTAGTTTCGCGTT
Found at i:1630627 original size:21 final size:21
Alignment explanation
Indices: 1630603--1630652 Score: 57
Period size: 21 Copynumber: 2.4 Consensus size: 21
1630593 TGGTGCATGG
1630603 CGTGATGAGGTTCGA-TCTTTA
1 CGTGATGAGG-TCGATTCTTTA
* * *
1630624 CGTGGTGAGGTGGATTTTTTA
1 CGTGATGAGGTCGATTCTTTA
1630645 CGTGATGA
1 CGTGATGA
1630653 CAATGGTGCG
Statistics
Matches: 24, Mismatches: 4, Indels: 2
0.80 0.13 0.07
Matches are distributed among these distances:
20 3 0.12
21 21 0.88
ACGTcount: A:0.18, C:0.10, G:0.34, T:0.38
Consensus pattern (21 bp):
CGTGATGAGGTCGATTCTTTA
Found at i:1631024 original size:21 final size:21
Alignment explanation
Indices: 1630992--1631110 Score: 109
Period size: 21 Copynumber: 5.7 Consensus size: 21
1630982 GATGCACCTA
* *
1630992 TCATCATTCAAGAGGCGCCTC
1 TCATCGTTCAAGAGGCCCCTC
1631013 -CTATCGTTCAAGAGGCCCCTC
1 TC-ATCGTTCAAGAGGCCCCTC
* *
1631034 TCATC-ATCGAAGAAGCCCCTC
1 TCATCGTTC-AAGAGGCCCCTC
* * *
1631055 CCACCGTTCAAGAGGCCCCTG
1 TCATCGTTCAAGAGGCCCCTC
*
1631076 TCATCGTTCAAGAGGTCCCATC
1 TCATCGTTCAAGAGG-CCCCTC
*
1631098 -CACCGTTCAAGAG
1 TCATCGTTCAAGAG
1631111 CCCGATTCAC
Statistics
Matches: 79, Mismatches: 14, Indels: 10
0.77 0.14 0.10
Matches are distributed among these distances:
20 3 0.04
21 69 0.87
22 7 0.09
ACGTcount: A:0.24, C:0.36, G:0.19, T:0.21
Consensus pattern (21 bp):
TCATCGTTCAAGAGGCCCCTC
Found at i:1631039 original size:42 final size:42
Alignment explanation
Indices: 1630992--1631110 Score: 143
Period size: 42 Copynumber: 2.8 Consensus size: 42
1630982 GATGCACCTA
* * *
1630992 TCATCATTCAAGAGGCGCCTCCTATCGTTCAAGAGGCCCCTC
1 TCATCATTCAAGAGGCCCCTCCCACCGTTCAAGAGGCCCCTC
* *
1631034 TCATCA-TCGAAGAAGCCCCTCCCACCGTTCAAGAGGCCCCTG
1 TCATCATTC-AAGAGGCCCCTCCCACCGTTCAAGAGGCCCCTC
* *
1631076 TCATCGTTCAAGAGGTCCCAT-CCACCGTTCAAGAG
1 TCATCATTCAAGAGG-CCCCTCCCACCGTTCAAGAG
1631111 CCCGATTCAC
Statistics
Matches: 66, Mismatches: 8, Indels: 6
0.82 0.10 0.08
Matches are distributed among these distances:
41 2 0.03
42 58 0.88
43 6 0.09
ACGTcount: A:0.24, C:0.36, G:0.19, T:0.21
Consensus pattern (42 bp):
TCATCATTCAAGAGGCCCCTCCCACCGTTCAAGAGGCCCCTC
Found at i:1632595 original size:66 final size:62
Alignment explanation
Indices: 1632428--1632600 Score: 199
Period size: 66 Copynumber: 2.7 Consensus size: 62
1632418 TGGGGTACAC
*
1632428 TTTTTTTGCTTTGTTTAATTGAATTTTACAGTGAAAGTTGATTTGTTTAATTGATGATGAAATAA
1 TTTTTTTGC-TTGTTTAATTG-A-TTT---GTAAAAGTTGATTTGTTTAATTGATGATGAAATAA
1632493 GAT
60 GAT
* *
1632496 TTATTTT--TTGATTAATTGATTTGTAAAAGTTGATTTGTTTAATTTGATG-TGTAAATAAGAAT
1 TTTTTTTGCTTGTTTAATTGATTTGTAAAAGTTGATTTGTTTAA-TTGATGATG-AAATAAG-A-
1632558 T
62 T
1632559 ATTTTTTTGCTTGTTTAATTGATTTGTAAAAGTTGATTTGTT
1 -TTTTTTTGCTTGTTTAATTGATTTGTAAAAGTTGATTTGTT
1632601 GTTTCTAAAA
Statistics
Matches: 93, Mismatches: 5, Indels: 16
0.82 0.04 0.14
Matches are distributed among these distances:
60 21 0.23
61 13 0.14
62 1 0.01
63 4 0.04
64 7 0.08
65 10 0.11
66 31 0.33
68 6 0.06
ACGTcount: A:0.28, C:0.02, G:0.17, T:0.53
Consensus pattern (62 bp):
TTTTTTTGCTTGTTTAATTGATTTGTAAAAGTTGATTTGTTTAATTGATGATGAAATAAGAT
Found at i:1632726 original size:20 final size:20
Alignment explanation
Indices: 1632703--1632799 Score: 89
Period size: 20 Copynumber: 5.2 Consensus size: 20
1632693 GATTTTCGAT
1632703 TTGCGAATTTGACTTTCGCG
1 TTGCGAATTTGACTTTCGCG
* *
1632723 TTGCGAATTTGGCTATCGC-
1 TTGCGAATTTGACTTTCGCG
** *
1632742 -AACG--CTT-A-TTTCGCG
1 TTGCGAATTTGACTTTCGCG
*
1632757 TTGCAAATTTGACTTTCGCG
1 TTGCGAATTTGACTTTCGCG
*
1632777 TTGCGAATTTGACTTTCACG
1 TTGCGAATTTGACTTTCGCG
1632797 TTG
1 TTG
1632800 ATCGCAACAT
Statistics
Matches: 58, Mismatches: 13, Indels: 12
0.70 0.16 0.14
Matches are distributed among these distances:
14 5 0.09
16 3 0.05
18 4 0.07
19 1 0.02
20 45 0.78
ACGTcount: A:0.18, C:0.21, G:0.23, T:0.39
Consensus pattern (20 bp):
TTGCGAATTTGACTTTCGCG
Found at i:1633029 original size:39 final size:39
Alignment explanation
Indices: 1632975--1633061 Score: 156
Period size: 39 Copynumber: 2.2 Consensus size: 39
1632965 TCAAGTTGTA
*
1632975 GATTTTGATTTCCTTTTGCTTGGCACCATATGAGATTTG
1 GATTTTGATTTCCTTTTGCTTGGAACCATATGAGATTTG
*
1633014 GATTTTGATTTCCTTTTGCTTGGAACCATATGAGCTTTG
1 GATTTTGATTTCCTTTTGCTTGGAACCATATGAGATTTG
1633053 GATTTTGAT
1 GATTTTGAT
1633062 GAGCATCGGA
Statistics
Matches: 46, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
39 46 1.00
ACGTcount: A:0.18, C:0.14, G:0.21, T:0.47
Consensus pattern (39 bp):
GATTTTGATTTCCTTTTGCTTGGAACCATATGAGATTTG
Found at i:1634218 original size:18 final size:18
Alignment explanation
Indices: 1634195--1634230 Score: 54
Period size: 18 Copynumber: 2.0 Consensus size: 18
1634185 AAGCCGGTTA
* *
1634195 TGATTGGGATTTTTATTT
1 TGATTGCGATTTTGATTT
1634213 TGATTGCGATTTTGATTT
1 TGATTGCGATTTTGATTT
1634231 CCTTTTGCTT
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
18 16 1.00
ACGTcount: A:0.17, C:0.03, G:0.22, T:0.58
Consensus pattern (18 bp):
TGATTGCGATTTTGATTT
Found at i:1636366 original size:24 final size:24
Alignment explanation
Indices: 1636339--1636388 Score: 91
Period size: 24 Copynumber: 2.1 Consensus size: 24
1636329 ATCAAAATCT
1636339 GAGTATTGACCAAGATCAAAGTTC
1 GAGTATTGACCAAGATCAAAGTTC
*
1636363 GAGTATTGACCAAGATCAAATTTC
1 GAGTATTGACCAAGATCAAAGTTC
1636387 GA
1 GA
1636389 ATACTGACTA
Statistics
Matches: 25, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
24 25 1.00
ACGTcount: A:0.38, C:0.16, G:0.20, T:0.26
Consensus pattern (24 bp):
GAGTATTGACCAAGATCAAAGTTC
Found at i:1636396 original size:24 final size:24
Alignment explanation
Indices: 1636345--1636396 Score: 77
Period size: 24 Copynumber: 2.2 Consensus size: 24
1636335 ATCTGAGTAT
* *
1636345 TGACCAAGATCAAAGTTCGAGTAT
1 TGACCAAGATCAAAGTTCGAATAC
*
1636369 TGACCAAGATCAAATTTCGAATAC
1 TGACCAAGATCAAAGTTCGAATAC
1636393 TGAC
1 TGAC
1636397 TAGTACTCAC
Statistics
Matches: 25, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
24 25 1.00
ACGTcount: A:0.38, C:0.19, G:0.17, T:0.25
Consensus pattern (24 bp):
TGACCAAGATCAAAGTTCGAATAC
Found at i:1636529 original size:12 final size:12
Alignment explanation
Indices: 1636508--1636541 Score: 50
Period size: 12 Copynumber: 2.8 Consensus size: 12
1636498 GGTTATGGGT
*
1636508 TTTGAGATTGTG
1 TTTGATATTGTG
1636520 TTTGATATTGTG
1 TTTGATATTGTG
*
1636532 TTTGGTATTG
1 TTTGATATTG
1636542 GAAATGTGGT
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
12 20 1.00
ACGTcount: A:0.15, C:0.00, G:0.29, T:0.56
Consensus pattern (12 bp):
TTTGATATTGTG
Found at i:1637313 original size:19 final size:19
Alignment explanation
Indices: 1637289--1637357 Score: 77
Period size: 19 Copynumber: 3.6 Consensus size: 19
1637279 ACTAAAACCT
*
1637289 GTTGCGAAATTAAATTCGC
1 GTTGCGAATTTAAATTCGC
*
1637308 GTTGCGAATTTGAAATTC-A
1 GTTGCGAATTT-AAATTCGC
* *
1637327 GTTGCGAATTTGACTATCGC
1 GTTGCGAATTTAAAT-TCGC
1637347 GTTGCGAATTT
1 GTTGCGAATTT
1637358 GACTTTTATG
Statistics
Matches: 42, Mismatches: 5, Indels: 5
0.81 0.10 0.10
Matches are distributed among these distances:
18 2 0.05
19 23 0.55
20 17 0.40
ACGTcount: A:0.26, C:0.14, G:0.23, T:0.36
Consensus pattern (19 bp):
GTTGCGAATTTAAATTCGC
Found at i:1637325 original size:20 final size:20
Alignment explanation
Indices: 1637289--1637437 Score: 94
Period size: 20 Copynumber: 7.5 Consensus size: 20
1637279 ACTAAAACCT
*
1637289 GTTGCGAAATT-AAATTCGC
1 GTTGCGAATTTGAAATTCGC
*
1637308 GTTGCGAATTTGAAATTC-A
1 GTTGCGAATTTGAAATTCGC
*
1637327 GTTGCGAATTTG-ACTATCGC
1 GTTGCGAATTTGAAAT-TCGC
** ***
1637347 GTTGCGAATTTGACTTTTAT
1 GTTGCGAATTTGAAATTCGC
*
1637367 GTTGAG-ATTT-ACAGATTCGC
1 GTTGCGAATTTGA-A-ATTCGC
* *
1637387 GTTGCGAAATTGGAAATT-GG
1 GTTGCG-AATTTGAAATTCGC
* * *
1637407 GTTGCGAAATTGGAGTTCGC
1 GTTGCGAATTTGAAATTCGC
1637427 GTTGCGAATTT
1 GTTGCGAATTT
1637438 ATTGGTCATT
Statistics
Matches: 96, Mismatches: 24, Indels: 19
0.69 0.17 0.14
Matches are distributed among these distances:
18 3 0.03
19 35 0.36
20 49 0.51
21 4 0.04
22 4 0.04
23 1 0.01
ACGTcount: A:0.25, C:0.13, G:0.26, T:0.36
Consensus pattern (20 bp):
GTTGCGAATTTGAAATTCGC
Found at i:1640140 original size:42 final size:42
Alignment explanation
Indices: 1640077--1640210 Score: 151
Period size: 42 Copynumber: 3.1 Consensus size: 42
1640067 CGGTTCTTTC
1640077 GGACATATATGTGGTCCTTTGGAACATATATGTGGTCCTTCA
1 GGACATATATGTGGTCCTTTGGAACATATATGTGGTCCTTCA
* * * * * *
1640119 GGACATATATTTGGTCTTTTGGAATATATATGTGGTTCTACG
1 GGACATATATGTGGTCCTTTGGAACATATATGTGGTCCTTCA
* * ** *
1640161 GGATAATTCTATGTGGTCCTTCAGAACATCTATGTGGTCCTTCA
1 GGA-CA-TATATGTGGTCCTTTGGAACATATATGTGGTCCTTCA
1640205 GGACAT
1 GGACAT
1640211 TCCTACGCGG
Statistics
Matches: 72, Mismatches: 18, Indels: 4
0.77 0.19 0.04
Matches are distributed among these distances:
42 40 0.56
43 2 0.03
44 30 0.42
ACGTcount: A:0.24, C:0.16, G:0.23, T:0.37
Consensus pattern (42 bp):
GGACATATATGTGGTCCTTTGGAACATATATGTGGTCCTTCA
Found at i:1640194 original size:21 final size:21
Alignment explanation
Indices: 1640079--1640210 Score: 104
Period size: 21 Copynumber: 6.2 Consensus size: 21
1640069 GTTCTTTCGG
**
1640079 ACATATATGTGGTCCTTTGGA
1 ACATATATGTGGTCCTTCAGA
*
1640100 ACATATATGTGGTCCTTCAGG
1 ACATATATGTGGTCCTTCAGA
* * **
1640121 ACATATATTTGGTCTTTTGGA
1 ACATATATGTGGTCCTTCAGA
* * * *
1640142 ATATATATGTGGTTCTACGGGA
1 ACATATATGTGGTCCTTC-AGA
*
1640164 TA-ATTCTATGTGGTCCTTCAGA
1 -ACA-TATATGTGGTCCTTCAGA
* *
1640186 ACATCTATGTGGTCCTTCAGG
1 ACATATATGTGGTCCTTCAGA
1640207 ACAT
1 ACAT
1640211 TCCTACGCGG
Statistics
Matches: 88, Mismatches: 19, Indels: 8
0.77 0.17 0.07
Matches are distributed among these distances:
21 68 0.77
22 7 0.08
23 13 0.15
ACGTcount: A:0.24, C:0.16, G:0.22, T:0.38
Consensus pattern (21 bp):
ACATATATGTGGTCCTTCAGA
Found at i:1644398 original size:21 final size:21
Alignment explanation
Indices: 1644361--1644447 Score: 120
Period size: 21 Copynumber: 4.1 Consensus size: 21
1644351 GGTTCTATAC
* * *
1644361 GGTCCTTCGGGACATATGTGT
1 GGTCCTTTGGAACATATATGT
*
1644382 GGTTCTTTGGAACATATATGT
1 GGTCCTTTGGAACATATATGT
* *
1644403 GGTCCTTTGGGACATATATTT
1 GGTCCTTTGGAACATATATGT
1644424 GGTCCTTTGGAACATATATGT
1 GGTCCTTTGGAACATATATGT
1644445 GGT
1 GGT
1644448 TCTACGGGAC
Statistics
Matches: 57, Mismatches: 9, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
21 57 1.00
ACGTcount: A:0.20, C:0.14, G:0.28, T:0.39
Consensus pattern (21 bp):
GGTCCTTTGGAACATATATGT
Found at i:1644432 original size:42 final size:42
Alignment explanation
Indices: 1644361--1644500 Score: 147
Period size: 42 Copynumber: 3.3 Consensus size: 42
1644351 GGTTCTATAC
* *
1644361 GGTCCTTCGGGACATATGTGTGGTTCTTTGGAACATATATGT
1 GGTCCTTCGGGACATATATGTGGTCCTTTGGAACATATATGT
* *
1644403 GGTCCTTTGGGACATATATTTGGTCCTTTGGAACATATATGT
1 GGTCCTTCGGGACATATATGTGGTCCTTTGGAACATATATGT
* * * * * * *
1644445 GGTTCTACGGGACAATTCTATGTGGT-CTTTCGGGACTTCTGTGT
1 GGTCCTTCGGGAC-A-TATATGTGGTCCTTT-GGAACATATATGT
1644489 GGTCCTTCGGGA
1 GGTCCTTCGGGA
1644501 TATTCCTACG
Statistics
Matches: 80, Mismatches: 15, Indels: 4
0.81 0.15 0.04
Matches are distributed among these distances:
42 48 0.60
43 5 0.06
44 27 0.34
ACGTcount: A:0.17, C:0.16, G:0.29, T:0.38
Consensus pattern (42 bp):
GGTCCTTCGGGACATATATGTGGTCCTTTGGAACATATATGT
Found at i:1644489 original size:21 final size:21
Alignment explanation
Indices: 1644361--1644500 Score: 82
Period size: 21 Copynumber: 6.6 Consensus size: 21
1644351 GGTTCTATAC
* * *
1644361 GGTCCTTCGGGACATATGTGT
1 GGTCCTTCGGGACTTCTATGT
* * * * *
1644382 GGTTCTTTGGAACATATATGT
1 GGTCCTTCGGGACTTCTATGT
* * * *
1644403 GGTCCTTTGGGACATATATTT
1 GGTCCTTCGGGACTTCTATGT
* * * *
1644424 GGTCCTTTGGAACATATATGT
1 GGTCCTTCGGGACTTCTATGT
* *
1644445 GGTTCTACGGGACAATTCTATGT
1 GGTCCTTCGGGAC--TTCTATGT
* *
1644468 GGTCTTTCGGGACTTCTGTGT
1 GGTCCTTCGGGACTTCTATGT
1644489 GGTCCTTCGGGA
1 GGTCCTTCGGGA
1644501 TATTCCTACG
Statistics
Matches: 97, Mismatches: 20, Indels: 4
0.80 0.17 0.03
Matches are distributed among these distances:
21 81 0.84
23 16 0.16
ACGTcount: A:0.17, C:0.16, G:0.29, T:0.38
Consensus pattern (21 bp):
GGTCCTTCGGGACTTCTATGT
Found at i:1648504 original size:340 final size:338
Alignment explanation
Indices: 1647314--1648594 Score: 1596
Period size: 340 Copynumber: 3.8 Consensus size: 338
1647304 TACTATGTTT
* * **
1647314 TTTTTCGTATATGATTAATGAAAGCTCTGTGTACTCTTTTTCCCCTTTTACTGTCTTGATTGAGT
1 TTTTTCGGATATGATTAATGAAAGCTCTGGGTACTC-TTTTCCCCTTCCACTGTCTTGATTGAGT
* *
1647379 TTCAACTCGATCGAGTTATGAAAGAGTTTTTAACGAGATCCCTCTTACTTAAAAAAAAGTGAGCA
65 TTCAACTCGATCGAGTTATGAAGGAGTTTTTAACGAGACCCCTCTTACTTAAAAAAAAGTGAGCA
*
1647444 TGCCTCAACCATTGGGGCCAATCCAATATTTTATTATTAGATTGTAAATTTACA-TT-TTTTTT-
130 TGCCTCAACCATTGGGGTCAATCCAATATTTTATTATTAGATTGTAAATTTACATTTCTTTTTTC
* *
1647506 ACCTTAGTCTCACATAAATATTTATGAGA--TTTTTTCAAACACCCCACCA-TC-AA-TAAT-AA
195 ACCTTAGTCTCACATAAATATTTATGAGATTTTTTTTCAAACACCCCACCACCCAAACTCATCAA
* * *
1647565 TAATAATAATAATTATTTGGTTGCCCTCTCTGTTCCAATGATCGGTTGTTGGTTAATTGCTTGTA
260 T-ATTATTATTATTATTTGGTTGCCCTCTC-GTTCCAATGATCGGTTGTTGGTTAATTGCTTGTA
* * * *
1647630 TTGGATATGGATTCTTTTTACTG
323 TCGGAT-T---TAC--TGT-GTG
* * * * * **
1647653 TTTTTTCCGTATATGATTAATGAAAGCTTTGGATACT-TTTTCCTCGTCTGCTGTCTTGATTGAG
1 -TTTTT-CGGATATGATTAATGAAAGCTCTGGGTACTCTTTTCCCCTTCCACTGTCTTGATTGAG
* * ** *
1647717 TTTAAACTCGATCGAATTATGAAGGAGTTTTTTAATAAGATCCCTCTTACTTAAAAAATAAGGTG
64 TTTCAACTCGATCGAGTTATGAAGGAG-TTTTTAACGAGACCCCTCTTACTTAAAAAA-AA-GTG
1647782 AGCATGCCTCAACCATTGGGGTCAATCCAATATTTTATTATTAGATTGTAAATTTACATTTCTTT
126 AGCATGCCTCAACCATTGGGGTCAATCCAATATTTTATTATTAGATTGTAAATTTACATTTCTTT
*
1647847 TTTCACCTTATTCTCACATAAATATTTATGAGATTTTTTTTCAAACACCCCACCATCCCAAACAT
191 TTTCACCTTAGTCTCACATAAATATTTATGAGATTTTTTTTCAAACACCCCACCA-CCCAAAC-T
1647912 CATC-A-ATTA-T-TT-TTATTTGGTTGCCCTCTCGGTTCCAATGAAT-GGTTGTTGGTTAATTG
254 CATCAATATTATTATTATTATTTGGTTGCCCTCTC-GTTCCAATG-ATCGGTTGTTGGTTAATTG
1647971 CTTGTATCGGATATTGGTTCTTTTTACTGTGT-
317 CTTGTATCGG--A---------TTTACTGTGTG
* *
1648003 TTTTTAGGATATGA-TAATGAAAGCTCTGGGTACTTTTTTCCCCTTCCACTGTCTTGATTGAGTT
1 TTTTTCGGATATGATTAATGAAAGCTCTGGGTACTCTTTTCCCCTTCCACTGTCTTGATTGAGTT
* * *
1648067 TCAACTCGATTGAGTTATGAA-GAGTTTTTAATG-GAACCCCTCTTACTTAAAAAAAGGTGAGCA
66 TCAACTCGATCGAGTTATGAAGGAGTTTTTAACGAG-ACCCCTCTTACTTAAAAAAAAGTGAGCA
* * *
1648130 TGCCTCAACCATTGGGGTCAATCTAATATTTTGTTATTAGATTGTAAATTTACATTTCTTTTTCC
130 TGCCTCAACCATTGGGGTCAATCCAATATTTTATTATTAGATTGTAAATTTACATTTCTTTTTTC
* *
1648195 ACCTTAGTCTCACATAAATATTTATGAGATTTTTTTTCAAATACCCTACCACCCAAACGTCATCA
195 ACCTTAGTCTCACATAAATATTTATGAGATTTTTTTTCAAACACCCCACCACCCAAAC-TCATCA
* * *
1648260 ATTATTATTATTATTATTTGGTTGTCCTCTCGATTCCAATGGTCGGTTGTTGGTTAATTGCTTAT
259 A-TATTATTATTATTATTTGGTTGCCCTCTCG-TTCCAATGATCGGTTGTTGGTTAATTGCTTGT
1648325 ATCGGATTTACTGTGTG
322 ATCGGATTTACTGTGTG
* * *
1648342 TTTTT-GGATATGATTAATGAAATCTCTGGGTACTCTTTTCCCCTTCCGCTGCCTTGATTGAGTT
1 TTTTTCGGATATGATTAATGAAAGCTCTGGGTACTCTTTTCCCCTTCCACTGTCTTGATTGAGTT
*
1648406 TCAACTCGATCGAGTTATGAAGGAGTTTTTAACGAGACCCCTCCTACTTAAAAAAAAGTGAGCAT
66 TCAACTCGATCGAGTTATGAAGGAGTTTTTAACGAGACCCCTCTTACTTAAAAAAAAGTGAGCAT
*
1648471 GCCTCAACCATTGGGGTCAATCCAATATTTTGTTATTAGATTGTAAATTTACATTTCTTTTTTCA
131 GCCTCAACCATTGGGGTCAATCCAATATTTTATTATTAGATTGTAAATTTACATTTCTTTTTTCA
*
1648536 CCTTAGTCTCAC----GTA---A-GAGA-TTTTTTTCAAACACCCCACCACTCCAAACGTCATCA
196 CCTTAGTCTCACATAAATATTTATGAGATTTTTTTTCAAACACCCCACCAC-CCAAAC-TCATCA
1648592 ATA
259 ATA
1648595 ATAATAATAA
Statistics
Matches: 838, Mismatches: 61, Indels: 93
0.84 0.06 0.09
Matches are distributed among these distances:
331 22 0.03
332 18 0.02
333 1 0.00
336 2 0.00
338 18 0.02
339 118 0.14
340 146 0.17
341 30 0.04
342 60 0.07
343 14 0.02
344 124 0.15
345 30 0.04
346 30 0.04
347 95 0.11
348 57 0.07
349 57 0.07
350 5 0.01
351 1 0.00
352 6 0.01
354 2 0.00
357 1 0.00
358 1 0.00
ACGTcount: A:0.27, C:0.18, G:0.15, T:0.40
Consensus pattern (338 bp):
TTTTTCGGATATGATTAATGAAAGCTCTGGGTACTCTTTTCCCCTTCCACTGTCTTGATTGAGTT
TCAACTCGATCGAGTTATGAAGGAGTTTTTAACGAGACCCCTCTTACTTAAAAAAAAGTGAGCAT
GCCTCAACCATTGGGGTCAATCCAATATTTTATTATTAGATTGTAAATTTACATTTCTTTTTTCA
CCTTAGTCTCACATAAATATTTATGAGATTTTTTTTCAAACACCCCACCACCCAAACTCATCAAT
ATTATTATTATTATTTGGTTGCCCTCTCGTTCCAATGATCGGTTGTTGGTTAATTGCTTGTATCG
GATTTACTGTGTG
Found at i:1648599 original size:3 final size:3
Alignment explanation
Indices: 1648591--1648686 Score: 120
Period size: 3 Copynumber: 32.0 Consensus size: 3
1648581 AAACGTCATC
* * * * * * * *
1648591 AAT AAT AAT AAT AAT AAC AAC AAC AAC AAC AAC AAC AAC AAT AAT AAT
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT
1648639 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT
1648687 TTGGTTGCCC
Statistics
Matches: 91, Mismatches: 2, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
3 91 1.00
ACGTcount: A:0.67, C:0.08, G:0.00, T:0.25
Consensus pattern (3 bp):
AAT
Found at i:1652513 original size:24 final size:23
Alignment explanation
Indices: 1652481--1652565 Score: 98
Period size: 24 Copynumber: 3.6 Consensus size: 23
1652471 AAATATTTTA
*
1652481 TCTGATTTCCGACTTGAATTCTGT
1 TCTGATTTCTGA-TTGAATTCTGT
*
1652505 TCTGATTTCTGATCTGGATTCTGT
1 TCTGATTTCTGAT-TGAATTCTGT
* *
1652529 TCTGATATCTGTTTTGAATTCTGT
1 TCTGATTTCTG-ATTGAATTCTGT
*
1652553 TTTGATTTCTGAT
1 TCTGATTTCTGAT
1652566 ATCTCCGTTT
Statistics
Matches: 51, Mismatches: 8, Indels: 5
0.80 0.12 0.08
Matches are distributed among these distances:
23 2 0.04
24 48 0.94
25 1 0.02
ACGTcount: A:0.15, C:0.15, G:0.18, T:0.52
Consensus pattern (23 bp):
TCTGATTTCTGATTGAATTCTGT
Found at i:1652520 original size:12 final size:12
Alignment explanation
Indices: 1652480--1652565 Score: 50
Period size: 12 Copynumber: 7.2 Consensus size: 12
1652470 TAAATATTTT
*
1652480 ATCTGATTTCCG
1 ATCTGATTTCTG
*
1652492 A-CTTGAATTCTG
1 ATC-TGATTTCTG
*
1652504 TTCTGATTTCTG
1 ATCTGATTTCTG
1652516 ATCTGGA-TTCTG
1 ATCT-GATTTCTG
* *
1652528 TTCTGATATCTG
1 ATCTGATTTCTG
* * *
1652540 TTTTGAATTCTG
1 ATCTGATTTCTG
* *
1652552 TTTTGATTTCTG
1 ATCTGATTTCTG
1652564 AT
1 AT
1652566 ATCTCCGTTT
Statistics
Matches: 58, Mismatches: 12, Indels: 8
0.74 0.15 0.10
Matches are distributed among these distances:
11 3 0.05
12 52 0.90
13 3 0.05
ACGTcount: A:0.16, C:0.15, G:0.17, T:0.51
Consensus pattern (12 bp):
ATCTGATTTCTG
Found at i:1657058 original size:24 final size:23
Alignment explanation
Indices: 1657039--1657107 Score: 84
Period size: 24 Copynumber: 2.9 Consensus size: 23
1657029 GATTTCCGAC
1657039 TTGAATTCTGTTCTGATTTCTAA
1 TTGAATTCTGTTCTGATTTCTAA
* * *
1657062 TCTGGATTCTGTTCTGATATCTATT
1 T-TGAATTCTGTTCTGATTTCTA-A
*
1657087 TTGAATTCTGTTTTGATTTCT
1 TTGAATTCTGTTCTGATTTCT
1657108 GATATCTCCG
Statistics
Matches: 38, Mismatches: 6, Indels: 3
0.81 0.13 0.06
Matches are distributed among these distances:
23 1 0.03
24 36 0.95
25 1 0.03
ACGTcount: A:0.17, C:0.13, G:0.14, T:0.55
Consensus pattern (23 bp):
TTGAATTCTGTTCTGATTTCTAA
Found at i:1657102 original size:12 final size:12
Alignment explanation
Indices: 1657040--1657108 Score: 50
Period size: 12 Copynumber: 5.8 Consensus size: 12
1657030 ATTTCCGACT
1657040 TGAATTCTGTTC
1 TGAATTCTGTTC
* **
1657052 TGATTTCTAATC
1 TGAATTCTGTTC
*
1657064 TGGATTCTGTTC
1 TGAATTCTGTTC
* *
1657076 TG-ATATCTATTT
1 TGAAT-TCTGTTC
*
1657088 TGAATTCTGTTT
1 TGAATTCTGTTC
*
1657100 TGATTTCTG
1 TGAATTCTG
1657109 ATATCTCCGT
Statistics
Matches: 44, Mismatches: 11, Indels: 4
0.75 0.19 0.07
Matches are distributed among these distances:
11 2 0.05
12 40 0.91
13 2 0.05
ACGTcount: A:0.17, C:0.13, G:0.16, T:0.54
Consensus pattern (12 bp):
TGAATTCTGTTC
Found at i:1661533 original size:24 final size:24
Alignment explanation
Indices: 1661501--1661584 Score: 93
Period size: 24 Copynumber: 3.5 Consensus size: 24
1661491 AAATATTTTA
1661501 TCTGATTTCTGACTTGAATTCTGT
1 TCTGATTTCTGACTTGAATTCTGT
*
1661525 TCTGATTTCTGATCTTG-ATTATGT
1 TCTGATTTCTGA-CTTGAATTCTGT
*
1661549 TCTGATATT-TG-TTCTGAATTCTGT
1 TCTGAT-TTCTGACT-TGAATTCTGT
*
1661573 TTTGATTTCTGA
1 TCTGATTTCTGA
1661585 TATCTCCGTT
Statistics
Matches: 50, Mismatches: 4, Indels: 11
0.77 0.06 0.17
Matches are distributed among these distances:
22 1 0.02
23 4 0.08
24 39 0.78
25 6 0.12
ACGTcount: A:0.17, C:0.13, G:0.17, T:0.54
Consensus pattern (24 bp):
TCTGATTTCTGACTTGAATTCTGT
Found at i:1661534 original size:12 final size:12
Alignment explanation
Indices: 1661501--1661583 Score: 64
Period size: 12 Copynumber: 6.9 Consensus size: 12
1661491 AAATATTTTA
1661501 TCTGATTTCTG-
1 TCTGATTTCTGT
* *
1661512 ACTTGAATTCTGT
1 TC-TGATTTCTGT
*
1661525 TCTGATTTCTGA
1 TCTGATTTCTGT
*
1661537 TCTTGA-TTATGT
1 TC-TGATTTCTGT
1661549 TCTGATATT-TGT
1 TCTGAT-TTCTGT
*
1661561 TCTGAATTCTGT
1 TCTGATTTCTGT
*
1661573 TTTGATTTCTG
1 TCTGATTTCTG
1661584 ATATCTCCGT
Statistics
Matches: 56, Mismatches: 10, Indels: 11
0.73 0.13 0.14
Matches are distributed among these distances:
11 6 0.11
12 44 0.79
13 6 0.11
ACGTcount: A:0.16, C:0.13, G:0.17, T:0.54
Consensus pattern (12 bp):
TCTGATTTCTGT
Found at i:1664192 original size:2 final size:2
Alignment explanation
Indices: 1664152--1664184 Score: 66
Period size: 2 Copynumber: 16.5 Consensus size: 2
1664142 ATTCTTTATT
1664152 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
1664185 CAATATATTT
Statistics
Matches: 31, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 31 1.00
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (2 bp):
TA
Found at i:1670435 original size:2 final size:2
Alignment explanation
Indices: 1670424--1670455 Score: 57
Period size: 2 Copynumber: 16.5 Consensus size: 2
1670414 CAGAACAAAA
1670424 AT AT -T 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 AT AT AT A
1670456 AGGTTCTTCC
Statistics
Matches: 29, Mismatches: 0, Indels: 2
0.94 0.00 0.06
Matches are distributed among these distances:
1 1 0.03
2 28 0.97
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:1676059 original size:17 final size:18
Alignment explanation
Indices: 1676037--1676074 Score: 51
Period size: 17 Copynumber: 2.2 Consensus size: 18
1676027 ATTTTTGTAC
1676037 TTTTTAATAATT-TTTAT
1 TTTTTAATAATTATTTAT
* *
1676054 TTTTTATTGATTATTTAT
1 TTTTTAATAATTATTTAT
1676072 TTT
1 TTT
1676075 CGTCTCTTAA
Statistics
Matches: 18, Mismatches: 2, Indels: 1
0.86 0.10 0.05
Matches are distributed among these distances:
17 10 0.56
18 8 0.44
ACGTcount: A:0.24, C:0.00, G:0.03, T:0.74
Consensus pattern (18 bp):
TTTTTAATAATTATTTAT
Found at i:1680475 original size:18 final size:18
Alignment explanation
Indices: 1680429--1680464 Score: 72
Period size: 18 Copynumber: 2.0 Consensus size: 18
1680419 ATCGACACTT
1680429 GTCAAAATCACCTGCATA
1 GTCAAAATCACCTGCATA
1680447 GTCAAAATCACCTGCATA
1 GTCAAAATCACCTGCATA
1680465 TTCTGAATCA
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
18 18 1.00
ACGTcount: A:0.39, C:0.28, G:0.11, T:0.22
Consensus pattern (18 bp):
GTCAAAATCACCTGCATA
Found at i:1682001 original size:63 final size:63
Alignment explanation
Indices: 1681934--1682052 Score: 159
Period size: 63 Copynumber: 1.9 Consensus size: 63
1681924 CATAAATCCT
* * * *
1681934 ATTCGATG-TTTACATTTAAGGGGGTACATCGATGCACTACTTGTGTATCGATACACTGATGGC
1 ATTCGATGTTTTA-ATTTAAAGGAGTACATCGATGCACTACATGTGCATCGATACACTGATGGC
* * *
1681997 ATTCGATGTTTTATTTTAAAGGAGTGCATCGATGCACTTCATGTGCATCGATACAC
1 ATTCGATGTTTTAATTTAAAGGAGTACATCGATGCACTACATGTGCATCGATACAC
1682053 CTTGAATAAT
Statistics
Matches: 48, Mismatches: 7, Indels: 2
0.84 0.12 0.04
Matches are distributed among these distances:
63 44 0.92
64 4 0.08
ACGTcount: A:0.26, C:0.18, G:0.22, T:0.34
Consensus pattern (63 bp):
ATTCGATGTTTTAATTTAAAGGAGTACATCGATGCACTACATGTGCATCGATACACTGATGGC
Found at i:1688897 original size:12 final size:12
Alignment explanation
Indices: 1688869--1688967 Score: 55
Period size: 12 Copynumber: 8.2 Consensus size: 12
1688859 ATTATTAACC
1688869 TATTTAA-AATA
1 TATTTAATAATA
*
1688880 TATTTATTAATA
1 TATTTAATAATA
*
1688892 TTTTTAATAATA
1 TATTTAATAATA
*
1688904 TA-AT-ATAATA
1 TATTTAATAATA
*
1688914 TAATAATAATAATA
1 T-AT-TTAATAATA
*
1688928 TTATTACAATAATA
1 -TATT-TAATAATA
* *
1688942 TACTCAAT--TA
1 TATTTAATAATA
1688952 TATTATAATAATA
1 TATT-TAATAATA
1688965 TAT
1 TAT
1688968 GATACTATTA
Statistics
Matches: 68, Mismatches: 10, Indels: 18
0.71 0.10 0.19
Matches are distributed among these distances:
10 12 0.18
11 11 0.16
12 19 0.28
13 10 0.15
14 15 0.22
15 1 0.01
ACGTcount: A:0.51, C:0.03, G:0.00, T:0.46
Consensus pattern (12 bp):
TATTTAATAATA
Found at i:1688911 original size:10 final size:11
Alignment explanation
Indices: 1688898--1688966 Score: 52
Period size: 11 Copynumber: 6.3 Consensus size: 11
1688888 AATATTTTTA
1688898 ATAAT-ATAAT
1 ATAATAATAAT
1688908 ATAAT-ATAAT
1 ATAATAATAAT
*
1688918 AATAATAATATT
1 -ATAATAATAAT
* *
1688930 ATTACAATAAT
1 ATAATAATAAT
* *
1688941 ATACTCAATTAT
1 ATAAT-AATAAT
*
1688953 ATTATAATAAT
1 ATAATAATAAT
1688964 ATA
1 ATA
1688967 TGATACTATT
Statistics
Matches: 44, Mismatches: 12, Indels: 5
0.72 0.20 0.08
Matches are distributed among these distances:
10 10 0.23
11 22 0.50
12 12 0.27
ACGTcount: A:0.55, C:0.04, G:0.00, T:0.41
Consensus pattern (11 bp):
ATAATAATAAT
Found at i:1689142 original size:23 final size:21
Alignment explanation
Indices: 1689115--1689169 Score: 56
Period size: 23 Copynumber: 2.4 Consensus size: 21
1689105 TAGTCTAATA
1689115 ATATTATAAAAATTCCTTAAAAT
1 ATATTATAAAAATT--TTAAAAT
*
1689138 ATATTTATTAATAATTTTAAAAT
1 ATA-TTA-TAAAAATTTTAAAAT
*
1689161 ATAATATAA
1 ATATTATAA
1689170 TATTTTTATT
Statistics
Matches: 28, Mismatches: 2, Indels: 6
0.78 0.06 0.17
Matches are distributed among these distances:
21 3 0.11
22 2 0.07
23 13 0.46
24 3 0.11
25 7 0.25
ACGTcount: A:0.53, C:0.04, G:0.00, T:0.44
Consensus pattern (21 bp):
ATATTATAAAAATTTTAAAAT
Found at i:1689170 original size:21 final size:23
Alignment explanation
Indices: 1689131--1689177 Score: 62
Period size: 21 Copynumber: 2.1 Consensus size: 23
1689121 TAAAAATTCC
*
1689131 TTAAAATATATTTATTAATAATT
1 TTAAAATATATATATTAATAATT
*
1689154 TTAAAATATA-ATA-TAATATTT
1 TTAAAATATATATATTAATAATT
1689175 TTA
1 TTA
1689178 TTTTTATAGA
Statistics
Matches: 22, Mismatches: 2, Indels: 2
0.85 0.08 0.08
Matches are distributed among these distances:
21 10 0.45
22 2 0.09
23 10 0.45
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (23 bp):
TTAAAATATATATATTAATAATT
Found at i:1689370 original size:22 final size:20
Alignment explanation
Indices: 1689318--1689371 Score: 63
Period size: 22 Copynumber: 2.5 Consensus size: 20
1689308 ATTATTCTAA
*
1689318 TATTTTTAAAATAATAATAT
1 TATTTTTATAATAATAATAT
1689338 TAAGTTTTTATAATAAATAATAT
1 T-A-TTTTTATAAT-AATAATAT
1689361 TATTTATTATA
1 TATTT-TTATA
1689372 TTTTATATTT
Statistics
Matches: 29, Mismatches: 1, Indels: 6
0.81 0.03 0.17
Matches are distributed among these distances:
20 1 0.03
21 4 0.14
22 15 0.52
23 9 0.31
ACGTcount: A:0.46, C:0.00, G:0.02, T:0.52
Consensus pattern (20 bp):
TATTTTTATAATAATAATAT
Found at i:1691092 original size:13 final size:13
Alignment explanation
Indices: 1691074--1691100 Score: 54
Period size: 13 Copynumber: 2.1 Consensus size: 13
1691064 ATTAATGTAC
1691074 AAAATAAAAGGAT
1 AAAATAAAAGGAT
1691087 AAAATAAAAGGAT
1 AAAATAAAAGGAT
1691100 A
1 A
1691101 GTATATTTTT
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 14 1.00
ACGTcount: A:0.70, C:0.00, G:0.15, T:0.15
Consensus pattern (13 bp):
AAAATAAAAGGAT
Found at i:1696292 original size:7 final size:7
Alignment explanation
Indices: 1696282--1696348 Score: 50
Period size: 7 Copynumber: 9.4 Consensus size: 7
1696272 ATTTTTTTTA
1696282 AAAAATT
1 AAAAATT
*
1696289 AAAAGTT
1 AAAAATT
*
1696296 AAAATATA
1 AAAA-ATT
1696304 AAAATATT
1 AAAA-ATT
1696312 AAAAATT
1 AAAAATT
*
1696319 AAATA-T
1 AAAAATT
1696325 -AAAATGCT
1 AAAAAT--T
1696333 AAAAA-T
1 AAAAATT
1696339 AAAAATT
1 AAAAATT
1696346 AAA
1 AAA
1696349 TATATGAAAC
Statistics
Matches: 48, Mismatches: 6, Indels: 12
0.73 0.09 0.18
Matches are distributed among these distances:
5 3 0.06
6 7 0.15
7 21 0.44
8 13 0.27
9 4 0.08
ACGTcount: A:0.69, C:0.01, G:0.03, T:0.27
Consensus pattern (7 bp):
AAAAATT
Found at i:1696322 original size:22 final size:22
Alignment explanation
Indices: 1696280--1696328 Score: 73
Period size: 22 Copynumber: 2.2 Consensus size: 22
1696270 TTATTTTTTT
*
1696280 TAAAAAATTAAAAGTTAAAATA
1 TAAAAAATTAAAAATTAAAATA
1696302 TAAAAATATTAAAAATT-AAATA
1 TAAAAA-ATTAAAAATTAAAATA
1696324 TAAAA
1 TAAAA
1696329 TGCTAAAAAT
Statistics
Matches: 25, Mismatches: 1, Indels: 2
0.89 0.04 0.07
Matches are distributed among these distances:
22 16 0.64
23 9 0.36
ACGTcount: A:0.69, C:0.00, G:0.02, T:0.29
Consensus pattern (22 bp):
TAAAAAATTAAAAATTAAAATA
Found at i:1696344 original size:22 final size:21
Alignment explanation
Indices: 1696295--1696350 Score: 60
Period size: 21 Copynumber: 2.7 Consensus size: 21
1696285 AATTAAAAGT
*
1696295 TAAAATATAAAAATATTAAAAA
1 TAAAATAT-AAAATACTAAAAA
* *
1696317 TTAAATATAAAATGCTAAAAA
1 TAAAATATAAAATACTAAAAA
*
1696338 TAAAA-ATTAAATA
1 TAAAATATAAAATA
1696351 TATGAAACAC
Statistics
Matches: 28, Mismatches: 6, Indels: 2
0.78 0.17 0.06
Matches are distributed among these distances:
20 6 0.21
21 15 0.54
22 7 0.25
ACGTcount: A:0.68, C:0.02, G:0.02, T:0.29
Consensus pattern (21 bp):
TAAAATATAAAATACTAAAAA
Found at i:1697267 original size:17 final size:18
Alignment explanation
Indices: 1697245--1697278 Score: 52
Period size: 18 Copynumber: 1.9 Consensus size: 18
1697235 TCAGCCGGTC
1697245 CGGTTC-GAACGGTTCAG
1 CGGTTCTGAACGGTTCAG
*
1697262 CGGTTCTGACCGGTTCA
1 CGGTTCTGAACGGTTCA
1697279 CTAATAGCAG
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
17 6 0.40
18 9 0.60
ACGTcount: A:0.15, C:0.26, G:0.32, T:0.26
Consensus pattern (18 bp):
CGGTTCTGAACGGTTCAG
Found at i:1697598 original size:17 final size:16
Alignment explanation
Indices: 1697570--1697603 Score: 50
Period size: 16 Copynumber: 2.1 Consensus size: 16
1697560 ATATATGACT
*
1697570 TTTTTAATATTTCTAA
1 TTTTTAATATTTATAA
1697586 TTTTTAATAATTTATAA
1 TTTTTAAT-ATTTATAA
1697603 T
1 T
1697604 GAATCATTTT
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
16 8 0.50
17 8 0.50
ACGTcount: A:0.35, C:0.03, G:0.00, T:0.62
Consensus pattern (16 bp):
TTTTTAATATTTATAA
Found at i:1701311 original size:25 final size:25
Alignment explanation
Indices: 1701283--1701331 Score: 64
Period size: 25 Copynumber: 2.0 Consensus size: 25
1701273 ATACATCATA
*
1701283 AATTATAAAATGATAA-ATTATAAAT
1 AATTA-AAAATGAAAATATTATAAAT
*
1701308 AATTAAAAATTAAAATATTATAAA
1 AATTAAAAATGAAAATATTATAAA
1701332 ACATATATAT
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
24 8 0.38
25 13 0.62
ACGTcount: A:0.63, C:0.00, G:0.02, T:0.35
Consensus pattern (25 bp):
AATTAAAAATGAAAATATTATAAAT
Found at i:1701327 original size:15 final size:18
Alignment explanation
Indices: 1701259--1701332 Score: 56
Period size: 17 Copynumber: 4.4 Consensus size: 18
1701249 ACCAAAAACG
1701259 TTATAAAAATTA-AAATACA
1 TTAT-AAAATTATAAATA-A
*
1701278 TCAT-AAATTAT-AA-AA
1 TTATAAAATTATAAATAA
*
1701293 TGAT-AAATTATAAATAA
1 TTATAAAATTATAAATAA
1701310 TTA-AAAATTA-AAAT-A
1 TTATAAAATTATAAATAA
1701325 TTATAAAA
1 TTATAAAA
1701333 CATATATATT
Statistics
Matches: 47, Mismatches: 3, Indels: 13
0.75 0.05 0.21
Matches are distributed among these distances:
15 15 0.32
16 11 0.23
17 18 0.38
19 3 0.06
ACGTcount: A:0.62, C:0.03, G:0.01, T:0.34
Consensus pattern (18 bp):
TTATAAAATTATAAATAA
Found at i:1701916 original size:182 final size:182
Alignment explanation
Indices: 1701609--1702028 Score: 642
Period size: 182 Copynumber: 2.3 Consensus size: 182
1701599 TATGTCGATA
* * * * *
1701609 CTTTATAAAAATGTATCGATCCACATCAATATAATAGGAAAAAATATGACAAAACCAGTCACGAA
1 CTTTATAAATATGTATCGATCCACAACGATATAACAGGTAAAAATATGACAAAACCAGTCACGAA
** * *
1701674 AAGACAAAACCGGTAAAGCGCTACCGGATATATTGCAAGTGTCGATACTTTAATATAAGTATCGA
66 AAGACAAAACCGGTAAAAAGATACCGGATATATTGAAAGTGTCGATACTTTAATATAAGTATCGA
* * *
1701739 CACATAGTGAATTTAAAGGAGAAGCAGTTTTAGTGCCTATAAAGTGTCAATT
131 CACATAGAGAATTTAAAGGAGAAACAGTTTTAGCGCCTATAAAGTGTCAATT
* * * * * *
1701791 CTTTATAAATATGTATCGATCCACAACGATATAACATGTAAAAATATAACAAAATCGGTCAGGAG
1 CTTTATAAATATGTATCGATCCACAACGATATAACAGGTAAAAATATGACAAAACCAGTCACGAA
*
1701856 AAGACAAAACCGGTAAAAAGATACTGGATATATTGAAAGTGTCGATACTTTAATATAAGTATCGA
66 AAGACAAAACCGGTAAAAAGATACCGGATATATTGAAAGTGTCGATACTTTAATATAAGTATCGA
* * *
1701921 CACATAGAGAATTTAAAGGAGAAATAGTTTTAGCGCTTATAAAGTGTCGATT
131 CACATAGAGAATTTAAAGGAGAAACAGTTTTAGCGCCTATAAAGTGTCAATT
1701973 CTTTATAAATATGTATCGATCCACAACGATATAACAGGTAAAAATATGACAAAACC
1 CTTTATAAATATGTATCGATCCACAACGATATAACAGGTAAAAATATGACAAAACC
1702029 GGCAAAGCGA
Statistics
Matches: 213, Mismatches: 25, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
182 213 1.00
ACGTcount: A:0.43, C:0.14, G:0.16, T:0.26
Consensus pattern (182 bp):
CTTTATAAATATGTATCGATCCACAACGATATAACAGGTAAAAATATGACAAAACCAGTCACGAA
AAGACAAAACCGGTAAAAAGATACCGGATATATTGAAAGTGTCGATACTTTAATATAAGTATCGA
CACATAGAGAATTTAAAGGAGAAACAGTTTTAGCGCCTATAAAGTGTCAATT
Found at i:1702029 original size:162 final size:162
Alignment explanation
Indices: 1701858--1702193 Score: 539
Period size: 162 Copynumber: 2.1 Consensus size: 162
1701848 GTCAGGAGAA
*
1701858 GACAAAACCGGTAAAAAGATA-CTGGATATATTGAAAGTGTCGATACTTTAATATAAGTATCGAC
1 GACAAAACCGGTAAAAAGATATC-GAATATATTGAAAGTGTCGATACTTTAATATAAGTATCGAC
* * *
1701922 ACATAGAGAATTTAAAGGAGAAATAGTTTTAGCGCTTATAAAGTGTCGATTCTTTATAAATATGT
65 ACATAGAGAATATAAAGGAGAAACAGTTTTAGCGCCTATAAAGTGTCGATTCTTTATAAATATGT
* *
1701987 ATCGATCCACAACGATATAACAGGTAAAAATAT
130 ATCGATCCACAACAATATAACAAGTAAAAATAT
* ** *
1702020 GACAAAACCGGCAAAGCGATATCGAATATATTGAAAGTGTCTATACTTTAATATAAGTATCGACA
1 GACAAAACCGGTAAAAAGATATCGAATATATTGAAAGTGTCGATACTTTAATATAAGTATCGACA
* *
1702085 CATAGTGAATATAAAGGATAAACAGTTTTAGCGCCTATAAAGTGTCGATTCTTTATAAATATGTA
66 CATAGAGAATATAAAGGAGAAACAGTTTTAGCGCCTATAAAGTGTCGATTCTTTATAAATATGTA
*
1702150 TCTATCCACAACAATATAACAAGTAAAAATAT
131 TCGATCCACAACAATATAACAAGTAAAAATAT
1702182 GACAAAACCGGT
1 GACAAAACCGGT
1702194 CAGGAGAAGA
Statistics
Matches: 159, Mismatches: 14, Indels: 2
0.91 0.08 0.01
Matches are distributed among these distances:
162 158 0.99
163 1 0.01
ACGTcount: A:0.42, C:0.13, G:0.16, T:0.28
Consensus pattern (162 bp):
GACAAAACCGGTAAAAAGATATCGAATATATTGAAAGTGTCGATACTTTAATATAAGTATCGACA
CATAGAGAATATAAAGGAGAAACAGTTTTAGCGCCTATAAAGTGTCGATTCTTTATAAATATGTA
TCGATCCACAACAATATAACAAGTAAAAATAT
Found at i:1702220 original size:20 final size:20
Alignment explanation
Indices: 1702182--1702220 Score: 51
Period size: 20 Copynumber: 1.9 Consensus size: 20
1702172 GTAAAAATAT
* *
1702182 GACAAAACCGGTCAGGAGAA
1 GACAAAACCGGTAAAGAGAA
*
1702202 GACAAAATCGGTAAAGAGA
1 GACAAAACCGGTAAAGAGA
1702221 TACCAGATAT
Statistics
Matches: 16, Mismatches: 3, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
20 16 1.00
ACGTcount: A:0.49, C:0.15, G:0.28, T:0.08
Consensus pattern (20 bp):
GACAAAACCGGTAAAGAGAA
Found at i:1702308 original size:344 final size:348
Alignment explanation
Indices: 1701676--1703103 Score: 1809
Period size: 344 Copynumber: 4.0 Consensus size: 348
1701666 GTCACGAAAA
* * *
1701676 GACAAAACCGGT--A-AAG-CGCTACCGGATATATTGCAAGTGTCGATACTTTAATATAAGTATC
1 GACAAAACCGGTCGAGAAGACGATACCGAATATATTGAAAGTGTCGATACTTTAATATAAGTATC
* * *
1701737 GACACATAGTGAATTTAAAGGAGAAGCAGTTTTAGTGCCTATAAAGTGTCAATTCTTTATAAATA
66 GACACATAGTGAATTTAAAGGAGAAACAGTTTTAGCGCCTATAAAGTGTCGATTCTTTATAAATA
* * * * * *
1701802 TGTATCGATCCACAACGATATAACATGTAAAAATATAACAAAATCGGTCAGGAGAAGACAAAACC
131 TGTATCGATCCACAACAATATAACAAGTAAAAATATGACAAAACCGGTCACGAAAAGACAAAACC
* * *
1701867 GGTAAAAAGATACTGGATATATTGAAAGTGTCGATACTTTAATATAAGTATCGACACATAGAGAA
196 GGTAAAGAGATACCGGATATATTGAAAGTGTCGATACTTTAATATAAGTATCGACACATAGTGAA
* *
1701932 TTTAAAGGAGAAATAGTTTTAGCGCTTATAAAGTGTCGATTCTTTATAAATATGTATCGATCCAC
261 TTTAAAGGAGAAACAGTTTTAGCGCCTATAAAGTGTCGATTCTTTATAAATATGTATCGATCCAC
1701997 AACGATATAACAGGTAAAAATAT
326 AACGATATAACAGGTAAAAATAT
* *
1702020 GACAAAACCGG-C-A-AAG-CGATATCGAATATATTGAAAGTGTCTATACTTTAATATAAGTATC
1 GACAAAACCGGTCGAGAAGACGATACCGAATATATTGAAAGTGTCGATACTTTAATATAAGTATC
* *
1702081 GACACATAGTGAATATAAAGGATAAACAGTTTTAGCGCCTATAAAGTGTCGATTCTTTATAAATA
66 GACACATAGTGAATTTAAAGGAGAAACAGTTTTAGCGCCTATAAAGTGTCGATTCTTTATAAATA
* * * *
1702146 TGTATCTATCCACAACAATATAACAAGTAAAAATATGACAAAACCGGTCAGGAGAAGACAAAATC
131 TGTATCGATCCACAACAATATAACAAGTAAAAATATGACAAAACCGGTCACGAAAAGACAAAACC
* * *
1702211 GGTAAAGAGATACCAGATATATTGAAAGTGTCGATACTTTAATATAAGTATCGACATATTGTGAA
196 GGTAAAGAGATACCGGATATATTGAAAGTGTCGATACTTTAATATAAGTATCGACACATAGTGAA
*
1702276 TTTAAAGGAGAAGCAGTTTTAGCGCCTATAAAGTGTCGATTCTTTATAAATATGTATCGATCCAC
261 TTTAAAGGAGAAACAGTTTTAGCGCCTATAAAGTGTCGATTCTTTATAAATATGTATCGATCCAC
1702341 AACGATATAACAGGTAAAAATAT
326 AACGATATAACAGGTAAAAATAT
* *
1702364 GACAAAACCGGTCAGGAGAAGACAAAACCGGTAAAGAGATACCGAATATATTGAAAGTGTCAACA
1 GACAAAACCGGTC--GAGAAG-----A-C--------GATACCGAATATATTGAAAGTGTCGATA
* * *
1702429 CTTTAATATAAGTATCGACCCATTGTGAATTTAAAGGAGAAGA-AGTTTTAGTGCCTATAAAGTG
50 CTTTAATATAAGTATCGACACATAGTGAATTTAAAGGAGAA-ACAGTTTTAGCGCCTATAAAGTG
* * * * * * *
1702493 TCGATTCTTTATAAATATGTATCAATCCACATCAATAAAATAGGAAAAAATATGACAAAACCAGT
114 TCGATTCTTTATAAATATGTATCGATCCACAACAATATAACAAGTAAAAATATGACAAAACCGGT
* * * *
1702558 CACGAAAAGA-AAAACCGGTAAAGCGCTACCGGATATATTGCAAGTGTCGATACTTGAATATAAG
179 CACGAAAAGACAAAACCGGTAAAGAGATACCGGATATATTGAAAGTGTCGATACTTTAATATAAG
**
1702622 TATCGACACATAGTGAATTTAAAGGAGAAGTAGTTTTAGCGCCTATAAAGTGTCGATTCTTTATA
244 TATCGACACATAGTGAATTTAAAGGAGAAACAGTTTTAGCGCCTATAAAGTGTCGATTCTTTATA
*
1702687 AATATGTATTGATCCACAACGATATAACAGGTAAAAATAT
309 AATATGTATCGATCCACAACGATATAACAGGTAAAAATAT
1702727 GACAAAACCGGTCAGGAGAAGACAAAACCGATAAAGAGATACC-AGATATATTGAAAGTGTCGAT
1 GACAAAACCGGTC--GAGAAG-----A-C--------GATACCGA-ATATATTGAAAGTGTCGAT
* *
1702791 ACTTTAATATAAGTATCGACACATTA-TGAATTTAAAGGAGCAGCAGTTTTAGCGCCTATAAAGT
49 ACTTTAATATAAGTATCGACACA-TAGTGAATTTAAAGGAGAAACAGTTTTAGCGCCTATAAAGT
* * *
1702855 GTCGATTCTTTATAAATATGTATCGATCCACAACGATATAACAAGTTAAAATATGATAAAACCGG
113 GTCGATTCTTTATAAATATGTATCGATCCACAACAATATAACAAGTAAAAATATGACAAAACCGG
* * * * * * *
1702920 TCTCGAAAAGACAAAACCGGTAAAGCGCTACCGAATACATTGAAAGTGTTGATAATTTAATATAA
178 TCACGAAAAGACAAAACCGGTAAAGAGATACCGGATATATTGAAAGTGTCGATACTTTAATATAA
* * * * ** *
1702985 GTATCGACACTTTGTGAATTTAAAAGAGAAACAATTTTAGCATCTATAAAGTGTCGATACTTTAT
243 GTATCGACACATAGTGAATTTAAAGGAGAAACAGTTTTAGCGCCTATAAAGTGTCGATTCTTTAT
* * *
1703050 AAAAATGTATCGATCCATAACGATATAAAAGGTAAAAATAT
308 AAATATGTATCGATCCACAACGATATAACAGGTAAAAATAT
**
1703091 GGTAAAACCGGTC
1 GACAAAACCGGTC
1703104 TCTAAGTGAC
Statistics
Matches: 966, Mismatches: 92, Indels: 32
0.89 0.08 0.03
Matches are distributed among these distances:
344 329 0.34
345 1 0.00
348 1 0.00
349 3 0.00
356 1 0.00
362 1 0.00
363 329 0.34
364 300 0.31
365 1 0.00
ACGTcount: A:0.42, C:0.14, G:0.18, T:0.27
Consensus pattern (348 bp):
GACAAAACCGGTCGAGAAGACGATACCGAATATATTGAAAGTGTCGATACTTTAATATAAGTATC
GACACATAGTGAATTTAAAGGAGAAACAGTTTTAGCGCCTATAAAGTGTCGATTCTTTATAAATA
TGTATCGATCCACAACAATATAACAAGTAAAAATATGACAAAACCGGTCACGAAAAGACAAAACC
GGTAAAGAGATACCGGATATATTGAAAGTGTCGATACTTTAATATAAGTATCGACACATAGTGAA
TTTAAAGGAGAAACAGTTTTAGCGCCTATAAAGTGTCGATTCTTTATAAATATGTATCGATCCAC
AACGATATAACAGGTAAAAATAT
Found at i:1702327 original size:182 final size:182
Alignment explanation
Indices: 1702020--1703168 Score: 1608
Period size: 182 Copynumber: 6.3 Consensus size: 182
1702010 GTAAAAATAT
* * * *
1702020 GACAAAACCGGCAAAGCGATATCGAATATATTGAAAGTGTCTATACTTTAATATAAGTATCGACA
1 GACAAAACCGGTAAAGAGATACCGAATATATTGAAAGTGTCGATACTTTAATATAAGTATCGACA
* * * *
1702085 CATAGTGAATATAAAGGATAAACAGTTTTAGCGCCTATAAAGTGTCGATTCTTTATAAATATGTA
66 CATTGTGAATTTAAAGGAGAAGCAGTTTTAGCGCCTATAAAGTGTCGATTCTTTATAAATATGTA
* * *
1702150 TCTATCCACAACAATATAACAAGTAAAAATATGACAAAACCGGTCAGGAGAA
131 TCGATCCACAACGATATAACAAGTAAAAATATGACAAAACCGGTCACGAGAA
*
1702202 GACAAAATCGGTAAAGAGATACC-AGATATATTGAAAGTGTCGATACTTTAATATAAGTATCGAC
1 GACAAAACCGGTAAAGAGATACCGA-ATATATTGAAAGTGTCGATACTTTAATATAAGTATCGAC
*
1702266 ATATTGTGAATTTAAAGGAGAAGCAGTTTTAGCGCCTATAAAGTGTCGATTCTTTATAAATATGT
65 ACATTGTGAATTTAAAGGAGAAGCAGTTTTAGCGCCTATAAAGTGTCGATTCTTTATAAATATGT
* *
1702331 ATCGATCCACAACGATATAACAGGTAAAAATATGACAAAACCGGTCAGGAGAA
130 ATCGATCCACAACGATATAACAAGTAAAAATATGACAAAACCGGTCACGAGAA
* * *
1702384 GACAAAACCGGTAAAGAGATACCGAATATATTGAAAGTGTCAACACTTTAATATAAGTATCGACC
1 GACAAAACCGGTAAAGAGATACCGAATATATTGAAAGTGTCGATACTTTAATATAAGTATCGACA
* *
1702449 CATTGTGAATTTAAAGGAGAAGAAGTTTTAGTGCCTATAAAGTGTCGATTCTTTATAAATATGTA
66 CATTGTGAATTTAAAGGAGAAGCAGTTTTAGCGCCTATAAAGTGTCGATTCTTTATAAATATGTA
* * * * * * * * *
1702514 TCAATCCACATCAATAAAATAGGAAAAAATATGACAAAACCAGTCACGAAAA
131 TCGATCCACAACGATATAACAAGTAAAAATATGACAAAACCGGTCACGAGAA
* * * * *
1702566 GA-AAAACCGGTAAAGCGCTACCGGATATATTGCAAGTGTCGATACTTGAATATAAGTATCGACA
1 GACAAAACCGGTAAAGAGATACCGAATATATTGAAAGTGTCGATACTTTAATATAAGTATCGACA
* *
1702630 CATAGTGAATTTAAAGGAGAAGTAGTTTTAGCGCCTATAAAGTGTCGATTCTTTATAAATATGTA
66 CATTGTGAATTTAAAGGAGAAGCAGTTTTAGCGCCTATAAAGTGTCGATTCTTTATAAATATGTA
* * *
1702695 TTGATCCACAACGATATAACAGGTAAAAATATGACAAAACCGGTCAGGAGAA
131 TCGATCCACAACGATATAACAAGTAAAAATATGACAAAACCGGTCACGAGAA
*
1702747 GACAAAACCGATAAAGAGATACC-AGATATATTGAAAGTGTCGATACTTTAATATAAGTATCGAC
1 GACAAAACCGGTAAAGAGATACCGA-ATATATTGAAAGTGTCGATACTTTAATATAAGTATCGAC
* *
1702811 ACATTATGAATTTAAAGGAGCAGCAGTTTTAGCGCCTATAAAGTGTCGATTCTTTATAAATATGT
65 ACATTGTGAATTTAAAGGAGAAGCAGTTTTAGCGCCTATAAAGTGTCGATTCTTTATAAATATGT
* * * *
1702876 ATCGATCCACAACGATATAACAAGTTAAAATATGATAAAACCGGTCTCGAAAA
130 ATCGATCCACAACGATATAACAAGTAAAAATATGACAAAACCGGTCACGAGAA
* * * * *
1702929 GACAAAACCGGTAAAGCGCTACCGAATACATTGAAAGTGTTGATAATTTAATATAAGTATCGACA
1 GACAAAACCGGTAAAGAGATACCGAATATATTGAAAGTGTCGATACTTTAATATAAGTATCGACA
* * * * ** * *
1702994 CTTTGTGAATTTAAAAGAGAAACAATTTTAGCATCTATAAAGTGTCGATACTTTATAAAAATGTA
66 CATTGTGAATTTAAAGGAGAAGCAGTTTTAGCGCCTATAAAGTGTCGATTCTTTATAAATATGTA
* ** * * *
1703059 TCGATCCATAACGATATAA-AAGGTAAAAATATGGTAAAACCGGTCTCTA-AGT
131 TCGATCCACAACGATATAACAA-GTAAAAATATGACAAAACCGGTCACGAGA-A
* * *
1703111 GACAAAACCGGTAAAGCGTTACTGAATATATTGAAAGTGTCGATACTTTAATA-AAGTA
1 GACAAAACCGGTAAAGAGATACCGAATATATTGAAAGTGTCGATACTTTAATATAAGTA
1703169 CTCTTAATAA
Statistics
Matches: 867, Mismatches: 93, Indels: 15
0.89 0.10 0.02
Matches are distributed among these distances:
181 169 0.19
182 696 0.80
183 2 0.00
ACGTcount: A:0.42, C:0.14, G:0.17, T:0.27
Consensus pattern (182 bp):
GACAAAACCGGTAAAGAGATACCGAATATATTGAAAGTGTCGATACTTTAATATAAGTATCGACA
CATTGTGAATTTAAAGGAGAAGCAGTTTTAGCGCCTATAAAGTGTCGATTCTTTATAAATATGTA
TCGATCCACAACGATATAACAAGTAAAAATATGACAAAACCGGTCACGAGAA
Found at i:1702402 original size:20 final size:20
Alignment explanation
Indices: 1702364--1702402 Score: 60
Period size: 20 Copynumber: 1.9 Consensus size: 20
1702354 GTAAAAATAT
* *
1702364 GACAAAACCGGTCAGGAGAA
1 GACAAAACCGGTAAAGAGAA
1702384 GACAAAACCGGTAAAGAGA
1 GACAAAACCGGTAAAGAGA
1702403 TACCGAATAT
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
20 17 1.00
ACGTcount: A:0.49, C:0.18, G:0.28, T:0.05
Consensus pattern (20 bp):
GACAAAACCGGTAAAGAGAA
Found at i:1702765 original size:20 final size:20
Alignment explanation
Indices: 1702727--1702765 Score: 51
Period size: 20 Copynumber: 1.9 Consensus size: 20
1702717 GTAAAAATAT
* * *
1702727 GACAAAACCGGTCAGGAGAA
1 GACAAAACCGATAAAGAGAA
1702747 GACAAAACCGATAAAGAGA
1 GACAAAACCGATAAAGAGA
1702766 TACCAGATAT
Statistics
Matches: 16, Mismatches: 3, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
20 16 1.00
ACGTcount: A:0.51, C:0.18, G:0.26, T:0.05
Consensus pattern (20 bp):
GACAAAACCGATAAAGAGAA
Found at i:1703052 original size:545 final size:546
Alignment explanation
Indices: 1702020--1703168 Score: 1750
Period size: 545 Copynumber: 2.1 Consensus size: 546
1702010 GTAAAAATAT
* * *
1702020 GACAAAACCGGCAAAGCGATATCGAATATATTGAAAGTGTCTATACTTTAATATAAGTATCGACA
1 GACAAAACCGGTAAAGCGATACCGAATATATTGAAAGTGTCGATACTTTAATATAAGTATCGACA
*
1702085 CATAGTGAATATAAAGGATAAACAGTTTTAGCGCCTATAAAGTGTCGATTCTTTATAAATATGTA
66 CATAGTGAATATAAAGGAGAAACAGTTTTAGCGCCTATAAAGTGTCGATTCTTTATAAATATGTA
* *
1702150 TCTATCCACAACAATATAACAAGTAAAAATATGACAAAACCGGTCAGGAGAAGACAAAATCGGTA
131 TCTATCCACAACAATATAACAAGTAAAAATATGACAAAACCGGTCAGGAGAAGACAAAACCGATA
* *
1702215 AAGAGATACCAGATATATTGAAAGTGTCGATACTTTAATATAAGTATCGACATATTGTGAATTTA
196 AAGAGATACCAGATATATTGAAAGTGTCGATACTTTAATATAAGTATCGACACATTATGAATTTA
1702280 AAGGAGAAGCAGTTTTAGCGCCTATAAAGTGTCGATTCTTTATAAATATGTATCGATCCACAACG
261 AAGGAGAAGCAGTTTTAGCGCCTATAAAGTGTCGATTCTTTATAAATATGTATCGATCCACAACG
* * *
1702345 ATATAACAGGTAAAAATATGACAAAACCGGTCAGGAGAAGACAAAACCGGTAAAGAGATACCGAA
326 ATATAACAAGTAAAAATATGACAAAACCGGTCACGAAAAGACAAAACCGGTAAAGAGATACCGAA
* * * * *
1702410 TATATTGAAAGTGTCAACACTTTAATATAAGTATCGACCCATTGTGAATTTAAAGGAGAAGAAGT
391 TACATTGAAAGTGTCAACAATTTAATATAAGTATCGACACATTGTGAATTTAAAAGAGAAGAAAT
** * * *
1702475 TTTAGTGCCTATAAAGTGTCGATTCTTTATAAATATGTATCAATCCACATCAATA-AAATAGGAA
456 TTTAGCACCTATAAAGTGTCGATACTTTATAAAAATGTATCAATCCACAACAATATAAA-AGGAA
1702539 AAAATATGACAAAACCAGTCACGAAAA
520 AAAATATGACAAAACCAGTCACGAAAA
* * * *
1702566 GA-AAAACCGGTAAAGCGCTACCGGATATATTGCAAGTGTCGATACTTGAATATAAGTATCGACA
1 GACAAAACCGGTAAAGCGATACCGAATATATTGAAAGTGTCGATACTTTAATATAAGTATCGACA
* **
1702630 CATAGTGAATTTAAAGGAGAAGTAGTTTTAGCGCCTATAAAGTGTCGATTCTTTATAAATATGTA
66 CATAGTGAATATAAAGGAGAAACAGTTTTAGCGCCTATAAAGTGTCGATTCTTTATAAATATGTA
* *
1702695 T-TGATCCACAACGATATAACAGGTAAAAATATGACAAAACCGGTCAGGAGAAGACAAAACCGAT
131 TCT-ATCCACAACAATATAACAAGTAAAAATATGACAAAACCGGTCAGGAGAAGACAAAACCGAT
1702759 AAAGAGATACCAGATATATTGAAAGTGTCGATACTTTAATATAAGTATCGACACATTATGAATTT
195 AAAGAGATACCAGATATATTGAAAGTGTCGATACTTTAATATAAGTATCGACACATTATGAATTT
*
1702824 AAAGGAGCAGCAGTTTTAGCGCCTATAAAGTGTCGATTCTTTATAAATATGTATCGATCCACAAC
260 AAAGGAGAAGCAGTTTTAGCGCCTATAAAGTGTCGATTCTTTATAAATATGTATCGATCCACAAC
* * * * *
1702889 GATATAACAAGTTAAAATATGATAAAACCGGTCTCGAAAAGACAAAACCGGTAAAGCGCTACCGA
325 GATATAACAAGTAAAAATATGACAAAACCGGTCACGAAAAGACAAAACCGGTAAAGAGATACCGA
** * *
1702954 ATACATTGAAAGTGTTGATAATTTAATATAAGTATCGACACTTTGTGAATTTAAAAGAGAA-ACA
390 ATACATTGAAAGTGTCAACAATTTAATATAAGTATCGACACATTGTGAATTTAAAAGAGAAGA-A
* * * * *
1703018 ATTTTAGCATCTATAAAGTGTCGATACTTTATAAAAATGTATCGATCCATAACGATATAAAAGGT
454 ATTTTAGCACCTATAAAGTGTCGATACTTTATAAAAATGTATCAATCCACAACAATATAAAAGGA
** * * * **
1703083 AAAAATATGGTAAAACCGGTCTCTAAGT
519 AAAAATATGACAAAACCAGTCACGAAAA
* *
1703111 GACAAAACCGGTAAAGCGTTACTGAATATATTGAAAGTGTCGATACTTTAATA-AAGTA
1 GACAAAACCGGTAAAGCGATACCGAATATATTGAAAGTGTCGATACTTTAATATAAGTA
1703169 CTCTTAATAA
Statistics
Matches: 542, Mismatches: 57, Indels: 9
0.89 0.09 0.01
Matches are distributed among these distances:
544 2 0.00
545 490 0.90
546 50 0.09
ACGTcount: A:0.42, C:0.14, G:0.17, T:0.27
Consensus pattern (546 bp):
GACAAAACCGGTAAAGCGATACCGAATATATTGAAAGTGTCGATACTTTAATATAAGTATCGACA
CATAGTGAATATAAAGGAGAAACAGTTTTAGCGCCTATAAAGTGTCGATTCTTTATAAATATGTA
TCTATCCACAACAATATAACAAGTAAAAATATGACAAAACCGGTCAGGAGAAGACAAAACCGATA
AAGAGATACCAGATATATTGAAAGTGTCGATACTTTAATATAAGTATCGACACATTATGAATTTA
AAGGAGAAGCAGTTTTAGCGCCTATAAAGTGTCGATTCTTTATAAATATGTATCGATCCACAACG
ATATAACAAGTAAAAATATGACAAAACCGGTCACGAAAAGACAAAACCGGTAAAGAGATACCGAA
TACATTGAAAGTGTCAACAATTTAATATAAGTATCGACACATTGTGAATTTAAAAGAGAAGAAAT
TTTAGCACCTATAAAGTGTCGATACTTTATAAAAATGTATCAATCCACAACAATATAAAAGGAAA
AAATATGACAAAACCAGTCACGAAAA
Found at i:1705171 original size:22 final size:23
Alignment explanation
Indices: 1705120--1705175 Score: 69
Period size: 24 Copynumber: 2.4 Consensus size: 23
1705110 CATTTTTGTT
*
1705120 TTTTTTTATATAAAATGATAATA
1 TTTTATTATATAAAATGATAATA
* *
1705143 TAGTTATTATATAAAATTATAA-A
1 T-TTTATTATATAAAATGATAATA
1705166 TTTTATTATA
1 TTTTATTATA
1705176 AATGCATGTC
Statistics
Matches: 28, Mismatches: 4, Indels: 3
0.80 0.11 0.09
Matches are distributed among these distances:
22 8 0.29
23 3 0.11
24 17 0.61
ACGTcount: A:0.45, C:0.00, G:0.04, T:0.52
Consensus pattern (23 bp):
TTTTATTATATAAAATGATAATA
Found at i:1705584 original size:21 final size:21
Alignment explanation
Indices: 1705558--1705615 Score: 98
Period size: 21 Copynumber: 2.8 Consensus size: 21
1705548 CAATCAAGAT
*
1705558 TCGAAGAGAAACTTGAGAGAG
1 TCGAAGAGAAACTTGAGAGAA
1705579 TCGAAGAGAAACTTGAGAGAA
1 TCGAAGAGAAACTTGAGAGAA
*
1705600 TCGAAGAGACACTTGA
1 TCGAAGAGAAACTTGA
1705616 TAAGTATAAG
Statistics
Matches: 35, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
21 35 1.00
ACGTcount: A:0.43, C:0.12, G:0.29, T:0.16
Consensus pattern (21 bp):
TCGAAGAGAAACTTGAGAGAA
Found at i:1705689 original size:33 final size:33
Alignment explanation
Indices: 1705652--1705718 Score: 107
Period size: 33 Copynumber: 2.0 Consensus size: 33
1705642 AAATAGATGG
* *
1705652 AGTGGTGAAAGAAGTTAAGGTGTTGAGGGGTGA
1 AGTGGTAAAAGAAGTTAAGGTGTTAAGGGGTGA
*
1705685 AGTGGTAAAAGAAGTTGAGGTGTTAAGGGGTGA
1 AGTGGTAAAAGAAGTTAAGGTGTTAAGGGGTGA
1705718 A
1 A
1705719 CTTAAGATGG
Statistics
Matches: 31, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
33 31 1.00
ACGTcount: A:0.33, C:0.00, G:0.43, T:0.24
Consensus pattern (33 bp):
AGTGGTAAAAGAAGTTAAGGTGTTAAGGGGTGA
Found at i:1705925 original size:18 final size:18
Alignment explanation
Indices: 1705902--1705940 Score: 60
Period size: 18 Copynumber: 2.2 Consensus size: 18
1705892 GAAAAAATAT
1705902 GAAGAAGAAAAGAGGGAG
1 GAAGAAGAAAAGAGGGAG
* *
1705920 GAAGAAGAAAATATGGAG
1 GAAGAAGAAAAGAGGGAG
1705938 GAA
1 GAA
1705941 ATGAGGAAGA
Statistics
Matches: 19, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
18 19 1.00
ACGTcount: A:0.56, C:0.00, G:0.38, T:0.05
Consensus pattern (18 bp):
GAAGAAGAAAAGAGGGAG
Found at i:1707616 original size:12 final size:12
Alignment explanation
Indices: 1707599--1707631 Score: 66
Period size: 12 Copynumber: 2.8 Consensus size: 12
1707589 TTATTCCAAA
1707599 TGTCATCATAAT
1 TGTCATCATAAT
1707611 TGTCATCATAAT
1 TGTCATCATAAT
1707623 TGTCATCAT
1 TGTCATCAT
1707632 GTACGGACTT
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 21 1.00
ACGTcount: A:0.30, C:0.18, G:0.09, T:0.42
Consensus pattern (12 bp):
TGTCATCATAAT
Found at i:1708485 original size:200 final size:200
Alignment explanation
Indices: 1707844--1709191 Score: 1508
Period size: 200 Copynumber: 6.7 Consensus size: 200
1707834 TGTCAAAACG
* *
1707844 TTTATAAAAAGTGTCGATCCCA-AAACCATCGAAACCCATAATTATAATGTAATAGGTAATTTTG
1 TTTATAAGAAGTGTCGATCCCAGAAA-CATCGAAAACCATAATTATAATGTAATAGGTAATTTT-
* * * *
1707908 T-AATATAATCGGTATAAATATACCAGTTTTATGTGAGAATAGGTCTAC-ATATTGTATCGACAC
64 TCAATGTAACCGGTATACATATACCAGTTTTATGAGAGAATAGGTCTACAATA-TGTATCGACAC
* * * * * * * * * * *
1707971 TT-TTTCATTATGCGTCAATACTTTT-TTGCCAGAATGAATGCCCAAAAATGATGAACGTATAAC
128 TTGTGTAATT-TGTGTCGATACTTTTGGT-CCAGAAGGAATGCCCAAAAAGGGTGCAC-CATAAA
*
1708034 GTGTCGACACA
190 GTGTCGATACA
* * * *
1708045 TTTAT-TGAAAGTGTCGATCCCAGAAACATCG-AACCCTTAATTATAATCTAATAGGTAATTTTT
1 TTTATAAG-AAGTGTCGATCCCAGAAACATCGAAAACCATAATTATAATGTAATAGGTAATTTTT
* * * *
1708108 CAATGTAACCGGTATA-ACTA-ACCGGTTTTATGAGAGAATAGGTCTAAAAAATGTATTGACACT
65 CAATGTAACCGGTATACA-TATACCAGTTTTATGAGAGAATAGGTCTACAATATGTATCGACACT
* * ** *
1708171 TCTAG-AATTTATGTCGATA-TTGTTTCTCCAGAAGGAATGCCC-AAAAGGGTGCACACAAAAAG
129 TGT-GTAATTTGTGTCGATACTT-TTGGTCCAGAAGGAATGCCCAAAAAGGGTGCAC-CATAAAG
*
1708233 TGTCGATATA
191 TGTCGATACA
* * * * *
1708243 TTTATAAATAAGTATCTATCCCAGAAACATCGAAATCCATAATTATAATGTAATAGGTAATTTGT
1 TTTAT-AAGAAGTGTCGATCCCAGAAACATCGAAAACCATAATTATAATGTAATAGGTAATTTTT
*
1708308 CAATGTAACCGGTATACATATACCAGTTTTATGAGAGAATAGGTGTACAATATGTATCGACACTT
65 CAATGTAACCGGTATACATATACCAGTTTTATGAGAGAATAGGTCTACAATATGTATCGACACTT
* * *
1708373 GTGTAATTTGTATCGATACTTTTGGTCCATAAGGAATGCCCAAAAAGGGTGCACCATTAAGTGTC
130 GTGTAATTTGTGTCGATACTTTTGGTCCAGAAGGAATGCCCAAAAAGGGTGCACCATAAAGTGTC
1708438 GATACA
195 GATACA
* *
1708444 TTTATAAGAAGTGTCAATCCCAGAAAAATCGAAAACCATAATTATAATGTAATAGGTAATTTTTC
1 TTTATAAGAAGTGTCGATCCCAGAAACATCGAAAACCATAATTATAATGTAATAGGTAATTTTTC
* *
1708509 AATGTAACCGGTATACTTATA-CACGTTTTATGAGAGAATAGGTGTACAATATGTATCGACACTT
66 AATGTAACCGGTATACATATACCA-GTTTTATGAGAGAATAGGTCTACAATATGTATCGACACTT
* *
1708573 GTGTTATTTGTGTCGATACTTTTGGTCCAGAAGGAATGCCCAAAGAGGGTGCACCACT-AAGTGT
130 GTGTAATTTGTGTCGATACTTTTGGTCCAGAAGGAATGCCCAAAAAGGGTGCACCA-TAAAGTGT
*
1708637 TGATACA
194 CGATACA
* *
1708644 TTTATAAGAAGTATCGATCCCAGAAACATCAAAAACCATAATTATAATGTAATAGGTAATTTTTC
1 TTTATAAGAAGTGTCGATCCCAGAAACATCGAAAACCATAATTATAATGTAATAGGTAATTTTTC
* * * * *
1708709 AATGTAACTGATATACTTATACCAATTTTATGAGAGAATAGGTTTACAATATGTATCGACACTTG
66 AATGTAACCGGTATACATATACCAGTTTTATGAGAGAATAGGTCTACAATATGTATCGACACTTG
* * *
1708774 TGTAATTTGTGTCGATACTTTTGGTCCAGAAGGAATGCCCAAAAATGATGAACGCATAAAGTGTC
131 TGTAATTTGTGTCGATACTTTTGGTCCAGAAGGAATGCCCAAAAAGGGTGCAC-CATAAAGTGTC
*
1708839 GATATA
195 GATACA
* * * * *
1708845 TTTATAAAAAGTGTCAATACCAGAAACATCGAAACCCATTAA-TATAATGTAATAGGTAAATTTA
1 TTTATAAGAAGTGTCGATCCCAGAAACATCGAAAACCA-TAATTATAATGTAATAGGT-AATTTT
** *
1708909 T-AATGTAACTAGTATA-ATTATACCAGTTTTATGAGAGAATAGGTCTACAACATGTATC-AGCA
64 TCAATGTAACCGGTATACA-TATACCAGTTTTATGAGAGAATAGGTCTACAATATGTATCGA-CA
* * * * *
1708971 CTTGTGGAATTGGTGTCGATACTTTTTGTTCAGAAGGAATG-CC--AAAGGGTTGCATGCATAAA
127 CTTGTGTAATTTGTGTCGATACTTTTGGTCCAGAAGGAATGCCCAAAAAGGG-TGCA-CCATAAA
*
1709033 GTGTCGATACT
190 GTGTCGATACA
* * * *
1709044 TTTTTAA-AACGTTTTGATCCCA-AGAACTTCG-AAACCGATAATTATAATGTAATAGGTAATTT
1 TTTATAAGAA-GTGTCGATCCCAGA-AACATCGAAAACC-ATAATTATAATGTAATAGGTAATTT
* * * * * *
1709106 TCCAATGTAACCGGTATAAATATATCGGTTTTATGAGAAAATAGGTC-ATC-ATAAAGTATCGAC
63 TTCAATGTAACCGGTATACATATACCAGTTTTATGAGAGAATAGGTCTA-CAAT-ATGTATCGAC
*
1709169 AATTGT-TAAATTTGTGTCGATAC
126 ACTTGTGT-AATTTGTGTCGATAC
1709192 CATTTTAAAT
Statistics
Matches: 991, Mismatches: 118, Indels: 78
0.83 0.10 0.07
Matches are distributed among these distances:
198 49 0.05
199 202 0.20
200 449 0.45
201 265 0.27
202 26 0.03
ACGTcount: A:0.36, C:0.14, G:0.17, T:0.32
Consensus pattern (200 bp):
TTTATAAGAAGTGTCGATCCCAGAAACATCGAAAACCATAATTATAATGTAATAGGTAATTTTTC
AATGTAACCGGTATACATATACCAGTTTTATGAGAGAATAGGTCTACAATATGTATCGACACTTG
TGTAATTTGTGTCGATACTTTTGGTCCAGAAGGAATGCCCAAAAAGGGTGCACCATAAAGTGTCG
ATACA
Found at i:1710655 original size:18 final size:18
Alignment explanation
Indices: 1710634--1710673 Score: 62
Period size: 18 Copynumber: 2.2 Consensus size: 18
1710624 CAAGAGGTCA
1710634 ATGAAGATGAAGATGACG
1 ATGAAGATGAAGATGACG
* *
1710652 ATGACGATGAAGATGATG
1 ATGAAGATGAAGATGACG
1710670 ATGA
1 ATGA
1710674 TTATTTTGAT
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
18 20 1.00
ACGTcount: A:0.42, C:0.05, G:0.33, T:0.20
Consensus pattern (18 bp):
ATGAAGATGAAGATGACG
Found at i:1710674 original size:6 final size:6
Alignment explanation
Indices: 1710634--1710673 Score: 53
Period size: 6 Copynumber: 6.7 Consensus size: 6
1710624 CAAGAGGTCA
* * *
1710634 ATGAAG ATGAAG ATGACG ATGACG ATGAAG ATGATG ATGA
1 ATGAAG ATGAAG ATGAAG ATGAAG ATGAAG ATGAAG ATGA
1710674 TTATTTTGAT
Statistics
Matches: 31, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
6 31 1.00
ACGTcount: A:0.42, C:0.05, G:0.33, T:0.20
Consensus pattern (6 bp):
ATGAAG
Found at i:1712183 original size:64 final size:64
Alignment explanation
Indices: 1712115--1712276 Score: 186
Period size: 64 Copynumber: 2.5 Consensus size: 64
1712105 TTGTTCAAGA
* * * *
1712115 TGTATCGATGCACATG-AGGTGTATCGATGCACTCCTTTAAAATAAAAACATCGAATGTCATTAG
1 TGTATCGATGCACAAGTA-GTGCATCGATGCACCCCCTTAAAATAAAAACATCGAATGTCATTAG
* **
1712179 TGTATCGATGCACAAGTAGTGCATCGATGCACCCCCTTAAAATACAAACATCGAATGGGATTTA-
1 TGTATCGATGCACAAGTAGTGCATCGATGCACCCCCTTAAAATAAAAACATCGAATGTCA-TTAG
* * *
1712243 TGTACCGATGCATAGATTA-TGCATCGATGCACCC
1 TGTATCGATGCACA-AGTAGTGCATCGATGCACCC
1712277 GCCAAGGGAT
Statistics
Matches: 85, Mismatches: 10, Indels: 6
0.84 0.10 0.06
Matches are distributed among these distances:
64 78 0.92
65 7 0.08
ACGTcount: A:0.33, C:0.21, G:0.19, T:0.27
Consensus pattern (64 bp):
TGTATCGATGCACAAGTAGTGCATCGATGCACCCCCTTAAAATAAAAACATCGAATGTCATTAG
Found at i:1712869 original size:18 final size:18
Alignment explanation
Indices: 1712846--1712908 Score: 63
Period size: 18 Copynumber: 3.4 Consensus size: 18
1712836 AGGGATTATC
*
1712846 AGTGGTCCTTCGGGACAT
1 AGTGGTCCTTCAGGACAT
* * *
1712864 AGTGGTTCTTCAGAATAAT
1 AGTGGTCCTTCAGGA-CAT
*
1712883 CAATGGTCCTTCAGGACAT
1 -AGTGGTCCTTCAGGACAT
1712902 AGTGGTC
1 AGTGGTC
1712909 ATTTGGGACA
Statistics
Matches: 34, Mismatches: 9, Indels: 4
0.72 0.19 0.09
Matches are distributed among these distances:
18 18 0.53
19 4 0.12
20 12 0.35
ACGTcount: A:0.24, C:0.19, G:0.27, T:0.30
Consensus pattern (18 bp):
AGTGGTCCTTCAGGACAT
Found at i:1715310 original size:2 final size:2
Alignment explanation
Indices: 1715303--1715372 Score: 131
Period size: 2 Copynumber: 34.5 Consensus size: 2
1715293 TCCAAACATA
1715303 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1715345 AT AT AT AT AT AT AT AT AT AT AT CAT AT A
1 AT AT AT AT AT AT AT AT AT AT AT -AT AT A
1715373 CATACATATT
Statistics
Matches: 67, Mismatches: 0, Indels: 2
0.97 0.00 0.03
Matches are distributed among these distances:
2 65 0.97
3 2 0.03
ACGTcount: A:0.50, C:0.01, G:0.00, T:0.49
Consensus pattern (2 bp):
AT
Found at i:1715769 original size:22 final size:23
Alignment explanation
Indices: 1715737--1715804 Score: 77
Period size: 22 Copynumber: 3.0 Consensus size: 23
1715727 CACCACAGCT
* *
1715737 CGTATAAATGCATTGAAGTGCCA
1 CGTAGAAATGCACTGAAGTGCCA
*
1715760 CGTAG-AATGCACCT-AAGTGCCG
1 CGTAGAAATGCA-CTGAAGTGCCA
*
1715782 CGTAGAAATGCACCGAAGTGCCA
1 CGTAGAAATGCACTGAAGTGCCA
1715805 TATAAGATGT
Statistics
Matches: 37, Mismatches: 5, Indels: 6
0.77 0.10 0.12
Matches are distributed among these distances:
22 19 0.51
23 18 0.49
ACGTcount: A:0.32, C:0.24, G:0.25, T:0.19
Consensus pattern (23 bp):
CGTAGAAATGCACTGAAGTGCCA
Found at i:1715795 original size:23 final size:22
Alignment explanation
Indices: 1715751--1715804 Score: 81
Period size: 23 Copynumber: 2.4 Consensus size: 22
1715741 TAAATGCATT
1715751 GAAGTGCCACGTAGAATGCACC
1 GAAGTGCCACGTAGAATGCACC
* *
1715773 TAAGTGCCGCGTAGAAATGCACC
1 GAAGTGCCACGTAG-AATGCACC
1715796 GAAGTGCCA
1 GAAGTGCCA
1715805 TATAAGATGT
Statistics
Matches: 27, Mismatches: 4, Indels: 1
0.84 0.12 0.03
Matches are distributed among these distances:
22 12 0.44
23 15 0.56
ACGTcount: A:0.31, C:0.26, G:0.28, T:0.15
Consensus pattern (22 bp):
GAAGTGCCACGTAGAATGCACC
Found at i:1716088 original size:30 final size:29
Alignment explanation
Indices: 1716035--1716093 Score: 73
Period size: 30 Copynumber: 2.0 Consensus size: 29
1716025 TGTAAACATA
* *
1716035 TCACATATTCATATAAACTCGTAGATTCAT
1 TCACATATACATATAAACACGTAG-TTCAT
* *
1716065 TCACATATACATTTAATCACGTAGTTCAT
1 TCACATATACATATAAACACGTAGTTCAT
1716094 GTAAATTCTC
Statistics
Matches: 25, Mismatches: 4, Indels: 1
0.83 0.13 0.03
Matches are distributed among these distances:
29 5 0.20
30 20 0.80
ACGTcount: A:0.36, C:0.20, G:0.07, T:0.37
Consensus pattern (29 bp):
TCACATATACATATAAACACGTAGTTCAT
Found at i:1717953 original size:2 final size:2
Alignment explanation
Indices: 1717946--1718018 Score: 130
Period size: 2 Copynumber: 36.5 Consensus size: 2
1717936 CCAAACATAA
1717946 AT AT AT AT AT AT AT AT AT AT AT AT -T AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1717987 AT AT AT AT AT AT AT AT AT AT AT AT AT CAT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT AT -AT AT A
1718019 CATACATAGT
Statistics
Matches: 69, Mismatches: 0, Indels: 4
0.95 0.00 0.05
Matches are distributed among these distances:
1 1 0.01
2 66 0.96
3 2 0.03
ACGTcount: A:0.49, C:0.01, G:0.00, T:0.49
Consensus pattern (2 bp):
AT
Found at i:1718418 original size:23 final size:23
Alignment explanation
Indices: 1718391--1718445 Score: 74
Period size: 23 Copynumber: 2.4 Consensus size: 23
1718381 TAAATGCATT
*
1718391 GAAGTGCCACGTAGAATTACACC
1 GAAGTGCCACGTAGAAATACACC
* * *
1718414 TAAGTGCCGCGTAGAAATGCACC
1 GAAGTGCCACGTAGAAATACACC
1718437 GAAGTGCCA
1 GAAGTGCCA
1718446 TATAAGATGT
Statistics
Matches: 26, Mismatches: 6, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
23 26 1.00
ACGTcount: A:0.33, C:0.25, G:0.25, T:0.16
Consensus pattern (23 bp):
GAAGTGCCACGTAGAAATACACC
Found at i:1718729 original size:30 final size:29
Alignment explanation
Indices: 1718676--1718734 Score: 73
Period size: 30 Copynumber: 2.0 Consensus size: 29
1718666 TTTAAACATA
* *
1718676 TCACATATTCATATAAACTCGTAGCTTCAT
1 TCACATATACATATAAACACGTAG-TTCAT
* *
1718706 TCACATATACATTTAATCACGTAGTTCAT
1 TCACATATACATATAAACACGTAGTTCAT
1718735 GTAAATTCTC
Statistics
Matches: 25, Mismatches: 4, Indels: 1
0.83 0.13 0.03
Matches are distributed among these distances:
29 5 0.20
30 20 0.80
ACGTcount: A:0.34, C:0.22, G:0.07, T:0.37
Consensus pattern (29 bp):
TCACATATACATATAAACACGTAGTTCAT
Found at i:1719929 original size:20 final size:20
Alignment explanation
Indices: 1719904--1719973 Score: 131
Period size: 20 Copynumber: 3.5 Consensus size: 20
1719894 CAAATATTGA
1719904 TGCATCGATGCACCCCTTAC
1 TGCATCGATGCACCCCTTAC
1719924 TGCATCGATGCACCCCTTAC
1 TGCATCGATGCACCCCTTAC
*
1719944 TGCATCGATGTACCCCTTAC
1 TGCATCGATGCACCCCTTAC
1719964 TGCATCGATG
1 TGCATCGATG
1719974 ACCTTCAAAA
Statistics
Matches: 49, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
20 49 1.00
ACGTcount: A:0.20, C:0.36, G:0.17, T:0.27
Consensus pattern (20 bp):
TGCATCGATGCACCCCTTAC
Found at i:1724634 original size:64 final size:64
Alignment explanation
Indices: 1724559--1724680 Score: 158
Period size: 64 Copynumber: 1.9 Consensus size: 64
1724549 ATTGTTCAAG
* * * * *
1724559 GTGTATCGATGCACATG-AGGTATATCGATGCACTCCTTTAAAATTA-AAACATCGAATGTCATT
1 GTGTATCGATGCACAAGTA-GTACATCGAGGCACCCCCTTAAAA-TACAAACATCGAATGTCATT
1724622 C
64 C
*
1724623 GTGTATCGATGCACAAGTAGTGCATCGAGGCACCCCCTTAAAATACAAACATCGAATG
1 GTGTATCGATGCACAAGTAGTACATCGAGGCACCCCCTTAAAATACAAACATCGAATG
1724681 GGATTTATAT
Statistics
Matches: 50, Mismatches: 6, Indels: 4
0.83 0.10 0.07
Matches are distributed among these distances:
63 2 0.04
64 47 0.94
65 1 0.02
ACGTcount: A:0.34, C:0.21, G:0.19, T:0.26
Consensus pattern (64 bp):
GTGTATCGATGCACAAGTAGTACATCGAGGCACCCCCTTAAAATACAAACATCGAATGTCATTC
Found at i:1725315 original size:18 final size:19
Alignment explanation
Indices: 1725289--1725346 Score: 73
Period size: 18 Copynumber: 3.1 Consensus size: 19
1725279 TCGAGCGATT
1725289 ATCAGTGGTCCTTCGGGAC
1 ATCAGTGGTCCTTCGGGAC
* *
1725308 AT-AGTGGTTCTTCGGAAC
1 ATCAGTGGTCCTTCGGGAC
*
1725326 AATCAGTGGTCATTCGGGAC
1 -ATCAGTGGTCCTTCGGGAC
1725346 A
1 A
1725347 AATATTCAGT
Statistics
Matches: 32, Mismatches: 5, Indels: 4
0.78 0.12 0.10
Matches are distributed among these distances:
18 14 0.44
19 5 0.16
20 13 0.41
ACGTcount: A:0.22, C:0.21, G:0.29, T:0.28
Consensus pattern (19 bp):
ATCAGTGGTCCTTCGGGAC
Found at i:1725341 original size:20 final size:19
Alignment explanation
Indices: 1725289--1725347 Score: 68
Period size: 20 Copynumber: 3.1 Consensus size: 19
1725279 TCGAGCGATT
1725289 ATCAGTGGTCCTTCGGGAC-
1 ATCAGTGGT-CTTCGGGACA
*
1725308 AT-AGTGGTTCTTCGGAACA
1 ATCAGTGG-TCTTCGGGACA
1725327 ATCAGTGGTCATTCGGGACA
1 ATCAGTGGTC-TTCGGGACA
1725347 A
1 A
1725348 ATATTCAGTG
Statistics
Matches: 34, Mismatches: 2, Indels: 7
0.79 0.05 0.16
Matches are distributed among these distances:
18 13 0.38
19 7 0.21
20 14 0.41
ACGTcount: A:0.24, C:0.20, G:0.29, T:0.27
Consensus pattern (19 bp):
ATCAGTGGTCTTCGGGACA
Found at i:1726328 original size:25 final size:25
Alignment explanation
Indices: 1726299--1726351 Score: 97
Period size: 25 Copynumber: 2.1 Consensus size: 25
1726289 TTGTAGGTAC
1726299 ATTATTTGAACATTGTTATGTATAA
1 ATTATTTGAACATTGTTATGTATAA
*
1726324 ATTATTTGAACATTGTTTTGTATAA
1 ATTATTTGAACATTGTTATGTATAA
1726349 ATT
1 ATT
1726352 TCTTGTGTAC
Statistics
Matches: 27, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
25 27 1.00
ACGTcount: A:0.34, C:0.04, G:0.11, T:0.51
Consensus pattern (25 bp):
ATTATTTGAACATTGTTATGTATAA
Found at i:1726628 original size:15 final size:15
Alignment explanation
Indices: 1726608--1726646 Score: 51
Period size: 15 Copynumber: 2.6 Consensus size: 15
1726598 TATCCACAAC
* *
1726608 AAAGTTTTCATACAT
1 AAAGTTTCCAAACAT
*
1726623 AAAGTTTCCAAACTT
1 AAAGTTTCCAAACAT
1726638 AAAGTTTCC
1 AAAGTTTCC
1726647 CATAAAGTGT
Statistics
Matches: 21, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
15 21 1.00
ACGTcount: A:0.38, C:0.18, G:0.08, T:0.36
Consensus pattern (15 bp):
AAAGTTTCCAAACAT
Found at i:1727393 original size:193 final size:196
Alignment explanation
Indices: 1726647--1727592 Score: 714
Period size: 193 Copynumber: 4.8 Consensus size: 196
1726637 TAAAGTTTCC
*
1726647 CATAAAGTGTCGATACAGTTT-TAAAAAGTATCGATCCCATAAACATCGAAATCCATAAATATAA
1 CATAAAGTGTCGATACA-TTTATAAAAAGTATCGATCCCAAAAACATCG-AA--CATAAATATAA
* * * * * *
1726711 TGTAATAAGTAAATTTACAATGTAACCGGTATAACTAAACC-AGTTTTAT-T-TGAA-A----TA
62 TGTAATAGGTAAATTTACAATATAACCGATATAAATATACCGA-TTTTATGTGAGAATAGGTCTA
* * * * * *
1726768 CATAATTTATCGACACTTCTGGAAT-TTGTATCGATATTGTTTCTCCAGAAA-G--AATGCCCAT
126 CATAATGTGTCGACACTT-T-TAATGTTGTGTCGATACT-TTTGTCCA-AAATGAAAAT-CCCA-
** * *
1726829 AAAGGAAGTACT
185 AAAGGGTGAACG
* * * * *
1726841 CATAAAGTGTCGAAACATTTTTAAAACGTATCGAT-CCAAAAAAATCGAAACCAATAATTATAAT
1 CATAAAGTGTCGATACATTTATAAAAAGTATCGATCCCAAAAACATCG-AA-C-ATAAATATAAT
* **
1726905 GTAATCGGT-AATTTGTAATATAACCGATAT-AA-ATACCGATTTTATGTGAGAATAGGTCTACA
63 GTAATAGGTAAATTTACAATATAACCGATATAAATATACCGATTTTATGTGAGAATAGGTCTACA
* * *
1726967 TAATATGTCGACACTATTAATGTTGTGTCGATACTTTTTGTACAAAATG--AATGCCCAAAAGGG
128 TAATGTGTCGACACTTTTAATGTTGTGTCGATAC-TTTTGTCCAAAATGAAAAT-CCCAAAAGGG
1727030 TGAACG
191 TGAACG
* * *
1727036 CATAATGTGGT-GATACATTTATAAAAAGTATAGATCCCAAAAACATCGAAAATGATAATTATAA
1 CATAAAGT-GTCGATACATTTATAAAAAGTATCGATCCCAAAAACATCGAACAT-A-AA-TATAA
* * * * * * * * * * *
1727100 TGTAATAGGTAAATTTACAATGTAATCGGTATAAATAAACTGCTTTTTTGAGAAAATA-G-ATAT
62 TGTAATAGGTAAATTTACAATATAACCGATATAAATATACCGATTTTATGTGAGAATAGGTCTAC
* * * * * * * *
1727163 ATAATGTATCGACACTTGTGGAAT-TTGTTTTGATACTTTTGGTCCACAAGGAAAATCCAAAAAT
127 ATAATGTGTCGACACTT-T-TAATGTTGTGTCGATACTTTT-GTCCAAAATGAAAATCCCAAAAG
*
1727227 GGTG-ACC
189 GGTGAACG
* * * *
1727234 CATAAAGTGTCGATACATTTA-AACAA-CATCGATCCCTAAAACATCGAACATAAATAT-ATATA
1 CATAAAGTGTCGATACATTTATAAAAAGTATCGATCCCAAAAACATCGAACATAAATATAATGTA
** *
1727296 ATAGGT-AATTTGTAATATAACCGATATAAATATACC-AGTTTTATGTCAGAATAGGTCTACATA
66 ATAGGTAAATTTACAATATAACCGATATAAATATACCGA-TTTTATGTGAGAATAGGTCTACATA
* * * *
1727359 ATGTGTCGACACGTTTTAATGATGTGTCGATACTTATTGTCCAGAATGAATA-CCCAAGAGGGTG
130 ATGTGTCGACAC-TTTTAATGTTGTGTCGATACTT-TTGTCCAAAATGAAAATCCCAAAAGGGTG
1727423 AACG
193 AACG
* *
1727427 CATAAAGTGTCGATACATTTATAAAAAGTATCGATCCCAAAAACATCAAAACCGATAATTATAAT
1 CATAAAGTGTCGATACATTTATAAAAAGTATCGATCCCAAAAACATC-GAA-C-ATAAATATAAT
* * * * * * **
1727492 GTAATAGGTAAATTTACAATGTAACCGGTATAAATATACCGGTTTTATGAGAAAATAGTTGAACA
63 GTAATAGGTAAATTTACAATATAACCGATATAAATATACCGATTTTATGTGAGAATAGGTCTACA
* * *
1727557 TAATGTATGGACATGTTTTAGAT-TTGT-TCGATACTT
128 TAATGTGTCGACA-CTTTTA-ATGTTGTGTCGATACTT
1727593 ATAAATAACG
Statistics
Matches: 594, Mismatches: 114, Indels: 83
0.75 0.14 0.10
Matches are distributed among these distances:
190 10 0.02
191 37 0.06
192 45 0.08
193 101 0.17
194 40 0.07
195 62 0.10
196 76 0.13
197 61 0.10
198 47 0.08
199 48 0.08
200 65 0.11
201 2 0.00
ACGTcount: A:0.40, C:0.14, G:0.15, T:0.31
Consensus pattern (196 bp):
CATAAAGTGTCGATACATTTATAAAAAGTATCGATCCCAAAAACATCGAACATAAATATAATGTA
ATAGGTAAATTTACAATATAACCGATATAAATATACCGATTTTATGTGAGAATAGGTCTACATAA
TGTGTCGACACTTTTAATGTTGTGTCGATACTTTTGTCCAAAATGAAAATCCCAAAAGGGTGAAC
G
Found at i:1727455 original size:391 final size:388
Alignment explanation
Indices: 1726647--1727549 Score: 1109
Period size: 391 Copynumber: 2.3 Consensus size: 388
1726637 TAAAGTTTCC
* * *
1726647 CATAAAGTGTCGATACAGTTT-TAAAAAGTATCGATCCCATAAACATCG-AAATCCATAAATATA
1 CATAAAGTGTCGATACA-TTTATAAAAAGTATCGATCCCAAAAACATCGAAAAT-GATAATTATA
* * * *
1726710 ATGTAATAAGTAAATTTACAATGTAACCGGTATAACTAAACCAGTTTTATT-TG-AAATACATAA
64 ATGTAATAGGTAAATTTACAATGTAACCGGTATAAATAAA-CAGTTTT-TTGAGAAAATAGATAA
* * ** *
1726773 TTTATCGACACTTCTGGAATTTGTATCGATATTGTTTCTCCAGAAAGAATGCCCATAAAGGAAGT
127 TTTATCGACACTTCTGGAATTTGTATCGATATTGTTGCTCCACAAAGAAAACCCAAAAAGGAAGT
* * *
1726838 ACTCATAAAGTGTCGAAACATTTTTAAAACGTATCGATCCAAAAAAATCGAAACCAATAATTATA
192 ACCCATAAAGTGTCGAAACATTTTAAAAACG-ATCGATCCAAAAAAATCGAAACCAATAAATATA
* * *
1726903 ATGTAATCGGTAATTTGTAATATAACCGATATAAATACCGATTTTATGTGAGAATAGGTCTACAT
256 ATATAATAGGTAATTTGTAATATAACCGATATAAATACCGATTTTATGTCAGAATAGGTCTACAT
* * *
1726968 AATATGTCGACACTATTAATGTTGTGTCGATACTTTTTGTACAAAATGAATGCCCAAAAGGGTGA
321 AATATGTCGACACTATTAATGATGTGTCGATACTTATTGTACAAAATGAATACCCAAAAGGGTGA
1727033 ACG
386 ACG
* *
1727036 CATAATGTGGT-GATACATTTATAAAAAGTATAGATCCCAAAAACATCGAAAATGATAATTATAA
1 CATAAAGT-GTCGATACATTTATAAAAAGTATCGATCCCAAAAACATCGAAAATGATAATTATAA
* *
1727100 TGTAATAGGTAAATTTACAATGTAATCGGTATAAATAAACTGCTTTTTTGAGAAAATAGATATAT
65 TGTAATAGGTAAATTTACAATGTAACCGGTATAAATAAACAG-TTTTTTGAGAAAATAGATA-AT
* * * * * * *
1727165 AATGTATCGACACTTGTGGAATTTGTTTTGATACTT-TTGGTCCACAAGGAAAATCCAAAAATG-
128 --T-TATCGACACTTCTGGAATTTGTATCGATA-TTGTTGCTCCACAAAGAAAACCCAAAAAGGA
* * *
1727228 -GTGACCCATAAAGTGTCGATACA-TTTAAACAAC-ATCGATCCCTAAAACATCG-AA-C-ATAA
189 AGT-ACCCATAAAGTGTCGAAACATTTTAAA-AACGATCGAT-CCAAAAAAATCGAAACCAATAA
1727287 ATAT-ATATAATAGGTAATTTGTAATATAACCGATATAAATATACC-AGTTTTATGTCAGAATAG
251 ATATAATATAATAGGTAATTTGTAATATAACCGATAT-AA-ATACCGA-TTTTATGTCAGAATAG
* * * *
1727350 GTCTACATAATGTGTCGACACGTTTTAATGATGTGTCGATACTTATTGTCCAGAATGAATACCCA
313 GTCTACATAATATGTCGACAC-TATTAATGATGTGTCGATACTTATTGTACAAAATGAATACCCA
*
1727415 AGAGGGTGAACG
377 AAAGGGTGAACG
*
1727427 CATAAAGTGTCGATACATTTATAAAAAGTATCGATCCCAAAAACATC-AAAACCGATAATTATAA
1 CATAAAGTGTCGATACATTTATAAAAAGTATCGATCCCAAAAACATCGAAAA-TGATAATTATAA
* * *
1727491 TGTAATAGGTAAATTTACAATGTAACCGGTATAAATATACCGGTTTTATGAGAAAATAG
65 TGTAATAGGTAAATTTACAATGTAACCGGTATAAATA-AACAGTTTTTTGAGAAAATAG
1727550 TTGAACATAA
Statistics
Matches: 446, Mismatches: 47, Indels: 40
0.84 0.09 0.08
Matches are distributed among these distances:
388 37 0.08
389 98 0.22
390 61 0.14
391 162 0.36
392 20 0.04
393 22 0.05
394 44 0.10
395 2 0.00
ACGTcount: A:0.40, C:0.14, G:0.15, T:0.31
Consensus pattern (388 bp):
CATAAAGTGTCGATACATTTATAAAAAGTATCGATCCCAAAAACATCGAAAATGATAATTATAAT
GTAATAGGTAAATTTACAATGTAACCGGTATAAATAAACAGTTTTTTGAGAAAATAGATAATTTA
TCGACACTTCTGGAATTTGTATCGATATTGTTGCTCCACAAAGAAAACCCAAAAAGGAAGTACCC
ATAAAGTGTCGAAACATTTTAAAAACGATCGATCCAAAAAAATCGAAACCAATAAATATAATATA
ATAGGTAATTTGTAATATAACCGATATAAATACCGATTTTATGTCAGAATAGGTCTACATAATAT
GTCGACACTATTAATGATGTGTCGATACTTATTGTACAAAATGAATACCCAAAAGGGTGAACG
Found at i:1730012 original size:17 final size:17
Alignment explanation
Indices: 1729990--1730026 Score: 65
Period size: 17 Copynumber: 2.2 Consensus size: 17
1729980 CGGTACAATG
*
1729990 TCTCCCGTTGAAGTTCA
1 TCTCCCGTTGAAATTCA
1730007 TCTCCCGTTGAAATTCA
1 TCTCCCGTTGAAATTCA
1730024 TCT
1 TCT
1730027 TGGAACGCAC
Statistics
Matches: 19, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
17 19 1.00
ACGTcount: A:0.19, C:0.30, G:0.14, T:0.38
Consensus pattern (17 bp):
TCTCCCGTTGAAATTCA
Found at i:1732021 original size:201 final size:199
Alignment explanation
Indices: 1731673--1732562 Score: 847
Period size: 202 Copynumber: 4.5 Consensus size: 199
1731663 ACCTAAATAT
* ** *
1731673 GTGTCGATACATTTTCTAAAAGTATCGA-CCAAAAAACATCGAAACCAATAA-T-TAATGTAATA
1 GTGTCGATACAATTAATAAAAGTATCGATCCAAAAAACATCGAAACCGATAATTATAATGTAATA
* * * * * *
1731735 GGTAAATTAACAATATAACTGGTAT-AATATACCGG-TTAATTAAAAAACAGGTCAACATAATGT
66 GGTAAATTTACAATGTAACCGGTATAAATATACCGGTTTTATGAAAAAATAGGTCAACATAATGT
*
1731798 ATCGACACTTGTGTAATTTGTGTCGATACTTATTGTCCAGAATGAATGCCCAAACGATGTACACG
131 ATCGACACTTAT-TAATTTGTGTCGATACTTATTGTCCAGAATGAATG-CCAAACGATGTACACG
1731863 CATAAA
194 CATAAA
*
1731869 GTGTCGATACAATTAATAAAAGTATCGATCCTAATAAA-ATCGAAACCGATAATTATAATGTAAT
1 GTGTCGATACAATTAATAAAAGTATCGATCC-AAAAAACATCGAAACCGATAATTATAATGTAAT
* *** *
1731933 AGGTAAATTTATAATGTAACCGGTATAAATATACCGGTTTTATGTTCAAATAGGTGAACATAATG
65 AGGTAAATTTACAATGTAACCGGTATAAATATACCGGTTTTATGAAAAAATAGGTCAACATAATG
* * * * * * ** *
1731998 TATCGACAAGTT-TTATATTTGTGTCCATACTTTTTGTCCAAAATGAATGTCAAAAGGGGTTGCA
130 TATCGAC-ACTTATTA-ATTTGTGTCGATACTTATTGTCCAGAATGAATGCCAAACGATG-TACA
1732062 CGCATAAA
192 CGCATAAA
* **
1732070 GTGTCGATACATGTTTTTAAAAGTATCGATCCAAAAAACATCGAAACCGATAATTATAATGTAAT
1 GTGTCGATACA-ATTAATAAAAGTATCGATCCAAAAAACATCGAAACCGATAATTATAATGTAAT
* * * * *
1732135 ATGTAAATTTACAATGTAACCGGTATAAATATACCGGTTTTATGAGAAAATATGTCATCATAAAG
65 AGGTAAATTTACAATGTAACCGGTATAAATATACCGGTTTTATGAAAAAATAGGTCAACATAATG
* * * *
1732200 TATCGACACTTATTAAATTTGTGTCAATACATT-TTATCCATAATGAATGCCAAAC-ATGTGCAC
130 TATCGACACTTATT-AATTTGTGTCGATAC-TTATTGTCCAGAATGAATGCCAAACGATGTACAC
1732263 GCATAAA
193 GCATAAA
* * *
1732270 GTGTCGATAC-A-T--T-----TAT---T----AAAACTATCGAAACCAATAATTACAATGTGAT
1 GTGTCGATACAATTAATAAAAGTATCGATCCAAAAAAC-ATCGAAACCGATAATTATAATGTAAT
* **
1732319 AGGTAAATTTACAATGT-ACCGGATAGAAATATACTTGTTTTATGAAAAAAAATAGGTCTAA-AT
65 AGGTAAATTTACAATGTAACCGG-TATAAATATACCGGTTTTATG--AAAAAATAGGTC-AACAT
*
1732382 AATGTATCGACACTCT-TTAAGTTTATGTCGATACTTATT-TCCAGAATGAATGTCC-AACGAGA
126 AATGTATCGACACT-TATTAA-TTTGTGTCGATACTTATTGTCCAGAATGAATG-CCAAAC--GA
*
1732444 TGTACA--AATAAA
186 TGTACACGCATAAA
* ** * * *
1732456 GTGTCGATACATTTAA-AATTGTATTGATCCAAAAAAACACCGCAACCGATAATTATAATGTAAT
1 GTGTCGATACAATTAATAAAAGTATCGATCC-AAAAAACATCGAAACCGATAATTATAATGTAAT
* * *
1732520 AGGTGGTAAATTTATAATGTTATCGGTATAAATATACCGGTTT
65 A---GGTAAATTTACAATGTAACCGGTATAAATATACCGGTTT
1732563 ACTTATAAAA
Statistics
Matches: 573, Mismatches: 74, Indels: 86
0.78 0.10 0.12
Matches are distributed among these distances:
183 10 0.02
184 57 0.10
185 19 0.03
186 57 0.10
187 3 0.01
188 7 0.01
190 3 0.01
194 3 0.01
195 1 0.00
196 25 0.04
197 17 0.03
198 6 0.01
199 31 0.05
200 40 0.07
201 111 0.19
202 147 0.26
203 3 0.01
204 29 0.05
205 4 0.01
ACGTcount: A:0.40, C:0.14, G:0.15, T:0.32
Consensus pattern (199 bp):
GTGTCGATACAATTAATAAAAGTATCGATCCAAAAAACATCGAAACCGATAATTATAATGTAATA
GGTAAATTTACAATGTAACCGGTATAAATATACCGGTTTTATGAAAAAATAGGTCAACATAATGT
ATCGACACTTATTAATTTGTGTCGATACTTATTGTCCAGAATGAATGCCAAACGATGTACACGCA
TAAA
Found at i:1735404 original size:14 final size:14
Alignment explanation
Indices: 1735380--1735416 Score: 65
Period size: 14 Copynumber: 2.6 Consensus size: 14
1735370 TAATTTTAGT
1735380 TTTACAATACTGAAA
1 TTTA-AATACTGAAA
1735395 TTTAAATACTGAAA
1 TTTAAATACTGAAA
1735409 TTTAAATA
1 TTTAAATA
1735417 ATCCATACAA
Statistics
Matches: 22, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
14 18 0.82
15 4 0.18
ACGTcount: A:0.49, C:0.08, G:0.05, T:0.38
Consensus pattern (14 bp):
TTTAAATACTGAAA
Found at i:1735469 original size:22 final size:22
Alignment explanation
Indices: 1735443--1735485 Score: 77
Period size: 22 Copynumber: 2.0 Consensus size: 22
1735433 TAATAAATTA
*
1735443 TTTAAAATAAATCAATTCATAT
1 TTTAAAATAAATCAATCCATAT
1735465 TTTAAAATAAATCAATCCATA
1 TTTAAAATAAATCAATCCATA
1735486 CTAATAAATT
Statistics
Matches: 20, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
22 20 1.00
ACGTcount: A:0.51, C:0.12, G:0.00, T:0.37
Consensus pattern (22 bp):
TTTAAAATAAATCAATCCATAT
Found at i:1735492 original size:54 final size:54
Alignment explanation
Indices: 1735433--1735960 Score: 421
Period size: 54 Copynumber: 9.6 Consensus size: 54
1735423 ACAACTACAA
*
1735433 TAATAAATTATTTAAAATAAATCAATTCATATTTTAAAATAAATCAATCCATAC
1 TAATAAATTATTTAAAATAAATCAATCCATATTTTAAAATAAATCAATCCATAC
* ** *
1735487 TAATAAATTATTTAAAATAAATCAATCCATACAAATACAATAATAAATCAATCCATATT
1 TAATAAATTATTTAAAATAAATCAATCCAT---ATTTTAA-AATAAATCAATCCATA-C
* * * * *
1735546 TAAAATAAATCAATCT-ATACAAATAAAT---TA-TTTAAAATAAATCAATCCATAC
1 T--AATAAAT-TATTTAAAATAAATCAATCCATATTTTAAAATAAATCAATCCATAC
*
1735598 TAATAAATTATTTAAAATAAATCAAACCATATTTTAAAATAAATCAATCCATAC
1 TAATAAATTATTTAAAATAAATCAATCCATATTTTAAAATAAATCAATCCATAC
* ** *
1735652 TAATAAATTATTTAAAATAAATCAATCCATACAACTACAATAATAAATCAATTCATA-
1 TAATAAATTATTTAAAATAAATCAATCCAT---ATTTTAA-AATAAATCAATCCATAC
** * ** * ** **
1735709 TTTTAAAATAAAT-CAATCCATACAAATAAAT-TATTTAAAATAAATCAATCCATAC
1 TAATAAATTATTTAAAATAAAT-C-AATCCATAT-TTTAAAATAAATCAATCCATAC
* **
1735764 TAATAAATTATTTAAAATAAATCAATCCATACAACTACAATAATAAATCAATCCATA-
1 TAATAAATTATTTAAAATAAATCAATCCAT---ATTTTAA-AATAAATCAATCCATAC
** * ** * ** **
1735821 TTTTAAAATAAAT-CAATCCATACGAATAAAT-TATTTAAAATAAATCAATCCATAC
1 TAATAAATTATTTAAAATAAAT-C-AATCCATAT-TTTAAAATAAATCAATCCATAC
*
1735876 TAATAAATTATTTAAAATAAATCAATCCATATTTAAAAATAAATCAATCCATAC
1 TAATAAATTATTTAAAATAAATCAATCCATATTTTAAAATAAATCAATCCATAC
*
1735930 TAATAAATTATTTAAAATAAATCAATACATA
1 TAATAAATTATTTAAAATAAATCAATCCATA
1735961 CAACTACAAT
Statistics
Matches: 365, Mismatches: 76, Indels: 66
0.72 0.15 0.13
Matches are distributed among these distances:
49 3 0.01
50 15 0.04
52 1 0.00
53 18 0.05
54 175 0.48
55 26 0.07
56 20 0.05
57 29 0.08
58 58 0.16
59 1 0.00
61 16 0.04
62 3 0.01
ACGTcount: A:0.54, C:0.13, G:0.00, T:0.33
Consensus pattern (54 bp):
TAATAAATTATTTAAAATAAATCAATCCATATTTTAAAATAAATCAATCCATAC
Found at i:1735494 original size:22 final size:22
Alignment explanation
Indices: 1735445--1735493 Score: 62
Period size: 22 Copynumber: 2.2 Consensus size: 22
1735435 ATAAATTATT
* **
1735445 TAAAATAAATCAATTCATATTT
1 TAAAATAAATCAATCCATATAA
1735467 TAAAATAAATCAATCCATACTAA
1 TAAAATAAATCAATCCATA-TAA
1735490 TAAA
1 TAAA
1735494 TTATTTAAAA
Statistics
Matches: 23, Mismatches: 3, Indels: 1
0.85 0.11 0.04
Matches are distributed among these distances:
22 18 0.78
23 5 0.22
ACGTcount: A:0.55, C:0.12, G:0.00, T:0.33
Consensus pattern (22 bp):
TAAAATAAATCAATCCATATAA
Found at i:1735537 original size:80 final size:80
Alignment explanation
Indices: 1735448--1735768 Score: 491
Period size: 80 Copynumber: 4.0 Consensus size: 80
1735438 AATTATTTAA
* *
1735448 AATAAATCAATTCATATTTTAAAATAAATCAATCCATACTAATAAATTATTTAAAATAAATCAAT
1 AATAAATCAATCCATATTTTAAAATAAATCAATCCATACAAATAAATTATTTAAAATAAATCAAT
1735513 CCATACAAATACAAT
66 CCATACAAATACAAT
*
1735528 AATAAATCAATCCATA-TTTAAAATAAATCAATCTATACAAATAAATTATTTAAAATAAATCAAT
1 AATAAATCAATCCATATTTTAAAATAAATCAATCCATACAAATAAATTATTTAAAATAAATCAAT
* *
1735592 CCATACTAATAAATTATTT
66 CCATACAAATACA--A--T
* *
1735611 AAAATAAATCAAACCATATTTTAAAATAAATCAATCCATACTAATAAATTATTTAAAATAAATCA
1 --AATAAATCAATCCATATTTTAAAATAAATCAATCCATACAAATAAATTATTTAAAATAAATCA
*
1735676 ATCCATACAACTACAAT
64 ATCCATACAAATACAAT
*
1735693 AATAAATCAATTCATATTTTAAAATAAATCAATCCATACAAATAAATTATTTAAAATAAATCAAT
1 AATAAATCAATCCATATTTTAAAATAAATCAATCCATACAAATAAATTATTTAAAATAAATCAAT
*
1735758 CCATACTAATA
66 CCATACAAATA
1735769 AATTATTTAA
Statistics
Matches: 218, Mismatches: 16, Indels: 14
0.88 0.06 0.06
Matches are distributed among these distances:
79 57 0.26
80 86 0.39
81 1 0.00
82 1 0.00
83 1 0.00
84 1 0.00
85 15 0.07
86 56 0.26
ACGTcount: A:0.54, C:0.14, G:0.00, T:0.32
Consensus pattern (80 bp):
AATAAATCAATCCATATTTTAAAATAAATCAATCCATACAAATAAATTATTTAAAATAAATCAAT
CCATACAAATACAAT
Found at i:1735578 original size:32 final size:32
Alignment explanation
Indices: 1735542--1735685 Score: 182
Period size: 32 Copynumber: 4.8 Consensus size: 32
1735532 AATCAATCCA
*
1735542 TATTTAAAATAAATCAATCTATACAAATAAAT
1 TATTTAAAATAAATCAATCCATACAAATAAAT
*
1735574 TATTTAAAATAAATCAATCCATACTAATAAAT
1 TATTTAAAATAAATCAATCCATACAAATAAAT
*
1735606 TATTTAAAATAAATC-A---A-AC-CAT--A-
1 TATTTAAAATAAATCAATCCATACAAATAAAT
*
1735629 T-TTTAAAATAAATCAATCCATACTAATAAAT
1 TATTTAAAATAAATCAATCCATACAAATAAAT
1735660 TATTTAAAATAAATCAATCCATACAA
1 TATTTAAAATAAATCAATCCATACAA
1735686 CTACAATAAT
Statistics
Matches: 97, Mismatches: 5, Indels: 20
0.80 0.04 0.16
Matches are distributed among these distances:
22 13 0.13
23 2 0.02
24 1 0.01
26 3 0.03
27 4 0.04
28 3 0.03
30 1 0.01
31 2 0.02
32 68 0.70
ACGTcount: A:0.54, C:0.12, G:0.00, T:0.33
Consensus pattern (32 bp):
TATTTAAAATAAATCAATCCATACAAATAAAT
Found at i:1735583 original size:14 final size:15
Alignment explanation
Indices: 1735542--1735620 Score: 54
Period size: 14 Copynumber: 5.0 Consensus size: 15
1735532 AATCAATCCA
1735542 TATTTAAAATAAATC
1 TATTTAAAATAAATC
*
1735557 AATCTATACAAATAAAT-
1 TAT-T-TA-AAATAAATC
1735574 TATTTAAAATAAATC
1 TATTTAAAATAAATC
* * *
1735589 AATCCATACTAATAAAT-
1 TAT--TTA-AAATAAATC
1735606 TATTTAAAATAAATC
1 TATTTAAAATAAATC
1735621 AAACCATATT
Statistics
Matches: 48, Mismatches: 8, Indels: 16
0.67 0.11 0.22
Matches are distributed among these distances:
14 15 0.31
15 8 0.17
16 2 0.04
17 8 0.17
18 15 0.31
ACGTcount: A:0.54, C:0.10, G:0.00, T:0.35
Consensus pattern (15 bp):
TATTTAAAATAAATC
Found at i:1735634 original size:22 final size:22
Alignment explanation
Indices: 1735608--1735650 Score: 77
Period size: 22 Copynumber: 2.0 Consensus size: 22
1735598 TAATAAATTA
1735608 TTTAAAATAAATCAAACCATAT
1 TTTAAAATAAATCAAACCATAT
*
1735630 TTTAAAATAAATCAATCCATA
1 TTTAAAATAAATCAAACCATA
1735651 CTAATAAATT
Statistics
Matches: 20, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
22 20 1.00
ACGTcount: A:0.53, C:0.14, G:0.00, T:0.33
Consensus pattern (22 bp):
TTTAAAATAAATCAAACCATAT
Found at i:1735659 original size:22 final size:22
Alignment explanation
Indices: 1735610--1735658 Score: 62
Period size: 22 Copynumber: 2.2 Consensus size: 22
1735600 ATAAATTATT
**
1735610 TAAAATAAATCAAACCATATTT
1 TAAAATAAATCAAACCATATAA
*
1735632 TAAAATAAATCAATCCATACTAA
1 TAAAATAAATCAAACCATA-TAA
1735655 TAAA
1 TAAA
1735659 TTATTTAAAA
Statistics
Matches: 23, Mismatches: 3, Indels: 1
0.85 0.11 0.04
Matches are distributed among these distances:
22 18 0.78
23 5 0.22
ACGTcount: A:0.57, C:0.14, G:0.00, T:0.29
Consensus pattern (22 bp):
TAAAATAAATCAAACCATATAA
Found at i:1735749 original size:32 final size:32
Alignment explanation
Indices: 1735710--1736117 Score: 357
Period size: 32 Copynumber: 14.4 Consensus size: 32
1735700 CAATTCATAT
*
1735710 TTTAAAATAAATCAATCCATACAAATAAATTA
1 TTTAAAATAAATCAATCCATACTAATAAATTA
1735742 TTTAAAATAAATCAATCCATACTAATAAATTA
1 TTTAAAATAAATCAATCCATACTAATAAATTA
*
1735774 TTTAAAATAAATCAATCCATAC-AACTACA--A
1 TTTAAAATAAATCAATCCATACTAA-TAAATTA
1735804 --T--AATAAATCAATCC--A-T-AT------
1 TTTAAAATAAATCAATCCATACTAATAAATTA
*
1735822 TTTAAAATAAATCAATCCATACGAATAAATTA
1 TTTAAAATAAATCAATCCATACTAATAAATTA
1735854 TTTAAAATAAATCAATCCATACTAATAAATTA
1 TTTAAAATAAATCAATCCATACTAATAAATTA
1735886 TTTAAAATAAATCAATCC--A-T-AT---TTA
1 TTTAAAATAAATCAATCCATACTAATAAATTA
1735911 ---AAAATAAATCAATCCATACTAATAAATTA
1 TTTAAAATAAATCAATCCATACTAATAAATTA
* *
1735940 TTTAAAATAAATCAATACATAC-AACTACA--A
1 TTTAAAATAAATCAATCCATACTAA-TAAATTA
1735970 --T--AATAAATCAATCC--A-T-AT------
1 TTTAAAATAAATCAATCCATACTAATAAATTA
1735988 TTTAAAATAAATCAATCCATACTAATAAATTA
1 TTTAAAATAAATCAATCCATACTAATAAATTA
1736020 TTTAAAATAAATCAAT-C---C--AT--A-T-
1 TTTAAAATAAATCAATCCATACTAATAAATTA
1736042 TTTAAAATAAATCAATCCATACTAATAAATTA
1 TTTAAAATAAATCAATCCATACTAATAAATTA
* *
1736074 TTTAAAATAAATTAATCCGTACTAATAAATTA
1 TTTAAAATAAATCAATCCATACTAATAAATTA
1736106 TTTAAAATAAAT
1 TTTAAAATAAAT
1736118 TATTTAAAAT
Statistics
Matches: 315, Mismatches: 9, Indels: 104
0.74 0.02 0.24
Matches are distributed among these distances:
20 2 0.01
22 59 0.19
23 4 0.01
24 6 0.02
25 5 0.02
26 34 0.11
28 7 0.02
29 4 0.01
30 4 0.01
31 6 0.02
32 184 0.58
ACGTcount: A:0.53, C:0.13, G:0.00, T:0.33
Consensus pattern (32 bp):
TTTAAAATAAATCAATCCATACTAATAAATTA
Found at i:1735755 original size:112 final size:112
Alignment explanation
Indices: 1735630--1736117 Score: 582
Period size: 112 Copynumber: 4.4 Consensus size: 112
1735620 CAAACCATAT
1735630 TTTAAAATAAATCAATCCATACTAATAAATTATTTAAAATAAATCAATCCATACAACTACAATAA
1 TTTAAAATAAATCAATCCATACTAATAAATTATTTAAAATAAATCAATCCATACAACTACAATAA
*
1735695 TAAATCAATTCATATTTTAAAATAAATCAATCCATACAAATAAATTA
66 TAAATCAATCCATATTTTAAAATAAATCAATCCATACAAATAAATTA
1735742 TTTAAAATAAATCAATCCATACTAATAAATTATTTAAAATAAATCAATCCATACAACTACAATAA
1 TTTAAAATAAATCAATCCATACTAATAAATTATTTAAAATAAATCAATCCATACAACTACAATAA
*
1735807 TAAATCAATCCATATTTTAAAATAAATCAATCCATACGAATAAATTA
66 TAAATCAATCCATATTTTAAAATAAATCAATCCATACAAATAAATTA
**
1735854 TTTAAAATAAATCAATCCATACTAATAAATTATTTAAAATAAATCAATCCAT--ATTTA-AA-AA
1 TTTAAAATAAATCAATCCATACTAATAAATTATTTAAAATAAATCAATCCATACAACTACAATAA
** * * *
1735915 TAAATCAATCCATACTAATAAATTATTTAAAATAAATCAATAC--ATACAACTA
66 TAAATCAATCCATA-TTTTAAA--A--T-AAATCAATCCATACAAATA-AATTA
* *
1735967 --CAATAATAAATCAAT-C---C--AT--A-T-TTTAAAATAAATCAATCCATACTAA-TAAATT
1 TTTAA-AATAAATCAATCCATACTAATAAATTATTTAAAATAAATCAATCCATAC-AACTACA--
*
1736019 ATTTAAAATAAATCAATCCATATTTTAAAATAAATCAATCCATACTAATAAATTA
62 A--T--AATAAATCAATCCATATTTTAAAATAAATCAATCCATACAAATAAATTA
* *
1736074 TTTAAAATAAATTAATCCGTACTAATAAATTATTTAAAATAAAT
1 TTTAAAATAAATCAATCCATACTAATAAATTATTTAAAATAAAT
1736118 TATTTAAAAT
Statistics
Matches: 325, Mismatches: 18, Indels: 60
0.81 0.04 0.15
Matches are distributed among these distances:
102 20 0.06
103 1 0.00
104 3 0.01
105 2 0.01
106 14 0.04
107 6 0.02
108 30 0.09
109 11 0.03
110 3 0.01
111 9 0.03
112 193 0.59
113 5 0.02
114 14 0.04
116 1 0.00
117 1 0.00
118 12 0.04
ACGTcount: A:0.53, C:0.14, G:0.00, T:0.33
Consensus pattern (112 bp):
TTTAAAATAAATCAATCCATACTAATAAATTATTTAAAATAAATCAATCCATACAACTACAATAA
TAAATCAATCCATATTTTAAAATAAATCAATCCATACAAATAAATTA
Found at i:1735851 original size:22 final size:22
Alignment explanation
Indices: 1735776--1735850 Score: 78
Period size: 22 Copynumber: 3.2 Consensus size: 22
1735766 ATAAATTATT
1735776 TAAAATAAATCAATCCATACAA
1 TAAAATAAATCAATCCATACAA
***
1735798 CTACAATAATAAATCAATCCATATTT
1 -T--AA-AATAAATCAATCCATACAA
1735824 TAAAATAAATCAATCCATACGAA
1 TAAAATAAATCAATCCATAC-AA
1735847 TAAA
1 TAAA
1735851 TTATTTAAAA
Statistics
Matches: 42, Mismatches: 6, Indels: 8
0.75 0.11 0.14
Matches are distributed among these distances:
22 16 0.38
23 7 0.17
25 3 0.07
26 16 0.38
ACGTcount: A:0.55, C:0.17, G:0.01, T:0.27
Consensus pattern (22 bp):
TAAAATAAATCAATCCATACAA
Found at i:1735865 original size:166 final size:158
Alignment explanation
Indices: 1735497--1736117 Score: 737
Period size: 166 Copynumber: 3.8 Consensus size: 158
1735487 TAATAAATTA
* *
1735497 TTTAAAATAAATCAATCCATACAAATACAATAATAAATCAATCCATATTTAAAATAAATCAATCT
1 TTTAAAATAAATCAATCCATAC-AATAAAATAATAAATCAATCCATATTTAAAATAAATCAATCC
*
1735562 ATACAAATAAATTATTTAAAATAAATCAATCCATACTAATAAATTATTTAAAATAAATCAAACCA
65 ATACAAATAAATTATTTAAAATAAATCAATCCATACTAATAAATTATTTAAAATAAATCAATCCA
*** * * * *
1735627 TA-TTTTAAAATAAATCAATCCATACTAATAAATT
130 TACAACTACAAT-AATAAATCAAT-C-CAT--A-T
* *
1735661 ATTTAAAATAAATCAATCCATACAACTACAATAATAAATCAATTCATATTTTAAAATAAATCAAT
1 -TTTAAAATAAATCAATCCATACAA-TAAAATAATAAATCAATCCATA-TTTAAAATAAATCAAT
1735726 CCATACAAATAAATTATTTAAAATAAATCAATCCATACTAATAAATTATTTAAAATAAATCAATC
63 CCATACAAATAAATTATTTAAAATAAATCAATCCATACTAATAAATTATTTAAAATAAATCAATC
1735791 CATACAACTACAATAATAAATCAATCCATAT
128 CATACAACTACAATAATAAATCAATCCATAT
*
1735822 TTTAAAATAAATCAATCCATACGAATAAATTATTTAAAATAAATCAATCCATA-CT--AATAAAT
1 TTTAAAATAAATCAATCCATAC-AATAAA--A--T--AATAAATCAATCCATATTTAAAATAAAT
* * ** * * *
1735884 TATTTAAAATAAATCAATCCATATTTAAAAATAAATCAATCCATACTAATAAATTATTTAAAATA
59 CAATCCATACAAATAAAT---TATTT-AAAATAAATCAATCCATACTAATAAATTATTTAAAATA
*
1735949 AATCAATACATACAACTACAATAATAAATCAATCCATAT
120 AATCAATCCATACAACTACAATAATAAATCAATCCATAT
1735988 TTTAAAATAAATCAATCCATACTAATAAATTATTTAAAATAAATCAATCCATATTTTAAAATAAA
1 TTTAAAATAAATCAATCCATAC-AATAAA--A--T--AATAAATCAATCCATA-TTTAAAATAAA
* * *
1736053 TCAATCCATACTAATAAATTATTTAAAATAAATTAATCCGTACTAATAAATTATTTAAAATAAAT
58 TCAATCCATACAAATAAATTATTTAAAATAAATCAATCCATACTAATAAATTATTTAAAATAAAT
1736118 TATTTAAAAT
Statistics
Matches: 405, Mismatches: 33, Indels: 35
0.86 0.07 0.07
Matches are distributed among these distances:
160 25 0.06
161 3 0.01
162 20 0.05
164 6 0.01
165 49 0.12
166 274 0.68
167 10 0.02
168 1 0.00
170 17 0.04
ACGTcount: A:0.53, C:0.14, G:0.00, T:0.33
Consensus pattern (158 bp):
TTTAAAATAAATCAATCCATACAATAAAATAATAAATCAATCCATATTTAAAATAAATCAATCCA
TACAAATAAATTATTTAAAATAAATCAATCCATACTAATAAATTATTTAAAATAAATCAATCCAT
ACAACTACAATAATAAATCAATCCATAT
Found at i:1735910 original size:21 final size:22
Alignment explanation
Indices: 1735884--1735928 Score: 83
Period size: 22 Copynumber: 2.1 Consensus size: 22
1735874 ACTAATAAAT
1735884 TATTT-AAAATAAATCAATCCA
1 TATTTAAAAATAAATCAATCCA
1735905 TATTTAAAAATAAATCAATCCA
1 TATTTAAAAATAAATCAATCCA
1735927 TA
1 TA
1735929 CTAATAAATT
Statistics
Matches: 23, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
21 5 0.22
22 18 0.78
ACGTcount: A:0.53, C:0.13, G:0.00, T:0.33
Consensus pattern (22 bp):
TATTTAAAAATAAATCAATCCA
Found at i:1735937 original size:22 final size:22
Alignment explanation
Indices: 1735889--1735937 Score: 73
Period size: 22 Copynumber: 2.2 Consensus size: 22
1735879 TAAATTATTT
*
1735889 AAAATAAATCAATCCATATTTA
1 AAAATAAATCAATCCATATCTA
1735911 AAAATAAATCAATCCATA-CTA
1 AAAATAAATCAATCCATATCTA
1735932 ATAAAT
1 A-AAAT
1735938 TATTTAAAAT
Statistics
Matches: 25, Mismatches: 1, Indels: 2
0.89 0.04 0.07
Matches are distributed among these distances:
21 3 0.12
22 22 0.88
ACGTcount: A:0.57, C:0.14, G:0.00, T:0.29
Consensus pattern (22 bp):
AAAATAAATCAATCCATATCTA
Found at i:1736017 original size:22 final size:22
Alignment explanation
Indices: 1735942--1736016 Score: 69
Period size: 22 Copynumber: 3.2 Consensus size: 22
1735932 ATAAATTATT
* *
1735942 TAAAATAAATCAATACATACAA
1 TAAAATAAATCAATCCATATAA
**
1735964 CTACAATAATAAATCAATCCATATTT
1 -T--AA-AATAAATCAATCCATATAA
1735990 TAAAATAAATCAATCCATACTAA
1 TAAAATAAATCAATCCATA-TAA
1736013 TAAA
1 TAAA
1736017 TTATTTAAAA
Statistics
Matches: 42, Mismatches: 6, Indels: 8
0.75 0.11 0.14
Matches are distributed among these distances:
22 16 0.38
23 8 0.19
25 3 0.07
26 15 0.36
ACGTcount: A:0.56, C:0.16, G:0.00, T:0.28
Consensus pattern (22 bp):
TAAAATAAATCAATCCATATAA
Found at i:1736040 original size:54 final size:53
Alignment explanation
Indices: 1735662--1736216 Score: 343
Period size: 54 Copynumber: 10.4 Consensus size: 53
1735652 TAATAAATTA
* *
1735662 TTTAAAATAAATCAATCCATACAACTACA--A--T--AATAAATCAATTCATAT
1 TTTAAAATAAATCAATCCATACAA-TAAATTATTTAAAATAAATCAATCCATAT
1735710 TTTAAAATAAATCAATCCATACAAATAAATTATTTAAAATAAATCAATCCATACTAATAAATT
1 TTTAAAATAAATCAATCCATAC-AATAAATTATTTAAAATAAATCAAT-C---C--AT--A-T
*
1735773 ATTTAAAATAAATCAATCCATACAACTACA--A--T--AATAAATCAATCCATAT
1 -TTTAAAATAAATCAATCCATACAA-TAAATTATTTAAAATAAATCAATCCATAT
1735822 TTTAAAATAAATCAATCCATACGAATAAATTATTTAAAATAAATCAATCCATACT
1 TTTAAAATAAATCAATCCATAC-AATAAATTATTTAAAATAAATCAATCCATA-T
** * ** * ** **
1735877 AATAAATTATTTAAAATAAAT-CAATCCA-TATTTAAAAATAAATCAATCCATACT
1 TTTAAAATAAAT-CAATCCATACAATAAATTATTT-AAAATAAATCAATCCATA-T
** * * * *
1735931 AATAAATTATTTAAAATAAATCAATAC-ATACAACTA--CAATAATAAATCAATCCATAT
1 TTTAAA--A--T-AAATCAATCCATACAATA-AATTATTTAA-AATAAATCAATCCATAT
1735988 TTTAAAATAAATCAATCCATACTAATAAATTATTTAAAATAAATCAATCCATAT
1 TTTAAAATAAATCAATCCATAC-AATAAATTATTTAAAATAAATCAATCCATAT
* *
1736042 TTTAAAATAAATCAATCCATACTAATAAATTATTTAAAATAAATTAATCCGTA-
1 TTTAAAATAAATCAATCCATAC-AATAAATTATTTAAAATAAATCAATCCATAT
* * * *
1736095 -CT--AATAAAT-TAT--TTAAAATAAATTATTTAAAATAAATCAATCCATAT
1 TTTAAAATAAATCAATCCATACAATAAATTATTTAAAATAAATCAATCCATAT
* * * * * * * * **
1736142 TTTATAATAATTTATTTCA-A-AATAAATTATTTTATAATAATTAAAATAAATTAT
1 TTTAAAATAAATCAATCCATACAATAAATTA-TTTAAAATAAAT-CAATCCA-TAT
1736196 TTTAAAATAAATCAATCCATA
1 TTTAAAATAAATCAATCCATA
1736217 TTTTATAATA
Statistics
Matches: 405, Mismatches: 50, Indels: 97
0.73 0.09 0.18
Matches are distributed among these distances:
46 28 0.07
47 2 0.00
48 51 0.13
49 7 0.02
50 16 0.04
51 10 0.02
52 28 0.07
53 14 0.03
54 146 0.36
55 13 0.03
56 5 0.01
57 8 0.02
58 38 0.09
59 4 0.01
60 5 0.01
62 2 0.00
63 3 0.01
64 25 0.06
ACGTcount: A:0.53, C:0.12, G:0.00, T:0.35
Consensus pattern (53 bp):
TTTAAAATAAATCAATCCATACAATAAATTATTTAAAATAAATCAATCCATAT
Found at i:1736046 original size:22 final size:22
Alignment explanation
Indices: 1736020--1736062 Score: 86
Period size: 22 Copynumber: 2.0 Consensus size: 22
1736010 TAATAAATTA
1736020 TTTAAAATAAATCAATCCATAT
1 TTTAAAATAAATCAATCCATAT
1736042 TTTAAAATAAATCAATCCATA
1 TTTAAAATAAATCAATCCATA
1736063 CTAATAAATT
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
22 21 1.00
ACGTcount: A:0.51, C:0.14, G:0.00, T:0.35
Consensus pattern (22 bp):
TTTAAAATAAATCAATCCATAT
Found at i:1736071 original size:22 final size:22
Alignment explanation
Indices: 1736022--1736070 Score: 71
Period size: 22 Copynumber: 2.2 Consensus size: 22
1736012 ATAAATTATT
**
1736022 TAAAATAAATCAATCCATATTT
1 TAAAATAAATCAATCCATATAA
1736044 TAAAATAAATCAATCCATACTAA
1 TAAAATAAATCAATCCATA-TAA
1736067 TAAA
1 TAAA
1736071 TTATTTAAAA
Statistics
Matches: 24, Mismatches: 2, Indels: 1
0.89 0.07 0.04
Matches are distributed among these distances:
22 19 0.79
23 5 0.21
ACGTcount: A:0.55, C:0.14, G:0.00, T:0.31
Consensus pattern (22 bp):
TAAAATAAATCAATCCATATAA
Found at i:1736118 original size:46 final size:48
Alignment explanation
Indices: 1736011--1736173 Score: 159
Period size: 46 Copynumber: 3.2 Consensus size: 48
1736001 AATCCATACT
* * * *
1736011 AATAAATTATTTAAAATAAATCAATCCATATTTTAAAATAAATCAATCCATA
1 AATAAATTATTTAAAATAAATCAATCCATA---TATAATAAATTATTTCA-A
* * *
1736063 CTAATAAATTATTTAAAATAAATTAATCCGTA-CTAATAAATTATTT-AA
1 --AATAAATTATTTAAAATAAATCAATCCATATATAATAAATTATTTCAA
*
1736111 AATAAATTATTTAAAATAAATCAATCCATATTTTATAATAATTTATTTCAA
1 AATAAATTATTTAAAATAAATCAATCCATA---TATAATAAATTATTTCAA
1736162 AATAAATTATTT
1 AATAAATTATTT
1736174 TATAATAATT
Statistics
Matches: 93, Mismatches: 11, Indels: 13
0.79 0.09 0.11
Matches are distributed among these distances:
46 28 0.30
48 1 0.01
49 1 0.01
50 21 0.23
51 14 0.15
54 28 0.30
ACGTcount: A:0.51, C:0.09, G:0.01, T:0.40
Consensus pattern (48 bp):
AATAAATTATTTAAAATAAATCAATCCATATATAATAAATTATTTCAA
Found at i:1736196 original size:39 final size:39
Alignment explanation
Indices: 1736107--1736296 Score: 183
Period size: 39 Copynumber: 5.0 Consensus size: 39
1736097 AATAAATTAT
* * ** *
1736107 TTAAAATAAATTATTT-AAAATAAATCAATCCAT-AT-T
1 TTAAAATAAATTATTTCAAAATAAATTATTTTATAATAA
* *
1736143 TTATAATAATTTATTTCAAAATAAATTATTTTATAATAA
1 TTAAAATAAATTATTTCAAAATAAATTATTTTATAATAA
* * * ** *
1736182 TTAAAATAAATTATTTTAAAATAAATCAATCCAT-AT-T
1 TTAAAATAAATTATTTCAAAATAAATTATTTTATAATAA
* *
1736219 TTATAATAATTTATTTCAAAATAAATTATTTTATAATAA
1 TTAAAATAAATTATTTCAAAATAAATTATTTTATAATAA
* * *
1736258 TTAAAATAAATTATTTTATAATAAATTATTTTAAAATAA
1 TTAAAATAAATTATTTCAAAATAAATTATTTTATAATAA
1736297 ATTATTTTAA
Statistics
Matches: 121, Mismatches: 28, Indels: 7
0.78 0.18 0.04
Matches are distributed among these distances:
36 14 0.12
37 40 0.33
38 6 0.05
39 61 0.50
ACGTcount: A:0.51, C:0.04, G:0.00, T:0.45
Consensus pattern (39 bp):
TTAAAATAAATTATTTCAAAATAAATTATTTTATAATAA
Found at i:1736200 original size:15 final size:15
Alignment explanation
Indices: 1736065--1736313 Score: 132
Period size: 15 Copynumber: 16.5 Consensus size: 15
1736055 AATCCATACT
1736065 AATAAATTA-TTTAA
1 AATAAATTATTTTAA
** *
1736079 AATAAATTAATCCGTACT
1 AATAAATT-AT-TTTA-A
1736097 AATAAATTA-TTTAA
1 AATAAATTATTTTAA
1736111 AATAAATTA-TTTAA
1 AATAAATTATTTTAA
*
1736125 AATAAATCAATCCATATTTTAT
1 AAT--A--AAT---TATTTTAA
* *
1736147 AATAATTTATTTCAA
1 AATAAATTATTTTAA
1736162 AATAAATTATTTT--
1 AATAAATTATTTTAA
*
1736175 -AT-AA-TA-ATTAA
1 AATAAATTATTTTAA
1736186 AATAAATTATTTTAA
1 AATAAATTATTTTAA
*
1736201 AATAAATCAATCCATATTTTAT
1 AAT--A--AAT---TATTTTAA
* *
1736223 AATAATTTATTTCAA
1 AATAAATTATTTTAA
1736238 AATAAATTATTTT--
1 AATAAATTATTTTAA
*
1736251 -AT-AA-TA-ATTAA
1 AATAAATTATTTTAA
*
1736262 AATAAATTATTTTAT
1 AATAAATTATTTTAA
1736277 AATAAATTATTTTAA
1 AATAAATTATTTTAA
1736292 AATAAATTATTTTAA
1 AATAAATTATTTTAA
1736307 AATAAAT
1 AATAAAT
1736314 AACCTTATTA
Statistics
Matches: 180, Mismatches: 24, Indels: 61
0.68 0.09 0.23
Matches are distributed among these distances:
9 4 0.02
10 4 0.02
11 4 0.02
12 8 0.04
13 4 0.02
14 29 0.16
15 83 0.46
16 1 0.01
17 4 0.02
18 15 0.08
19 3 0.02
20 2 0.01
21 2 0.01
22 17 0.09
ACGTcount: A:0.51, C:0.04, G:0.00, T:0.44
Consensus pattern (15 bp):
AATAAATTATTTTAA
Found at i:1736218 original size:76 final size:76
Alignment explanation
Indices: 1736107--1736283 Score: 338
Period size: 76 Copynumber: 2.3 Consensus size: 76
1736097 AATAAATTAT
1736107 TTAAAATAAATTA-TTTAAAATAAATCAATCCATATTTTATAATAATTTATTTCAAAATAAATTA
1 TTAAAATAAATTATTTTAAAATAAATCAATCCATATTTTATAATAATTTATTTCAAAATAAATTA
1736171 TTTTATAATAA
66 TTTTATAATAA
1736182 TTAAAATAAATTATTTTAAAATAAATCAATCCATATTTTATAATAATTTATTTCAAAATAAATTA
1 TTAAAATAAATTATTTTAAAATAAATCAATCCATATTTTATAATAATTTATTTCAAAATAAATTA
1736247 TTTTATAATAA
66 TTTTATAATAA
*
1736258 TTAAAATAAATTATTTTATAATAAAT
1 TTAAAATAAATTATTTTAAAATAAAT
1736284 TATTTTAAAA
Statistics
Matches: 100, Mismatches: 1, Indels: 1
0.98 0.01 0.01
Matches are distributed among these distances:
75 13 0.13
76 87 0.87
ACGTcount: A:0.51, C:0.05, G:0.00, T:0.45
Consensus pattern (76 bp):
TTAAAATAAATTATTTTAAAATAAATCAATCCATATTTTATAATAATTTATTTCAAAATAAATTA
TTTTATAATAA
Found at i:1736294 original size:54 final size:54
Alignment explanation
Indices: 1736160--1736315 Score: 193
Period size: 54 Copynumber: 3.0 Consensus size: 54
1736150 AATTTATTTC
1736160 AAAATAAATTATTTTATAAT--A--A--TTAAAATAAATTATTTTAAAATAAAT
1 AAAATAAATTATTTTATAATAAATTATTTTAAAATAAATTATTTTAAAATAAAT
* ** * * * *
1736208 -CAATCCA-TATTTTATAATAATTTATTTCAAAATAAATTATTTTATAATAATT
1 AAAATAAATTATTTTATAATAAATTATTTTAAAATAAATTATTTTAAAATAAAT
1736260 AAAATAAATTATTTTATAATAAATTATTTTAAAATAAATTATTTTAAAATAAAT
1 AAAATAAATTATTTTATAATAAATTATTTTAAAATAAATTATTTTAAAATAAAT
1736314 AA
1 AA
1736316 CCTTATTAAA
Statistics
Matches: 86, Mismatches: 14, Indels: 10
0.78 0.13 0.09
Matches are distributed among these distances:
46 11 0.13
47 4 0.05
50 1 0.01
52 23 0.27
53 4 0.05
54 43 0.50
ACGTcount: A:0.53, C:0.03, G:0.00, T:0.44
Consensus pattern (54 bp):
AAAATAAATTATTTTATAATAAATTATTTTAAAATAAATTATTTTAAAATAAAT
Found at i:1740057 original size:63 final size:64
Alignment explanation
Indices: 1739973--1740108 Score: 177
Period size: 63 Copynumber: 2.1 Consensus size: 64
1739963 AAACTTCCAT
* * * * * * *
1739973 TTTAGCCACTAAAATCAATTTTTATATGTTTTAATTCTA-TCTTTTAATTTTGTTTTA-TTACAA
1 TTTAGTCACTAAAATAAATTTTCATATATTTTAATTC-AGTATTCTAATTTTATTTTATTTACAA
*
1740036 TTTAGTCACTAAAATAAATTTTCATATATTTTAATTCAGTATTCTAATTTTATTTTATTTATAA
1 TTTAGTCACTAAAATAAATTTTCATATATTTTAATTCAGTATTCTAATTTTATTTTATTTACAA
1740100 TTTAGTCAC
1 TTTAGTCAC
1740109 CGTATATATA
Statistics
Matches: 63, Mismatches: 8, Indels: 3
0.85 0.11 0.04
Matches are distributed among these distances:
62 1 0.02
63 48 0.76
64 14 0.22
ACGTcount: A:0.32, C:0.10, G:0.04, T:0.53
Consensus pattern (64 bp):
TTTAGTCACTAAAATAAATTTTCATATATTTTAATTCAGTATTCTAATTTTATTTTATTTACAA
Found at i:1744411 original size:8 final size:8
Alignment explanation
Indices: 1744395--1744453 Score: 52
Period size: 8 Copynumber: 7.4 Consensus size: 8
1744385 CTCATTCATC
1744395 AAAAA-AG
1 AAAAAGAG
1744402 AAAAAGAG
1 AAAAAGAG
*
1744410 AATAAAGAA
1 AA-AAAGAG
1744419 AAAAAGAG
1 AAAAAGAG
1744427 -AAAAG-G
1 AAAAAGAG
1744433 AAAGAAGAAG
1 AAA-AAG-AG
*
1744443 AAAAAAAG
1 AAAAAGAG
1744451 AAA
1 AAA
1744454 TTAAATCATG
Statistics
Matches: 43, Mismatches: 3, Indels: 11
0.75 0.05 0.19
Matches are distributed among these distances:
6 1 0.02
7 12 0.28
8 17 0.40
9 9 0.21
10 4 0.09
ACGTcount: A:0.78, C:0.00, G:0.20, T:0.02
Consensus pattern (8 bp):
AAAAAGAG
Found at i:1744424 original size:23 final size:24
Alignment explanation
Indices: 1744395--1744453 Score: 68
Period size: 26 Copynumber: 2.4 Consensus size: 24
1744385 CTCATTCATC
1744395 AAAAAAGAAAAA-G-AGAATAAAGA
1 AAAAAAGAAAAAGGAAGAA-AAAGA
*
1744418 AAAAAAGAGAAAAGGAAAGAAGAAGA
1 AAAAAAGA-AAAAGG-AAGAAAAAGA
1744444 AAAAAAGAAA
1 AAAAAAGAAA
1744454 TTAAATCATG
Statistics
Matches: 31, Mismatches: 1, Indels: 6
0.82 0.03 0.16
Matches are distributed among these distances:
23 8 0.26
24 4 0.13
25 3 0.10
26 12 0.39
27 4 0.13
ACGTcount: A:0.78, C:0.00, G:0.20, T:0.02
Consensus pattern (24 bp):
AAAAAAGAAAAAGGAAGAAAAAGA
Found at i:1746333 original size:75 final size:75
Alignment explanation
Indices: 1746150--1746325 Score: 264
Period size: 75 Copynumber: 2.3 Consensus size: 75
1746140 ATCAACAAGA
* *
1746150 AGCAAATGTTGGGCCATGCTGAAAGCCCATTTCAATCAGAAATAGGAATGTTGACGTATTTTGAA
1 AGCAAATGTTGGGGCATGCTGAAAGCCCATTTCAATCAGAAATAGGAATGTTGACGCATTTTGAA
* *
1746215 CGTTTGTATC
66 CATTTATATC
* *
1746225 AGCAAATATTGGGGCATGCTGAAAGCCCATTTCAATCAG-AATCAGGAATGTTGATGCATTTTGA
1 AGCAAATGTTGGGGCATGCTGAAAGCCCATTTCAATCAGAAAT-AGGAATGTTGACGCATTTTGA
*
1746289 ACATTTATATT
65 ACATTTATATC
*
1746300 AGCAAATGTTGGGGCATGTTGAAAGC
1 AGCAAATGTTGGGGCATGCTGAAAGC
1746326 TTATTTCATC
Statistics
Matches: 91, Mismatches: 9, Indels: 2
0.89 0.09 0.02
Matches are distributed among these distances:
74 3 0.03
75 88 0.97
ACGTcount: A:0.32, C:0.15, G:0.23, T:0.30
Consensus pattern (75 bp):
AGCAAATGTTGGGGCATGCTGAAAGCCCATTTCAATCAGAAATAGGAATGTTGACGCATTTTGAA
CATTTATATC
Found at i:1747861 original size:51 final size:51
Alignment explanation
Indices: 1747801--1747907 Score: 169
Period size: 51 Copynumber: 2.1 Consensus size: 51
1747791 ACAATTTATC
* *
1747801 TCACTTGAGATTGTTATTCTTAAAACAAACTGTTTCTCGCTAGAGAAAGTT
1 TCACTTGAGATTGTTATTCTTAAAACAAACTATTTCTCGCTAGAGAAACTT
* * *
1747852 TCACTTGAGATTGTTTTTCTTAAAACAAATTATTTCTCGCTGGAGAAACTT
1 TCACTTGAGATTGTTATTCTTAAAACAAACTATTTCTCGCTAGAGAAACTT
1747903 TCACT
1 TCACT
1747908 CGAAATAGCA
Statistics
Matches: 51, Mismatches: 5, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
51 51 1.00
ACGTcount: A:0.30, C:0.17, G:0.14, T:0.39
Consensus pattern (51 bp):
TCACTTGAGATTGTTATTCTTAAAACAAACTATTTCTCGCTAGAGAAACTT
Found at i:1748007 original size:23 final size:23
Alignment explanation
Indices: 1747981--1748047 Score: 58
Period size: 23 Copynumber: 3.2 Consensus size: 23
1747971 TTTGAAGAAC
1747981 TCATATGAAGAGGAAGAAGGAGT
1 TCATATGAAGAGGAAGAAGGAGT
** *
1748004 TCATA-G-TCA-GAAG-A--A-C
1 TCATATGAAGAGGAAGAAGGAGT
1748020 TCATATGAAGAGGAAGAAGGAGT
1 TCATATGAAGAGGAAGAAGGAGT
1748043 TCATA
1 TCATA
1748048 ATTTGAAGAA
Statistics
Matches: 31, Mismatches: 6, Indels: 14
0.61 0.12 0.27
Matches are distributed among these distances:
16 5 0.16
17 2 0.06
18 1 0.03
19 5 0.16
20 5 0.16
21 1 0.03
22 2 0.06
23 10 0.32
ACGTcount: A:0.43, C:0.09, G:0.28, T:0.19
Consensus pattern (23 bp):
TCATATGAAGAGGAAGAAGGAGT
Found at i:1748008 original size:39 final size:39
Alignment explanation
Indices: 1747956--1748176 Score: 291
Period size: 39 Copynumber: 5.7 Consensus size: 39
1747946 AAAATATTTC
* *
1747956 AAGAAG-AGTTCATAGTTTGAAGAACTCATATGAAGAGG
1 AAGAAGAAGTTCATAATCTGAAGAACTCATATGAAGAGG
* * *
1747994 AAGAAGGAGTTCATAGTCAGAAGAACTCATATGAAGAGG
1 AAGAAGAAGTTCATAATCTGAAGAACTCATATGAAGAGG
* * * *
1748033 AAGAAGGAGTTCATAATTTGAAGAACTCGTCTGAAGAGG
1 AAGAAGAAGTTCATAATCTGAAGAACTCATATGAAGAGG
* * *
1748072 AAGAATAAATTCATAGTCTGAAGAACTCATATGAAGAGG
1 AAGAAGAAGTTCATAATCTGAAGAACTCATATGAAGAGG
* * *
1748111 AAGAATAAGTTCATAATCTCAAGAACTCATCTGAAGAGG
1 AAGAAGAAGTTCATAATCTGAAGAACTCATATGAAGAGG
*
1748150 AAGAAAAAGTTCATAATCTGAAGAACT
1 AAGAAGAAGTTCATAATCTGAAGAACT
1748177 TGTTCAACCT
Statistics
Matches: 162, Mismatches: 20, Indels: 1
0.89 0.11 0.01
Matches are distributed among these distances:
38 6 0.04
39 156 0.96
ACGTcount: A:0.44, C:0.11, G:0.23, T:0.22
Consensus pattern (39 bp):
AAGAAGAAGTTCATAATCTGAAGAACTCATATGAAGAGG
Found at i:1748172 original size:117 final size:117
Alignment explanation
Indices: 1747964--1748176 Score: 336
Period size: 117 Copynumber: 1.8 Consensus size: 117
1747954 TCAAGAAGAG
* * * *
1747964 TTCATAGTTTGAAGAACTCATATGAAGAGGAAGAAGGAGTTCATAGTCAGAAGAACTCATATGAA
1 TTCATAGTCTGAAGAACTCATATGAAGAGGAAGAAGAAGTTCATAATCACAAGAACTCATATGAA
** *
1748029 GAGGAAGAAGGAGTTCATAATTTGAAGAACTCGTCTGAAGAGGAAGAATAAA
66 GAGGAAGAAAAAGTTCATAATCTGAAGAACTCGTCTGAAGAGGAAGAATAAA
* * *
1748081 TTCATAGTCTGAAGAACTCATATGAAGAGGAAGAATAAGTTCATAATCTCAAGAACTCATCTGAA
1 TTCATAGTCTGAAGAACTCATATGAAGAGGAAGAAGAAGTTCATAATCACAAGAACTCATATGAA
1748146 GAGGAAGAAAAAGTTCATAATCTGAAGAACT
66 GAGGAAGAAAAAGTTCATAATCTGAAGAACT
1748177 TGTTCAACCT
Statistics
Matches: 86, Mismatches: 10, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
117 86 1.00
ACGTcount: A:0.43, C:0.11, G:0.23, T:0.23
Consensus pattern (117 bp):
TTCATAGTCTGAAGAACTCATATGAAGAGGAAGAAGAAGTTCATAATCACAAGAACTCATATGAA
GAGGAAGAAAAAGTTCATAATCTGAAGAACTCGTCTGAAGAGGAAGAATAAA
Found at i:1748360 original size:119 final size:117
Alignment explanation
Indices: 1748117--1748376 Score: 294
Period size: 119 Copynumber: 2.2 Consensus size: 117
1748107 GAGGAAGAAT
*** * *
1748117 AAGTTCATAATCTCAAGAACTCATCTGAAGAGGAAGAAAAAGTTCATAATCTGAAGAACTTGTTC
1 AAGTTCATAATAAGAAGAACTCATCTGAAGAGGAAGAAAAAGTTCATAATCTGAAAAACTTATTC
* * * *
1748182 AACCTTAGCTCGATTCATCACAGAAGGAGATAGAGCAACAGAACATTTCCATAA
66 AACCTTAGCTCAATCCATCACAAAAGGAGATAGA-CAACA-AACATTCCCATAA
* *
1748236 GAGTTCGTAATAAGAAGAACTCATCTGAAGAGGAAGAAGAAA-TTCATAATCTGAAAAACTTATT
1 AAGTTCATAATAAGAAGAACTCATCTGAAGAGGAAGAA-AAAGTTCATAATCTGAAAAACTTATT
* * *
1748300 CAACCTTTTGCTCAAATCCATCACAAAAGGAGATA-A-ATC-ATCATTCCCAGTGGAA
65 CAACC-TTAGCTC-AATCCATCACAAAAGGAGATAGACAACAAACATTCCCA-T--AA
1748355 AAGTTCATAATAAGAAGAACTC
1 AAGTTCATAATAAGAAGAACTC
1748377 GTCCGAAGTG
Statistics
Matches: 119, Mismatches: 16, Indels: 12
0.81 0.11 0.08
Matches are distributed among these distances:
116 8 0.07
117 1 0.01
118 2 0.02
119 80 0.67
120 10 0.08
121 18 0.15
ACGTcount: A:0.42, C:0.18, G:0.16, T:0.24
Consensus pattern (117 bp):
AAGTTCATAATAAGAAGAACTCATCTGAAGAGGAAGAAAAAGTTCATAATCTGAAAAACTTATTC
AACCTTAGCTCAATCCATCACAAAAGGAGATAGACAACAAACATTCCCATAA
Found at i:1752166 original size:28 final size:30
Alignment explanation
Indices: 1752132--1752195 Score: 98
Period size: 28 Copynumber: 2.2 Consensus size: 30
1752122 ATAATAAACG
1752132 AGTAAATAAAAAAA-T-AAGAAGATGAAAAA
1 AGTAAATAAAAAAATTAAAGAAGAT-AAAAA
1752161 A-TAAATAAAAAAATTAAAGAAGATAAAAA
1 AGTAAATAAAAAAATTAAAGAAGATAAAAA
1752190 AGTAAA
1 AGTAAA
1752196 GATAAGGAAT
Statistics
Matches: 32, Mismatches: 0, Indels: 5
0.86 0.00 0.14
Matches are distributed among these distances:
28 12 0.38
29 8 0.25
30 12 0.38
ACGTcount: A:0.73, C:0.00, G:0.11, T:0.16
Consensus pattern (30 bp):
AGTAAATAAAAAAATTAAAGAAGATAAAAA
Found at i:1752265 original size:3 final size:3
Alignment explanation
Indices: 1752257--1752288 Score: 64
Period size: 3 Copynumber: 10.7 Consensus size: 3
1752247 AATAAAATAG
1752257 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AA
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AA
1752289 GTAAAGAGTA
Statistics
Matches: 29, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 29 1.00
ACGTcount: A:0.69, C:0.00, G:0.00, T:0.31
Consensus pattern (3 bp):
AAT
Found at i:1753001 original size:37 final size:37
Alignment explanation
Indices: 1752951--1753058 Score: 180
Period size: 37 Copynumber: 2.9 Consensus size: 37
1752941 CTTATGATCC
*
1752951 TATTTTTAGGAGTTTGAATCTTAGTAAAACTCTATCA
1 TATTTTTAGGAGTTTGAATCATAGTAAAACTCTATCA
* *
1752988 TATTTTTAGGAGTTTGAATCATAGTAAAACTTTATCC
1 TATTTTTAGGAGTTTGAATCATAGTAAAACTCTATCA
*
1753025 TATTTTTATGAGTTTGAATCATAGTAAAACTCTA
1 TATTTTTAGGAGTTTGAATCATAGTAAAACTCTA
1753059 ACGTTATGTT
Statistics
Matches: 66, Mismatches: 5, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
37 66 1.00
ACGTcount: A:0.33, C:0.10, G:0.13, T:0.44
Consensus pattern (37 bp):
TATTTTTAGGAGTTTGAATCATAGTAAAACTCTATCA
Found at i:1753727 original size:84 final size:84
Alignment explanation
Indices: 1753639--1754499 Score: 885
Period size: 84 Copynumber: 10.4 Consensus size: 84
1753629 GTTTGCCTCT
* * * * **
1753639 GAGCTGAGTGTAATCGAACTCGAAGGTCTTCGGTTGACAGATAGCTTTTCTCGACTTAAGTTATG
1 GAGCTGAGCGTAGTCGAACTCGAAGGTCTTTGGTTGACAGATAACCCTTCTCGACTTAAGTTATG
* *
1753704 CTGCAAATGATGTTCCTTG
66 CTGCAAATGATATGCCTTG
* * * *
1753723 GAGCTGAGCGTAGTCGAACTCAAAGGTCTTTTGG-TGACAGATAACCCTTCTAGCCTTGAGTTAT
1 GAGCTGAGCGTAGTCGAACTCGAAGGTC-TTTGGTTGACAGATAACCCTTCTCGACTTAAGTTAT
* * *
1753787 GTTGTAAATGATATGCCCTCG
65 GCTGCAAATGATATG-CCTTG
* * * * * *
1753808 AAGCTGAGTGTAATCGAACTCGAGGGTC--T--TTGACAGATAGCCCTTCTCGACTTAAGCTATG
1 GAGCTGAGCGTAGTCGAACTCGAAGGTCTTTGGTTGACAGATAACCCTTCTCGACTTAAGTTATG
1753869 CTGCAAATGATATGCCTTG
66 CTGCAAATGATATGCCTTG
* * * *
1753888 GAGATGAGCGTAGTCGAACTCAAAGGTCTTTGGTTTG-CAGATAACCCATATCGACTTAAGTTAT
1 GAGCTGAGCGTAGTCGAACTCGAAGGTCTTTGG-TTGACAGATAACCCTTCTCGACTTAAGTTAT
1753952 GCTGCAAATGATATGCCTTG
65 GCTGCAAATGATATGCCTTG
* * * * * *
1753972 GAGCTGAGCATAGTCGAACTCGAAGGTCTTTTGGTT-ACATATAATCCTTCTAGCCTTGAGTTAT
1 GAGCTGAGCGTAGTCGAACTCGAAGGTC-TTTGGTTGACAGATAACCCTTCTCGACTTAAGTTAT
* * * *
1754036 ACTGTAAATGATGTGCCCTCG
65 GCTGCAAATGATATG-CCTTG
* * * * * *
1754057 AAGCTGAGTGTAATCGAACTCGAGGGTCTTT-G--G-CAGATAGCCCTTCTCGACTTAAGCTATG
1 GAGCTGAGCGTAGTCGAACTCGAAGGTCTTTGGTTGACAGATAACCCTTCTCGACTTAAGTTATG
* *
1754118 CTACAAATGATGTGCCTTG
66 CTGCAAATGATATGCCTTG
* * *
1754137 GAGCTAAGCGTAGTCGAACTCGAAGGTCTTTGGTTGGCAGATAACCCTTCTCTACTTAAGTTATG
1 GAGCTGAGCGTAGTCGAACTCGAAGGTCTTTGGTTGACAGATAACCCTTCTCGACTTAAGTTATG
1754202 CTGCAAATGATATGCCTTG
66 CTGCAAATGATATGCCTTG
* * * *
1754221 GAGCTGAGCGTAGTCGAACTAGAAGGTCTTTTGGTT-ACAGATAACCCTTCTAGCCTTGAGTTAT
1 GAGCTGAGCGTAGTCGAACTCGAAGGTC-TTTGGTTGACAGATAACCCTTCTCGACTTAAGTTAT
* * * *
1754285 GTTGTAAATAATGTGCCCTTG
65 GCTGCAAATGATATG-CCTTG
* * * * * * *
1754306 AAACTGAGTGTAATCGAACTCG-AGAGTCTTT-G--GA-AGATAGCCCTTCTCGACTTAAGCTGT
1 GAGCTGAGCGTAGTCGAACTCGAAG-GTCTTTGGTTGACAGATAACCCTTCTCGACTTAAGTTAT
* * *
1754366 TCTCCAAATGATGTGCCTTG
65 GCTGCAAATGATATGCCTTG
* * * *
1754386 GAGCTGAGCGTAGTCGAACTCGAAGGTCTTTGGTTGGCAAATAATCTTTCTCGACTTAAGTTATG
1 GAGCTGAGCGTAGTCGAACTCGAAGGTCTTTGGTTGACAGATAACCCTTCTCGACTTAAGTTATG
*
1754451 ATG-ATAATGATATGCCTTG
66 CTGCA-AATGATATGCCTTG
*
1754470 GAGCTGAGCGTAGTTGAACTCGAAGGTCTT
1 GAGCTGAGCGTAGTCGAACTCGAAGGTCTT
1754500 GGTGGGCACG
Statistics
Matches: 630, Mismatches: 121, Indels: 52
0.78 0.15 0.06
Matches are distributed among these distances:
80 85 0.13
81 104 0.17
82 3 0.00
83 5 0.01
84 335 0.53
85 98 0.16
ACGTcount: A:0.25, C:0.19, G:0.24, T:0.31
Consensus pattern (84 bp):
GAGCTGAGCGTAGTCGAACTCGAAGGTCTTTGGTTGACAGATAACCCTTCTCGACTTAAGTTATG
CTGCAAATGATATGCCTTG
Found at i:1754096 original size:249 final size:249
Alignment explanation
Indices: 1753639--1754499 Score: 1337
Period size: 249 Copynumber: 3.5 Consensus size: 249
1753629 GTTTGCCTCT
* * * * * **
1753639 GAGCTGAGTGTAATCGAACTCGAAGGTCTTCGGTTGACAGATAGCTTTTCTCGACTTAAGTTATG
1 GAGCTGAGCGTAGTCGAACTCGAAGGTCTTTGGTTGGCAGATAACCCTTCTCGACTTAAGTTATG
* * * *
1753704 CTGCAAATGATGTTCCTTGGAGCTGAGCGTAGTCGAACTCAAAGGTCTTTTGGTGACAGATAACC
66 CTGCAAATGATATGCCTTGGAGCTGAGCGTAGTCGAACTCGAAGGTCTTTTGGTTACAGATAACC
*
1753769 CTTCTAGCCTTGAGTTATGTTGTAAATGATATGCCCTCGAAGCTGAGTGTAATCGAACTCGAGGG
131 CTTCTAGCCTTGAGTTATGTTGTAAATGATGTGCCCTCGAAGCTGAGTGTAATCGAACTCGAGGG
* * *
1753834 TCTTTGACAGATAGCCCTTCTCGACTTAAGCTATGCTGCAAATGATATGCCTTG
196 TCTTTGGCAGATAGCCCTTCTCGACTTAAGCTATGCTACAAATGATGTGCCTTG
* * * * *
1753888 GAGATGAGCGTAGTCGAACTCAAAGGTCTTTGGTTTGCAGATAACCCATATCGACTTAAGTTATG
1 GAGCTGAGCGTAGTCGAACTCGAAGGTCTTTGGTTGGCAGATAACCCTTCTCGACTTAAGTTATG
* * *
1753953 CTGCAAATGATATGCCTTGGAGCTGAGCATAGTCGAACTCGAAGGTCTTTTGGTTACATATAATC
66 CTGCAAATGATATGCCTTGGAGCTGAGCGTAGTCGAACTCGAAGGTCTTTTGGTTACAGATAACC
**
1754018 CTTCTAGCCTTGAGTTATACTGTAAATGATGTGCCCTCGAAGCTGAGTGTAATCGAACTCGAGGG
131 CTTCTAGCCTTGAGTTATGTTGTAAATGATGTGCCCTCGAAGCTGAGTGTAATCGAACTCGAGGG
1754083 TCTTTGGCAGATAGCCCTTCTCGACTTAAGCTATGCTACAAATGATGTGCCTTG
196 TCTTTGGCAGATAGCCCTTCTCGACTTAAGCTATGCTACAAATGATGTGCCTTG
* *
1754137 GAGCTAAGCGTAGTCGAACTCGAAGGTCTTTGGTTGGCAGATAACCCTTCTCTACTTAAGTTATG
1 GAGCTGAGCGTAGTCGAACTCGAAGGTCTTTGGTTGGCAGATAACCCTTCTCGACTTAAGTTATG
*
1754202 CTGCAAATGATATGCCTTGGAGCTGAGCGTAGTCGAACTAGAAGGTCTTTTGGTTACAGATAACC
66 CTGCAAATGATATGCCTTGGAGCTGAGCGTAGTCGAACTCGAAGGTCTTTTGGTTACAGATAACC
* * * *
1754267 CTTCTAGCCTTGAGTTATGTTGTAAATAATGTGCCCTTGAAACTGAGTGTAATCGAACTCGAGAG
131 CTTCTAGCCTTGAGTTATGTTGTAAATGATGTGCCCTCGAAGCTGAGTGTAATCGAACTCGAGGG
* * * *
1754332 TCTTTGGAAGATAGCCCTTCTCGACTTAAGCTGTTCTCCAAATGATGTGCCTTG
196 TCTTTGGCAGATAGCCCTTCTCGACTTAAGCTATGCTACAAATGATGTGCCTTG
* * *
1754386 GAGCTGAGCGTAGTCGAACTCGAAGGTCTTTGGTTGGCAAATAATCTTTCTCGACTTAAGTTATG
1 GAGCTGAGCGTAGTCGAACTCGAAGGTCTTTGGTTGGCAGATAACCCTTCTCGACTTAAGTTATG
* *
1754451 ATG-ATAATGATATGCCTTGGAGCTGAGCGTAGTTGAACTCGAAGGTCTT
66 CTGCA-AATGATATGCCTTGGAGCTGAGCGTAGTCGAACTCGAAGGTCTT
1754500 GGTGGGCACG
Statistics
Matches: 557, Mismatches: 54, Indels: 2
0.91 0.09 0.00
Matches are distributed among these distances:
248 1 0.00
249 556 1.00
ACGTcount: A:0.25, C:0.19, G:0.24, T:0.31
Consensus pattern (249 bp):
GAGCTGAGCGTAGTCGAACTCGAAGGTCTTTGGTTGGCAGATAACCCTTCTCGACTTAAGTTATG
CTGCAAATGATATGCCTTGGAGCTGAGCGTAGTCGAACTCGAAGGTCTTTTGGTTACAGATAACC
CTTCTAGCCTTGAGTTATGTTGTAAATGATGTGCCCTCGAAGCTGAGTGTAATCGAACTCGAGGG
TCTTTGGCAGATAGCCCTTCTCGACTTAAGCTATGCTACAAATGATGTGCCTTG
Found at i:1754829 original size:110 final size:110
Alignment explanation
Indices: 1754625--1754925 Score: 415
Period size: 110 Copynumber: 2.8 Consensus size: 110
1754615 TATTTCGAGG
* *
1754625 CCAATATCCTTCGCC-ATGAAGTTGAAATTGACTC----TGAAACTGGAAAGTT-TTTGTTGACA
1 CCAATATCCTTC-CCTGTGAAGTTGAAATTGACTCTGAATGAAACTGAAAAGTTGTTTGTTGACA
*
1754684 GCCAGCCGCCCCTTCGCTGTGAAGTTGAGCATGTGTTGTCTCAAGT
65 GTCAGCCGCCCCTTCGCTGTGAAGTTGAGCATGTGTTGTCTCAAGT
1754730 CCAATATCCTTCCCTGTGAAGTTGAAATTGACTCTGAATGAAACTGAAAAGTTGTTTGTTGACAG
1 CCAATATCCTTCCCTGTGAAGTTGAAATTGACTCTGAATGAAACTGAAAAGTTGTTTGTTGACAG
* * * *
1754795 TCAGTCGCCCCTTCGTTGTGAAGTTGAGCTTGTGTTGTCTCGAGT
66 TCAGCCGCCCCTTCGCTGTGAAGTTGAGCATGTGTTGTCTCAAGT
* * **
1754840 CTAATATCATTCGTTGTGAAGTTGAAATTGACTCTGAATGAAACTGAAAAGTTGTTTGTTGACAG
1 CCAATATCCTTCCCTGTGAAGTTGAAATTGACTCTGAATGAAACTGAAAAGTTGTTTGTTGACAG
*
1754905 T----CGCCCTTTCGCTGTGAAGTT
66 TCAGCCGCCCCTTCGCTGTGAAGTT
1754926 AAACAACCAC
Statistics
Matches: 177, Mismatches: 13, Indels: 11
0.88 0.06 0.05
Matches are distributed among these distances:
104 2 0.01
105 30 0.17
106 18 0.10
109 14 0.08
110 113 0.64
ACGTcount: A:0.24, C:0.19, G:0.23, T:0.34
Consensus pattern (110 bp):
CCAATATCCTTCCCTGTGAAGTTGAAATTGACTCTGAATGAAACTGAAAAGTTGTTTGTTGACAG
TCAGCCGCCCCTTCGCTGTGAAGTTGAGCATGTGTTGTCTCAAGT
Done.