Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: VEPZ01007819.1 Hibiscus syriacus cultivar Beakdansim tig00110156_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: 3855360
ACGTcount: A:0.33, C:0.17, G:0.17, T:0.33
Warning! 2745 characters in sequence are not A, C, G, or T
File 14 of 17
Found at i:2931904 original size:3 final size:3
Alignment explanation
Indices: 2931896--2931934 Score: 78
Period size: 3 Copynumber: 13.0 Consensus size: 3
2931886 CGTTATCATT
2931896 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA
1 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA
2931935 TCTGCAAATT
Statistics
Matches: 36, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 36 1.00
ACGTcount: A:0.67, C:0.00, G:0.00, T:0.33
Consensus pattern (3 bp):
ATA
Found at i:2932381 original size:45 final size:47
Alignment explanation
Indices: 2932308--2932399 Score: 170
Period size: 46 Copynumber: 2.0 Consensus size: 47
2932298 AACTATCAGT
2932308 TTCGTTCGTTTTAATACCTAAAGTTTTAA-TTTTTTTTCAAAATTTA
1 TTCGTTCGTTTTAATACCTAAAGTTTTAATTTTTTTTTCAAAATTTA
2932354 TTCGTTCGTTTTAA-ACCTAAAGTTTTAATTTTTTTTTCAAAATTTA
1 TTCGTTCGTTTTAATACCTAAAGTTTTAATTTTTTTTTCAAAATTTA
2932400 ACGTTGAATT
Statistics
Matches: 45, Mismatches: 0, Indels: 2
0.96 0.00 0.04
Matches are distributed among these distances:
45 14 0.31
46 31 0.69
ACGTcount: A:0.28, C:0.11, G:0.07, T:0.54
Consensus pattern (47 bp):
TTCGTTCGTTTTAATACCTAAAGTTTTAATTTTTTTTTCAAAATTTA
Found at i:2934660 original size:34 final size:35
Alignment explanation
Indices: 2934617--2934685 Score: 131
Period size: 35 Copynumber: 2.0 Consensus size: 35
2934607 CTCTTGGTAT
2934617 GTTGATGGCTCA-CGTCCTCTGTTAAAAGGCAGTA
1 GTTGATGGCTCACCGTCCTCTGTTAAAAGGCAGTA
2934651 GTTGATGGCTCACCGTCCTCTGTTAAAAGGCAGTA
1 GTTGATGGCTCACCGTCCTCTGTTAAAAGGCAGTA
2934686 TGCAATATTA
Statistics
Matches: 34, Mismatches: 0, Indels: 1
0.97 0.00 0.03
Matches are distributed among these distances:
34 12 0.35
35 22 0.65
ACGTcount: A:0.23, C:0.22, G:0.26, T:0.29
Consensus pattern (35 bp):
GTTGATGGCTCACCGTCCTCTGTTAAAAGGCAGTA
Found at i:2940017 original size:228 final size:228
Alignment explanation
Indices: 2939553--2940017 Score: 905
Period size: 228 Copynumber: 2.0 Consensus size: 228
2939543 CATCTTATAT
2939553 AATGATGCACCAATGCAATACAACTATATGTAAATATATACCACATCCAAAAGAAAAATAAGATT
1 AATGATGCACCAATGCAATACAACTATATGTAAATATATACCACATCCAAAAGAAAAATAAGATT
2939618 AAAGAATTAGTTTTAAAATGAACACATCAGGCAATAAGCAGATATGGAAAAAACCATGGACTTAT
66 AAAGAATTAGTTTTAAAATGAACACATCAGGCAATAAGCAGATATGGAAAAAACCATGGACTTAT
2939683 ATGGTAATGTTCAATGCCCCTGGGAAGGATTTGTCTAAACTGCTATCTACATTTAACGTTTGCTG
131 ATGGTAATGTTCAATGCCCCTGGGAAGGATTTGTCTAAACTGCTATCTACATTTAACGTTTGCTG
2939748 CAGATGATATGCAATCATTCTATGACTGAGCAA
196 CAGATGATATGCAATCATTCTATGACTGAGCAA
2939781 AATGATGCACCAATGCAATACAACTATATGTAAATATATACCACATCCAAAAGAAAAATAAGATT
1 AATGATGCACCAATGCAATACAACTATATGTAAATATATACCACATCCAAAAGAAAAATAAGATT
2939846 AAAGAATTAGTTTTAAAATGAACACATCAGGCAATAAGCAGATATGGAAAAAACCATGGACTTAT
66 AAAGAATTAGTTTTAAAATGAACACATCAGGCAATAAGCAGATATGGAAAAAACCATGGACTTAT
2939911 ATGGTAATGTTCAATGCCCCTGGGAAGGATTTTGTCTAAACTGCTATCTACATTTAACGTTTGCT
131 ATGGTAATGTTCAATGCCCCTGGGAAGGA-TTTGTCTAAACTGCTATCTACATTTAACGTTTGCT
2939976 GCAGATGATATGCAATCATTCTATGACTGAGC-A
195 GCAGATGATATGCAATCATTCTATGACTGAGCAA
*
2940009 ACTGATGCA
1 AATGATGCA
2940018 GTATGTATGA
Statistics
Matches: 235, Mismatches: 1, Indels: 2
0.99 0.00 0.01
Matches are distributed among these distances:
228 168 0.71
229 67 0.29
ACGTcount: A:0.40, C:0.16, G:0.16, T:0.27
Consensus pattern (228 bp):
AATGATGCACCAATGCAATACAACTATATGTAAATATATACCACATCCAAAAGAAAAATAAGATT
AAAGAATTAGTTTTAAAATGAACACATCAGGCAATAAGCAGATATGGAAAAAACCATGGACTTAT
ATGGTAATGTTCAATGCCCCTGGGAAGGATTTGTCTAAACTGCTATCTACATTTAACGTTTGCTG
CAGATGATATGCAATCATTCTATGACTGAGCAA
Found at i:2943205 original size:27 final size:28
Alignment explanation
Indices: 2943156--2943210 Score: 94
Period size: 27 Copynumber: 2.0 Consensus size: 28
2943146 TTGACCAGAA
2943156 TATCACACTTAAAAAAACCCGACCCGAC
1 TATCACACTTAAAAAAACCCGACCCGAC
*
2943184 TATCACACTT-AAAAAACTCGACCCGAC
1 TATCACACTTAAAAAAACCCGACCCGAC
2943211 CCGAACAAAA
Statistics
Matches: 26, Mismatches: 1, Indels: 1
0.93 0.04 0.04
Matches are distributed among these distances:
27 16 0.62
28 10 0.38
ACGTcount: A:0.42, C:0.35, G:0.07, T:0.16
Consensus pattern (28 bp):
TATCACACTTAAAAAAACCCGACCCGAC
Found at i:2943429 original size:37 final size:38
Alignment explanation
Indices: 2943372--2943447 Score: 118
Period size: 37 Copynumber: 2.0 Consensus size: 38
2943362 TTTTCACCCT
*
2943372 AAACCCGAACCCGACCCGACCCGAATATCACACTTAAA
1 AAACACGAACCCGACCCGACCCGAATATCACACTTAAA
* *
2943410 AAACACGAA-CCGACTCGACCCGAATATCATACTTAAA
1 AAACACGAACCCGACCCGACCCGAATATCACACTTAAA
2943447 A
1 A
2943448 CACCCGACCC
Statistics
Matches: 35, Mismatches: 3, Indels: 1
0.90 0.08 0.03
Matches are distributed among these distances:
37 27 0.77
38 8 0.23
ACGTcount: A:0.42, C:0.34, G:0.11, T:0.13
Consensus pattern (38 bp):
AAACACGAACCCGACCCGACCCGAATATCACACTTAAA
Found at i:2943551 original size:250 final size:242
Alignment explanation
Indices: 2943089--2943632 Score: 724
Period size: 250 Copynumber: 2.2 Consensus size: 242
2943079 ATATAAGGAA
**
2943089 AAATTATATATATTTTTCGGGTCGATCCGGTTTTTTTCACCCTAAA-CCGAACCCGACTTGACCA
1 AAATTATATATA-TTTTCGGGTCGATCCGGTTTTTTTCACCCTAAACCCGAACCCGACCCGACCA
*
2943153 GAATATCACACTTAAAAAAACCCGACCCGACTATCACACTTAAAAAACTCGACCCGACCCGAACA
65 GAATATCACACTTAAAAAAACCCGACCCGAATATCACACTT-AAAAAC-CGACCCGACCCGAACA
* * * *
2943218 AAATAAAGTTTCATCTGACCCGACCCGAATATATGAATTAGAAATCCGACCCGACCCGAAATAAT
128 AAATAAAATTTCATCCGACCCAACCCGAATATATGAATTAGAAATCCGACCCAACCCGAAATAAT
** *
2943283 AAAAAATTATTTTTATTTAATAAAAACATTGACTTAATCCGACCCGACCC
193 AAAAAATTATTTTTATTTAATAAAAACAGCGACTTAACCCGACCCGACCC
* * *
2943333 GAA-T-TATATATTTTCGGGTCGGTCCGG-TTTTTTCACCCTAAACCCGAACCCGACCCGACCCG
1 AAATTATATATATTTTCGGGTCGATCCGGTTTTTTTCACCCTAAACCCGAACCCGACCCGACCAG
*
2943395 AATATCACACTTAAAAAACACGAACCGACTCGACCCGAATATCATACTT-AAAA-C-ACCCGACC
66 AATATCACACTT--AAAA-A--AA-C--C-CGACCCGAATATCACACTTAAAAACCGACCCGACC
2943457 CGAACAAAATAAAATTTCATCCGACCCAACCCGAATATATGAATTAGAAATCCAACCCGACCCAA
122 CGAACAAAATAAAATTTCATCCGACCCAACCCGAATATATGAATTAGAAAT-----CCGACCCAA
*
2943522 CCCGAAATAATAAAAAATTATTTTTATTTAATAAAAACAGCGACTTAACCCGACCCGACCT
182 CCCGAAATAATAAAAAATTATTTTTATTTAATAAAAACAGCGACTTAACCCGACCCGACCC
* * *
2943583 AAATTATATATATTTTCGGGTCGATCTGGTTTTTTTCACCTTTAACCCGA
1 AAATTATATATATTTTCGGGTCGATCCGGTTTTTTTCACCCTAAACCCGA
2943633 CCAAAATAAG
Statistics
Matches: 262, Mismatches: 20, Indels: 27
0.85 0.06 0.09
Matches are distributed among these distances:
240 15 0.06
241 44 0.17
242 6 0.02
243 5 0.02
244 3 0.01
245 56 0.21
246 3 0.01
247 1 0.00
248 4 0.02
249 1 0.00
250 84 0.32
251 1 0.00
252 21 0.08
253 18 0.07
ACGTcount: A:0.37, C:0.27, G:0.11, T:0.25
Consensus pattern (242 bp):
AAATTATATATATTTTCGGGTCGATCCGGTTTTTTTCACCCTAAACCCGAACCCGACCCGACCAG
AATATCACACTTAAAAAAACCCGACCCGAATATCACACTTAAAAACCGACCCGACCCGAACAAAA
TAAAATTTCATCCGACCCAACCCGAATATATGAATTAGAAATCCGACCCAACCCGAAATAATAAA
AAATTATTTTTATTTAATAAAAACAGCGACTTAACCCGACCCGACCC
Found at i:2947633 original size:2 final size:2
Alignment explanation
Indices: 2947626--2947660 Score: 63
Period size: 2 Copynumber: 18.0 Consensus size: 2
2947616 ATAATGCAGA
2947626 AT AT AT AT AT AT AT AT A- 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
2947661 GCATAAATTC
Statistics
Matches: 32, Mismatches: 0, Indels: 2
0.94 0.00 0.06
Matches are distributed among these distances:
1 1 0.03
2 31 0.97
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (2 bp):
AT
Found at i:2947647 original size:17 final size:17
Alignment explanation
Indices: 2947625--2947659 Score: 70
Period size: 17 Copynumber: 2.1 Consensus size: 17
2947615 GATAATGCAG
2947625 AATATATATATATATAT
1 AATATATATATATATAT
2947642 AATATATATATATATAT
1 AATATATATATATATAT
2947659 A
1 A
2947660 TGCATAAATT
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
17 18 1.00
ACGTcount: A:0.54, C:0.00, G:0.00, T:0.46
Consensus pattern (17 bp):
AATATATATATATATAT
Found at i:2947648 original size:15 final size:15
Alignment explanation
Indices: 2947628--2947657 Score: 60
Period size: 15 Copynumber: 2.0 Consensus size: 15
2947618 AATGCAGAAT
2947628 ATATATATATATATA
1 ATATATATATATATA
2947643 ATATATATATATATA
1 ATATATATATATATA
2947658 TATGCATAAA
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 15 1.00
ACGTcount: A:0.53, C:0.00, G:0.00, T:0.47
Consensus pattern (15 bp):
ATATATATATATATA
Found at i:2950488 original size:27 final size:26
Alignment explanation
Indices: 2950460--2950525 Score: 84
Period size: 25 Copynumber: 2.6 Consensus size: 26
2950450 TATATATATA
*
2950460 TATATTAATATATTAT-TATTTTTTT
1 TATATTAATATATAATATATTTTTTT
2950485 TATATTAATATATAATATATTTTTATAT
1 TATATTAATATATAATATATTTTT-T-T
2950513 TA-ATT-ATATATAA
1 TATATTAATATATAA
2950526 ATCCTAAACC
Statistics
Matches: 37, Mismatches: 1, Indels: 5
0.86 0.02 0.12
Matches are distributed among these distances:
25 15 0.41
26 15 0.41
27 4 0.11
28 3 0.08
ACGTcount: A:0.41, C:0.00, G:0.00, T:0.59
Consensus pattern (26 bp):
TATATTAATATATAATATATTTTTTT
Found at i:2950494 original size:25 final size:24
Alignment explanation
Indices: 2950446--2950521 Score: 82
Period size: 24 Copynumber: 3.1 Consensus size: 24
2950436 CGCCCCCTAT
* * *
2950446 TATTTATATATATATATATTAATA
1 TATTAATATATTTTTATATTAATA
* *
2950470 TATTATTATTTTTTTTATATTAATA
1 TATTAATATATTT-TTATATTAATA
2950495 TA-TAATATATTTTTATATTAATTA
1 TATTAATATATTTTTATATTAA-TA
2950519 TAT
1 TAT
2950522 ATAAATCCTA
Statistics
Matches: 42, Mismatches: 7, Indels: 5
0.78 0.13 0.09
Matches are distributed among these distances:
23 9 0.21
24 21 0.50
25 12 0.29
ACGTcount: A:0.39, C:0.00, G:0.00, T:0.61
Consensus pattern (24 bp):
TATTAATATATTTTTATATTAATA
Found at i:2950495 original size:23 final size:23
Alignment explanation
Indices: 2950451--2950522 Score: 81
Period size: 25 Copynumber: 3.0 Consensus size: 23
2950441 CCTATTATTT
* *
2950451 ATATATATATATATTAATATATTA
1 ATATATTTTTATATTAATATA-TA
* *
2950475 TTATTTTTTTTATATTAATATATA
1 ATA-TATTTTTATATTAATATATA
2950499 ATATATTTTTATATTAATTATATA
1 ATATATTTTTATATTAA-TATATA
2950523 TAAATCCTAA
Statistics
Matches: 40, Mismatches: 6, Indels: 4
0.80 0.12 0.08
Matches are distributed among these distances:
23 13 0.32
24 12 0.30
25 15 0.38
ACGTcount: A:0.42, C:0.00, G:0.00, T:0.58
Consensus pattern (23 bp):
ATATATTTTTATATTAATATATA
Found at i:2955290 original size:39 final size:39
Alignment explanation
Indices: 2955230--2955345 Score: 128
Period size: 39 Copynumber: 3.0 Consensus size: 39
2955220 TACAGTAACA
* **
2955230 AATAAAGACTCCATGATTGCATGGTGTCTTCAGGCCAA-
1 AATAAAGACTCCATGAGTGCATGACGTCTTCAGGCCAAG
* * *
2955268 ACATAAAGACTCCATAAGTGCATGCCGTCTTCAGGTCAATG
1 A-ATAAAGACTCCATGAGTGCATGACGTCTTCAGGCCAA-G
* *
2955309 AAT-AAGACTCCAGGAGTGCACGACGTCTTCAGGCCAA
1 AATAAAGACTCCATGAGTGCATGACGTCTTCAGGCCAA
2955346 TGGATAAGAC
Statistics
Matches: 65, Mismatches: 10, Indels: 5
0.81 0.12 0.06
Matches are distributed among these distances:
38 1 0.02
39 61 0.94
40 2 0.03
41 1 0.02
ACGTcount: A:0.32, C:0.24, G:0.22, T:0.22
Consensus pattern (39 bp):
AATAAAGACTCCATGAGTGCATGACGTCTTCAGGCCAAG
Found at i:2955347 original size:39 final size:39
Alignment explanation
Indices: 2955255--2955363 Score: 123
Period size: 39 Copynumber: 2.8 Consensus size: 39
2955245 ATTGCATGGT
** * *
2955255 GTCTTCAGGCCAA--ACATAAAGACTCCATAAGTGCATGCC
1 GTCTTCAGGCCAATGA-AT-AAGACTCCAGGAGTGCACGAC
*
2955294 GTCTTCAGGTCAATGAATAAGACTCCAGGAGTGCACGAC
1 GTCTTCAGGCCAATGAATAAGACTCCAGGAGTGCACGAC
* *
2955333 GTCTTCAGGCCAATGGATAAGACTCTAGGAG
1 GTCTTCAGGCCAATGAATAAGACTCCAGGAG
2955364 ATGACGTCTT
Statistics
Matches: 60, Mismatches: 8, Indels: 4
0.83 0.11 0.06
Matches are distributed among these distances:
39 57 0.95
40 2 0.03
41 1 0.02
ACGTcount: A:0.31, C:0.24, G:0.24, T:0.21
Consensus pattern (39 bp):
GTCTTCAGGCCAATGAATAAGACTCCAGGAGTGCACGAC
Found at i:2955379 original size:36 final size:38
Alignment explanation
Indices: 2955293--2955380 Score: 108
Period size: 39 Copynumber: 2.3 Consensus size: 38
2955283 AAGTGCATGC
*
2955293 CGTCTTCAGGTCAATGAATAAGACTCCAGGAGTGCACGA
1 CGTCTTCAGGCCAATGAATAAGACTCCAGGAG-GCACGA
* * *
2955332 CGTCTTCAGGCCAATGGATAAGACTCTAGGA-G-ATGA
1 CGTCTTCAGGCCAATGAATAAGACTCCAGGAGGCACGA
*
2955368 CGTCTTTAGGCCA
1 CGTCTTCAGGCCA
2955381 TGCAGAAACA
Statistics
Matches: 44, Mismatches: 5, Indels: 3
0.85 0.10 0.06
Matches are distributed among these distances:
36 15 0.34
37 1 0.02
39 28 0.64
ACGTcount: A:0.28, C:0.23, G:0.26, T:0.23
Consensus pattern (38 bp):
CGTCTTCAGGCCAATGAATAAGACTCCAGGAGGCACGA
Found at i:2959183 original size:55 final size:55
Alignment explanation
Indices: 2958583--2959183 Score: 808
Period size: 55 Copynumber: 11.0 Consensus size: 55
2958573 TCAAATGACA
* * * * *
2958583 GGTCTGCTCCCTATCCCTTCAGGGAGTATA-AGACTCGACCAATCTTCAGT-AAACG
1 GGTCCGCTCTCTATTCCTTCAGAGAGTATAGA-ACTCGAACAATCTTCA-TAAAACG
* * * * * *
2958638 TGTCTGCTCCCTGTTCATTCAGGGAGTATA-AGACTCGAACAATCTTCA-ACAAACG
1 GGTCCGCTCTCTATTCCTTCAGAGAGTATAGA-ACTCGAACAATCTTCATA-AAACG
* *
2958693 GGTCCGTTCTCTATTCCTTCAGAGAGTATAGAACTCGAACAATCCTCA-ACAAACG
1 GGTCCGCTCTCTATTCCTTCAGAGAGTATAGAACTCGAACAATCTTCATA-AAACG
* * * * * *
2958748 GG-CTTGCTCCCTCTTGCTTCAGGGAG--TAGAACTCGAACAATCTTTA-ACAAACG
1 GGTC-CGCTCTCTATTCCTTCAGAGAGTATAGAACTCGAACAATCTTCATA-AAACG
* *
2958801 AGTCCGCTCTCTATTCTTTCAGAGAGTATAGAACTCGAACAATCTTCATAAAACG
1 GGTCCGCTCTCTATTCCTTCAGAGAGTATAGAACTCGAACAATCTTCATAAAACG
*
2958856 GGTCCTCTCTCTATTCCTTCAGAGAGTATAGAACTCGAACAATCTTCA-ATAAACG
1 GGTCCGCTCTCTATTCCTTCAGAGAGTATAGAACTCGAACAATCTTCATA-AAACG
* * *
2958911 GGTCCGCTCTCTAGTCCTTCAGAGAGTATAGAACTCGAACAGTCTTCATAAAATG
1 GGTCCGCTCTCTATTCCTTCAGAGAGTATAGAACTCGAACAATCTTCATAAAACG
* *
2958966 GGTCCGCTCTCTAGTCCTTCAGAGAGTATAAAACTCGAACAATCTTCATAAAACG
1 GGTCCGCTCTCTATTCCTTCAGAGAGTATAGAACTCGAACAATCTTCATAAAACG
2959021 GGTCCGCTCTCTATTCCTTCAGAGAGTATAGAACTCGAACAATCTTCATAAAACG
1 GGTCCGCTCTCTATTCCTTCAGAGAGTATAGAACTCGAACAATCTTCATAAAACG
2959076 GGTCCGCTCTCTATTCCTTCAGAGAGTATAGAACTCGAACAATCTTCATAAAACG
1 GGTCCGCTCTCTATTCCTTCAGAGAGTATAGAACTCGAACAATCTTCATAAAACG
*
2959131 GGTCCGCTCTCTATTCCTTCAGAGAGTATAGAACTTGAACAATCTTCATAAAA
1 GGTCCGCTCTCTATTCCTTCAGAGAGTATAGAACTCGAACAATCTTCATAAAA
2959184 TGAGTTTGTT
Statistics
Matches: 494, Mismatches: 42, Indels: 20
0.89 0.08 0.04
Matches are distributed among these distances:
53 42 0.09
54 3 0.01
55 446 0.90
56 3 0.01
ACGTcount: A:0.30, C:0.25, G:0.17, T:0.27
Consensus pattern (55 bp):
GGTCCGCTCTCTATTCCTTCAGAGAGTATAGAACTCGAACAATCTTCATAAAACG
Found at i:2960593 original size:17 final size:16
Alignment explanation
Indices: 2960550--2960697 Score: 82
Period size: 16 Copynumber: 9.5 Consensus size: 16
2960540 TCTTTTTTTA
*
2960550 TTTTTCATTTTTCTCT
1 TTTTTCATTTTTCACT
* *
2960566 TTCTTCTTTTTTTCAC-
1 TTTTTC-ATTTTTCACT
**
2960582 TTTTTCACTTTTTCTTT
1 TTTTTCA-TTTTTCACT
*
2960599 TTTTTCATTTTTCATTT
1 TTTTTCATTTTTCA-CT
2960616 TTTTTCATTTTTCA-T
1 TTTTTCATTTTTCACT
2960631 TTTTTC--TTTT--CT
1 TTTTTCATTTTTCACT
*
2960643 TTTCTTCATTTTTTTA-T
1 TTT-TTCA-TTTTTCACT
* *
2960660 TTTTCCTTTTCTTC-CT
1 TTTTTCATTT-TTCACT
*
2960676 TTTTTC--TTTTCATT
1 TTTTTCATTTTTCACT
2960690 TTTTTCAT
1 TTTTTCAT
2960698 CATTTTTCAT
Statistics
Matches: 103, Mismatches: 13, Indels: 32
0.70 0.09 0.22
Matches are distributed among these distances:
12 4 0.04
13 10 0.10
14 9 0.09
15 10 0.10
16 36 0.35
17 34 0.33
ACGTcount: A:0.07, C:0.18, G:0.00, T:0.75
Consensus pattern (16 bp):
TTTTTCATTTTTCACT
Found at i:2960612 original size:24 final size:24
Alignment explanation
Indices: 2960535--2960714 Score: 121
Period size: 24 Copynumber: 7.6 Consensus size: 24
2960525 CCCCCTTTAA
* *
2960535 TTTTCTCTTTTT-TTATTTTTCAT
1 TTTTCACTTTTTCTTTTTTTTCAT
*
2960558 TTTTCTCTTTCTTC-TTTTTTTCACT
1 TTTTCACTTT-TTCTTTTTTTTCA-T
2960583 TTTTCACTTTTTCTTTTTTTTCAT
1 TTTTCACTTTTTCTTTTTTTTCAT
2960607 TTTTCA-TTTTT-TTTCATTTTTCAT
1 TTTTCACTTTTTCTTT--TTTTTCAT
* *
2960631 TTTT-TC-TTTTC-TTTTCTTCATT
1 TTTTCACTTTTTCTTTTTTTTCA-T
* * * *
2960653 TTTTTA-TTTTTCCTTTTCTTCCT
1 TTTTCACTTTTTCTTTTTTTTCAT
*
2960676 TTTT-TC-TTTTCATTTTTTTCATCAT
1 TTTTCACTTTTTC-TTTTTTT--TCAT
2960701 TTTTCA-TTTTTCTT
1 TTTTCACTTTTTCTT
2960715 CAAGCGAAAT
Statistics
Matches: 128, Mismatches: 11, Indels: 34
0.74 0.06 0.20
Matches are distributed among these distances:
21 6 0.05
22 13 0.10
23 36 0.28
24 40 0.31
25 28 0.22
26 5 0.04
ACGTcount: A:0.08, C:0.17, G:0.00, T:0.75
Consensus pattern (24 bp):
TTTTCACTTTTTCTTTTTTTTCAT
Found at i:2960685 original size:29 final size:30
Alignment explanation
Indices: 2960615--2960692 Score: 79
Period size: 29 Copynumber: 2.6 Consensus size: 30
2960605 ATTTTTCATT
* *
2960615 TTTTTTCATTTTTCATTTTTTCTTTTCTTTTC
1 TTTTTTC-TTTTT-ATTTTTCCTTTTCTTTCC
**
2960647 TTCATT-TTTTTATTTTTCCTTTTC-TTCC
1 TTTTTTCTTTTTATTTTTCCTTTTCTTTCC
*
2960675 TTTTTTCTTTTCATTTTT
1 TTTTTTCTTTTTATTTTT
2960693 TTCATCATTT
Statistics
Matches: 38, Mismatches: 7, Indels: 5
0.76 0.14 0.10
Matches are distributed among these distances:
28 7 0.18
29 22 0.58
30 5 0.13
32 4 0.11
ACGTcount: A:0.06, C:0.17, G:0.00, T:0.77
Consensus pattern (30 bp):
TTTTTTCTTTTTATTTTTCCTTTTCTTTCC
Found at i:2960694 original size:77 final size:78
Alignment explanation
Indices: 2960558--2960711 Score: 194
Period size: 77 Copynumber: 2.0 Consensus size: 78
2960548 TATTTTTCAT
**
2960558 TTTTCTCTTTCTTCTTTTTTTCACTTTTTCACTTTTTCTTTTTTTTCATTTTTCATTTTTTTTCA
1 TTTTCTCTTTCTTCTTTTTTTCACTTTTTCACTTTTTCTTTTTTTTCA-TTTTCATTTTTCATCA
2960623 TTTTTCATTTTTTC
65 TTTTTCATTTTTTC
2960637 TTTTCT-TTTCTTCATTTTTTT-A-TTTTTC-C-TTTTCTTCCTTTTTTC-TTTTCATTTTTTTC
1 TTTTCTCTTTCTTC-TTTTTTTCACTTTTTCACTTTTTCTT--TTTTTTCATTTTCA--TTTTTC
2960696 ATCATTTTTCATTTTT
61 ATCATTTTTCATTTTT
2960712 CTTCAAGCGA
Statistics
Matches: 68, Mismatches: 2, Indels: 12
0.83 0.02 0.15
Matches are distributed among these distances:
75 13 0.19
76 1 0.01
77 33 0.49
78 8 0.12
79 13 0.19
ACGTcount: A:0.08, C:0.18, G:0.00, T:0.75
Consensus pattern (78 bp):
TTTTCTCTTTCTTCTTTTTTTCACTTTTTCACTTTTTCTTTTTTTTCATTTTCATTTTTCATCAT
TTTTCATTTTTTC
Found at i:2966331 original size:48 final size:48
Alignment explanation
Indices: 2966199--2966318 Score: 231
Period size: 48 Copynumber: 2.5 Consensus size: 48
2966189 TTATAATTTT
2966199 AACATTATTGATTTAGTATTTGTAGTAGAAATGTTAAGATAATTAGATC
1 AACA-TATTGATTTAGTATTTGTAGTAGAAATGTTAAGATAATTAGATC
2966248 AACATATTGATTTAGTATTTGTAGTAGAAATGTTAAGATAATTAGATC
1 AACATATTGATTTAGTATTTGTAGTAGAAATGTTAAGATAATTAGATC
2966296 AACATATTGATTTAGTATTTGTA
1 AACATATTGATTTAGTATTTGTA
2966319 ATATATATGT
Statistics
Matches: 71, Mismatches: 0, Indels: 1
0.99 0.00 0.01
Matches are distributed among these distances:
48 67 0.94
49 4 0.06
ACGTcount: A:0.38, C:0.04, G:0.16, T:0.42
Consensus pattern (48 bp):
AACATATTGATTTAGTATTTGTAGTAGAAATGTTAAGATAATTAGATC
Found at i:2968829 original size:162 final size:162
Alignment explanation
Indices: 2968562--2968876 Score: 432
Period size: 162 Copynumber: 1.9 Consensus size: 162
2968552 TGTTGCAGTC
* ** *
2968562 GAAGTAAAGCGGAAGACACCGCGTATTTTCGAGTGCTTTTGTATGGACTGAAGATGTCGTGCACT
1 GAAGTAAAGCCGAAGACACCGCGTATTCCCGAGTGCTTCTGTATGGACTGAAGATGTCGTGCACT
* * * ** * *
2968627 CCACGTGTCTCTCCTAGACCTGAAAACGTAGTACATTCCCGGAGTCTTTATGTTTGGCCTGAATA
66 CCACGTGTCTCTCCTAGACCTGAAAACGCAGTACATTCCCGAAGTCTTTACGTTTAACCTAAAGA
* *
2968692 CGTCAAGTAACCATGAAATCTTTTTATGGACT
131 CGTCAAGCAACCATAAAATCTTTTTATGGACT
* * *
2968724 GAAGTAAAGCCGAAGATATCGCGTATTCCCGAGTGCTTCTGTATGGATTGAAGATGTCGTGCACT
1 GAAGTAAAGCCGAAGACACCGCGTATTCCCGAGTGCTTCTGTATGGACTGAAGATGTCGTGCACT
* ** * *
2968789 CCACGTGTCTCTCTTAGATTTGAAAACGCCGTGCATTCCCGAAGTCTTTACGTTTAACCTAAAGA
66 CCACGTGTCTCTCCTAGACCTGAAAACGCAGTACATTCCCGAAGTCTTTACGTTTAACCTAAAGA
*
2968854 CGTCAAGCAATCATAAAATCTTT
131 CGTCAAGCAACCATAAAATCTTT
2968877 ATATTGTTAC
Statistics
Matches: 131, Mismatches: 22, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
162 131 1.00
ACGTcount: A:0.27, C:0.22, G:0.22, T:0.30
Consensus pattern (162 bp):
GAAGTAAAGCCGAAGACACCGCGTATTCCCGAGTGCTTCTGTATGGACTGAAGATGTCGTGCACT
CCACGTGTCTCTCCTAGACCTGAAAACGCAGTACATTCCCGAAGTCTTTACGTTTAACCTAAAGA
CGTCAAGCAACCATAAAATCTTTTTATGGACT
Found at i:2973729 original size:2 final size:2
Alignment explanation
Indices: 2973722--2973756 Score: 61
Period size: 2 Copynumber: 17.5 Consensus size: 2
2973712 ATTCTAAAAT
*
2973722 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TG TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
2973757 GTATGCATGA
Statistics
Matches: 31, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
2 31 1.00
ACGTcount: A:0.46, C:0.00, G:0.03, T:0.51
Consensus pattern (2 bp):
TA
Found at i:2973931 original size:4 final size:4
Alignment explanation
Indices: 2973922--2973949 Score: 56
Period size: 4 Copynumber: 7.0 Consensus size: 4
2973912 TCATATATTT
2973922 TGTA TGTA TGTA TGTA TGTA TGTA TGTA
1 TGTA TGTA TGTA TGTA TGTA TGTA TGTA
2973950 GTAATTAGTA
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
4 24 1.00
ACGTcount: A:0.25, C:0.00, G:0.25, T:0.50
Consensus pattern (4 bp):
TGTA
Found at i:2983314 original size:2 final size:2
Alignment explanation
Indices: 2983307--2983336 Score: 60
Period size: 2 Copynumber: 15.0 Consensus size: 2
2983297 CTTCTTATTA
2983307 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
2983337 CTGAAAATAT
Statistics
Matches: 28, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 28 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:2993426 original size:6 final size:6
Alignment explanation
Indices: 2993415--2993451 Score: 60
Period size: 6 Copynumber: 6.5 Consensus size: 6
2993405 AAATAGTTAT
2993415 ATATAC ATATAC ATATAC ATAT-- ATATAC ATATAC ATA
1 ATATAC ATATAC ATATAC ATATAC ATATAC ATATAC ATA
2993452 CATATATGTA
Statistics
Matches: 29, Mismatches: 0, Indels: 4
0.88 0.00 0.12
Matches are distributed among these distances:
4 4 0.14
6 25 0.86
ACGTcount: A:0.51, C:0.14, G:0.00, T:0.35
Consensus pattern (6 bp):
ATATAC
Found at i:2993440 original size:10 final size:10
Alignment explanation
Indices: 2993412--2993458 Score: 67
Period size: 10 Copynumber: 4.5 Consensus size: 10
2993402 CTCAAATAGT
2993412 TATATATACA
1 TATATATACA
2993422 TATACATATACA
1 TAT--ATATACA
2993434 TATATATACA
1 TATATATACA
*
2993444 TATACATACA
1 TATATATACA
2993454 TATAT
1 TATAT
2993459 GTATATAATA
Statistics
Matches: 33, Mismatches: 2, Indels: 4
0.85 0.05 0.10
Matches are distributed among these distances:
10 23 0.70
12 10 0.30
ACGTcount: A:0.49, C:0.13, G:0.00, T:0.38
Consensus pattern (10 bp):
TATATATACA
Found at i:2993463 original size:16 final size:16
Alignment explanation
Indices: 2993412--2993457 Score: 74
Period size: 16 Copynumber: 2.9 Consensus size: 16
2993402 CTCAAATAGT
*
2993412 TATATATACATATACA
1 TATACATACATATACA
*
2993428 TATACATATATATACA
1 TATACATACATATACA
2993444 TATACATACATATA
1 TATACATACATATA
2993458 TGTATATAAT
Statistics
Matches: 27, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
16 27 1.00
ACGTcount: A:0.50, C:0.13, G:0.00, T:0.37
Consensus pattern (16 bp):
TATACATACATATACA
Found at i:2996532 original size:32 final size:32
Alignment explanation
Indices: 2996496--2996557 Score: 106
Period size: 32 Copynumber: 1.9 Consensus size: 32
2996486 AGCAACAACC
*
2996496 ATTAAAATTGATACCACAATCGATCAACAAAG
1 ATTAAAATTGATACCACAATCGATAAACAAAG
*
2996528 ATTAAAATTGATGCCACAATCGATAAACAA
1 ATTAAAATTGATACCACAATCGATAAACAA
2996558 CACACCAATA
Statistics
Matches: 28, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
32 28 1.00
ACGTcount: A:0.50, C:0.18, G:0.10, T:0.23
Consensus pattern (32 bp):
ATTAAAATTGATACCACAATCGATAAACAAAG
Found at i:3003549 original size:2 final size:2
Alignment explanation
Indices: 3003542--3003566 Score: 50
Period size: 2 Copynumber: 12.5 Consensus size: 2
3003532 TCCCACTGAA
3003542 CT CT CT CT CT CT CT CT CT CT CT CT C
1 CT CT CT CT CT CT CT CT CT CT CT CT C
3003567 CGTAATGTCA
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 23 1.00
ACGTcount: A:0.00, C:0.52, G:0.00, T:0.48
Consensus pattern (2 bp):
CT
Found at i:3003901 original size:17 final size:16
Alignment explanation
Indices: 3003879--3003926 Score: 51
Period size: 17 Copynumber: 2.8 Consensus size: 16
3003869 ATTTATGATA
3003879 TATTTTAAATATTTTAG
1 TATTTTAAAT-TTTTAG
*
3003896 TATTTTTTAAATTTTTAT
1 TA--TTTTAAATTTTTAG
3003914 TATTTTGAAATTT
1 TATTTT-AAATTT
3003927 AAAATATTTT
Statistics
Matches: 27, Mismatches: 1, Indels: 6
0.79 0.03 0.18
Matches are distributed among these distances:
16 4 0.15
17 8 0.30
18 7 0.26
19 8 0.30
ACGTcount: A:0.31, C:0.00, G:0.04, T:0.65
Consensus pattern (16 bp):
TATTTTAAATTTTTAG
Found at i:3003911 original size:18 final size:19
Alignment explanation
Indices: 3003881--3003919 Score: 62
Period size: 18 Copynumber: 2.1 Consensus size: 19
3003871 TTATGATATA
3003881 TTTTAAATATTTTAGTATT
1 TTTTAAATATTTTAGTATT
*
3003900 TTTTAAAT-TTTTATTATT
1 TTTTAAATATTTTAGTATT
3003918 TT
1 TT
3003920 GAAATTTAAA
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
18 11 0.58
19 8 0.42
ACGTcount: A:0.28, C:0.00, G:0.03, T:0.69
Consensus pattern (19 bp):
TTTTAAATATTTTAGTATT
Found at i:3004225 original size:2 final size:2
Alignment explanation
Indices: 3004218--3004259 Score: 75
Period size: 2 Copynumber: 20.5 Consensus size: 2
3004208 TGTATAAAAT
3004218 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TGA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T-A TA T
3004260 GAAAAGATAT
Statistics
Matches: 39, Mismatches: 0, Indels: 2
0.95 0.00 0.05
Matches are distributed among these distances:
2 37 0.95
3 2 0.05
ACGTcount: A:0.48, C:0.00, G:0.02, T:0.50
Consensus pattern (2 bp):
TA
Found at i:3004392 original size:2 final size:2
Alignment explanation
Indices: 3004387--3004420 Score: 68
Period size: 2 Copynumber: 17.0 Consensus size: 2
3004377 TATGTACAAA
3004387 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
3004421 TTAAATATTT
Statistics
Matches: 32, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 32 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:3005456 original size:30 final size:29
Alignment explanation
Indices: 3005416--3005475 Score: 95
Period size: 29 Copynumber: 2.1 Consensus size: 29
3005406 GTTCGTTCTT
* *
3005416 TAAAAT-TTTAAAAGTTTGAGTTTACTCC
1 TAAAATATTTTAAAGTTCGAGTTTACTCC
3005444 TAAAATATTTTAAAGTTCGAGTTTACTCC
1 TAAAATATTTTAAAGTTCGAGTTTACTCC
3005473 TAA
1 TAA
3005476 CATAAAATCA
Statistics
Matches: 29, Mismatches: 2, Indels: 1
0.91 0.06 0.03
Matches are distributed among these distances:
28 6 0.21
29 23 0.79
ACGTcount: A:0.37, C:0.12, G:0.10, T:0.42
Consensus pattern (29 bp):
TAAAATATTTTAAAGTTCGAGTTTACTCC
Found at i:3008281 original size:14 final size:14
Alignment explanation
Indices: 3008262--3008291 Score: 51
Period size: 14 Copynumber: 2.1 Consensus size: 14
3008252 CTATTATTGA
3008262 TTTTTCTTATTATT
1 TTTTTCTTATTATT
*
3008276 TTTTTCTTATTCTT
1 TTTTTCTTATTATT
3008290 TT
1 TT
3008292 AAAATAGTAT
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
14 15 1.00
ACGTcount: A:0.10, C:0.10, G:0.00, T:0.80
Consensus pattern (14 bp):
TTTTTCTTATTATT
Found at i:3010870 original size:27 final size:29
Alignment explanation
Indices: 3010822--3010876 Score: 78
Period size: 28 Copynumber: 2.0 Consensus size: 29
3010812 AAAATATTAA
*
3010822 TTTTTTTAATATTTTTTAGTTGA-AATTC
1 TTTTTATAATATTTTTTAGTTGAGAATTC
*
3010850 TTTTTATAATA-TTTTTGGTTGAGAATT
1 TTTTTATAATATTTTTTAGTTGAGAATT
3010877 GAAAATATTA
Statistics
Matches: 24, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
27 10 0.42
28 14 0.58
ACGTcount: A:0.25, C:0.02, G:0.11, T:0.62
Consensus pattern (29 bp):
TTTTTATAATATTTTTTAGTTGAGAATTC
Found at i:3012497 original size:14 final size:14
Alignment explanation
Indices: 3012461--3012500 Score: 53
Period size: 14 Copynumber: 2.9 Consensus size: 14
3012451 TTCAATTAAT
*
3012461 TTTATGTTCGTTCG
1 TTTATGTTCGTTCA
*
3012475 TTTACGTTCGTTCA
1 TTTATGTTCGTTCA
*
3012489 TTTGTGTTCGTT
1 TTTATGTTCGTT
3012501 TATCATTTAG
Statistics
Matches: 22, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
14 22 1.00
ACGTcount: A:0.07, C:0.15, G:0.20, T:0.57
Consensus pattern (14 bp):
TTTATGTTCGTTCA
Found at i:3026789 original size:64 final size:65
Alignment explanation
Indices: 3026721--3026849 Score: 242
Period size: 65 Copynumber: 2.0 Consensus size: 65
3026711 AGTAATGATG
*
3026721 GTGGAGCTTCAAACCACATGTTGAGA-TTTTATCCCAGCAGTTGAACCACATCTTAGTACACCAC
1 GTGGAGCTTCAAACCACATGTTGAGAGATTTATCCCAGCAGTTGAACCACATCTTAGTACACCAC
3026785 GTGGAGCTTCAAACCACATGTTGAGAGATTTATCCCAGCAGTTGAACCACATCTTAGTACACCAC
1 GTGGAGCTTCAAACCACATGTTGAGAGATTTATCCCAGCAGTTGAACCACATCTTAGTACACCAC
3026850 TATCACCAAG
Statistics
Matches: 63, Mismatches: 1, Indels: 1
0.97 0.02 0.02
Matches are distributed among these distances:
64 26 0.41
65 37 0.59
ACGTcount: A:0.30, C:0.26, G:0.18, T:0.26
Consensus pattern (65 bp):
GTGGAGCTTCAAACCACATGTTGAGAGATTTATCCCAGCAGTTGAACCACATCTTAGTACACCAC
Found at i:3027507 original size:30 final size:30
Alignment explanation
Indices: 3027442--3027516 Score: 109
Period size: 29 Copynumber: 2.6 Consensus size: 30
3027432 AACTTAACAC
* *
3027442 ATTT-AGTACCTAAAGTATCAGTTTGGTCT
1 ATTTAAGTACCTAAACTATCAGTTTAGTCT
*
3027471 -TTTAAGTACCTAAACTATCAGTTTAGTTT
1 ATTTAAGTACCTAAACTATCAGTTTAGTCT
3027500 ATTTAAGTACCTAAACT
1 ATTTAAGTACCTAAACT
3027517 TTCAAATTAT
Statistics
Matches: 41, Mismatches: 3, Indels: 3
0.87 0.06 0.06
Matches are distributed among these distances:
28 3 0.07
29 22 0.54
30 16 0.39
ACGTcount: A:0.32, C:0.15, G:0.12, T:0.41
Consensus pattern (30 bp):
ATTTAAGTACCTAAACTATCAGTTTAGTCT
Found at i:3029609 original size:4 final size:4
Alignment explanation
Indices: 3029600--3029635 Score: 63
Period size: 4 Copynumber: 9.0 Consensus size: 4
3029590 ACGCAAGGAA
*
3029600 TAAT TAAT TAGT TAAT TAAT TAAT TAAT TAAT TAAT
1 TAAT TAAT TAAT TAAT TAAT TAAT TAAT TAAT TAAT
3029636 CACTACATTC
Statistics
Matches: 30, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
4 30 1.00
ACGTcount: A:0.47, C:0.00, G:0.03, T:0.50
Consensus pattern (4 bp):
TAAT
Found at i:3035213 original size:92 final size:89
Alignment explanation
Indices: 3035031--3035217 Score: 338
Period size: 90 Copynumber: 2.1 Consensus size: 89
3035021 TTTCACTAAA
3035031 AATTTTCTTCTTTTCACTCTTTTAAAACAGCTCTCTTCCAGATTATCAGACGGCGACCAGCGAGG
1 AATTTTCTTCTTTTCACTCTTTTAAAACAGCTCTCTTCCAGATTATCAGACGGCGACCAGCGAGG
3035096 CTTTGCATAAAGCCTGCATAACCC
66 CTTTGCATAAAGCCTGCATAACCC
*
3035120 AATTTTCTTCTTTTTCACTCTTTTTAAACAGCTCTCTTCCAGATTATCAGGACGGCGACCAGCGG
1 AATTTTCTTC-TTTTCACTCTTTTAAAACAGCTCTCTTCCAGATTATCA-GACGGCGACCAGC-G
3035185 AGGCTTTGCATAAAGCCTGCATAACCC
63 AGGCTTTGCATAAAGCCTGCATAACCC
3035212 AATTTT
1 AATTTT
3035218 AGGAAATTGC
Statistics
Matches: 94, Mismatches: 1, Indels: 3
0.96 0.01 0.03
Matches are distributed among these distances:
89 10 0.11
90 37 0.39
91 13 0.14
92 34 0.36
ACGTcount: A:0.25, C:0.27, G:0.15, T:0.33
Consensus pattern (89 bp):
AATTTTCTTCTTTTCACTCTTTTAAAACAGCTCTCTTCCAGATTATCAGACGGCGACCAGCGAGG
CTTTGCATAAAGCCTGCATAACCC
Found at i:3036307 original size:17 final size:17
Alignment explanation
Indices: 3036287--3036322 Score: 54
Period size: 17 Copynumber: 2.1 Consensus size: 17
3036277 GACCCGGATG
3036287 TTGTCGGTACCCAAATT
1 TTGTCGGTACCCAAATT
* *
3036304 TTGTGGGTACCCACATT
1 TTGTCGGTACCCAAATT
3036321 TT
1 TT
3036323 TTCATTTTTA
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
17 17 1.00
ACGTcount: A:0.19, C:0.22, G:0.19, T:0.39
Consensus pattern (17 bp):
TTGTCGGTACCCAAATT
Found at i:3039680 original size:29 final size:29
Alignment explanation
Indices: 3039644--3039700 Score: 114
Period size: 29 Copynumber: 2.0 Consensus size: 29
3039634 AGTATTGACC
3039644 GTAGGTCGCCATGCACTCCGGGCGACCTT
1 GTAGGTCGCCATGCACTCCGGGCGACCTT
3039673 GTAGGTCGCCATGCACTCCGGGCGACCT
1 GTAGGTCGCCATGCACTCCGGGCGACCT
3039701 ACCCTTGCTC
Statistics
Matches: 28, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
29 28 1.00
ACGTcount: A:0.14, C:0.35, G:0.32, T:0.19
Consensus pattern (29 bp):
GTAGGTCGCCATGCACTCCGGGCGACCTT
Found at i:3039775 original size:29 final size:29
Alignment explanation
Indices: 3039740--3039795 Score: 96
Period size: 29 Copynumber: 1.9 Consensus size: 29
3039730 TCCCAACACA
3039740 TAGGTCGCCATGC-CTTCCGGGCGACCTTG
1 TAGGTCGCCATGCAC-TCCGGGCGACCTTG
3039769 TAGGTCGCCATGCACTCCGGGCGACCT
1 TAGGTCGCCATGCACTCCGGGCGACCT
3039796 ACCCTCGCAC
Statistics
Matches: 26, Mismatches: 0, Indels: 2
0.93 0.00 0.07
Matches are distributed among these distances:
29 25 0.96
30 1 0.04
ACGTcount: A:0.12, C:0.36, G:0.30, T:0.21
Consensus pattern (29 bp):
TAGGTCGCCATGCACTCCGGGCGACCTTG
Found at i:3039877 original size:33 final size:33
Alignment explanation
Indices: 3039806--3039878 Score: 83
Period size: 33 Copynumber: 2.2 Consensus size: 33
3039796 ACCCTCGCAC
* * * *
3039806 GCCTCGGATTCCCACGCATAGCTCGCTCGGTTG
1 GCCTCGGATGCCCACACATAACTCGCTCGGATG
* * *
3039839 CCCTCGGATGCCCTCACATAACTCGTTCGGATG
1 GCCTCGGATGCCCACACATAACTCGCTCGGATG
3039872 GCCTCGG
1 GCCTCGG
3039879 TCGGATGACA
Statistics
Matches: 32, Mismatches: 8, Indels: 0
0.80 0.20 0.00
Matches are distributed among these distances:
33 32 1.00
ACGTcount: A:0.14, C:0.37, G:0.26, T:0.23
Consensus pattern (33 bp):
GCCTCGGATGCCCACACATAACTCGCTCGGATG
Found at i:3041598 original size:87 final size:86
Alignment explanation
Indices: 3041435--3041634 Score: 242
Period size: 87 Copynumber: 2.3 Consensus size: 86
3041425 TAATAAGTCG
* * * * *
3041435 TAAACATTTAATTAAACCAAAAAT-AACGTTTTGATTCTATCAAAACTTGAAATAACCCTATCCG
1 TAAACATTTAGTTATACAAAAAATAAACGATTTGATTCTATCAAAACTTGAAATAAACCTATCCG
3041499 AAGTACACTACTAATAGATCA
66 AAGTACACTACTAATAGATCA
* * ** * *
3041520 TAAATATTTAGTTATACAAAAAATAAACGATTTGGTTCTATCAATGCTTCGAAATAAATCTATCT
1 TAAACATTTAGTTATACAAAAAATAAACGATTTGATTCTATCAAAACTT-GAAATAAACCTATCC
* *
3041585 GAATTACTCTACTAATAGATCA
65 GAAGTACACTACTAATAGATCA
*
3041607 TAAACA-TTAGGTTATCCAAAAAATAAAC
1 TAAACATTTA-GTTATACAAAAAATAAAC
3041635 AATTCAGTAC
Statistics
Matches: 97, Mismatches: 15, Indels: 4
0.84 0.13 0.03
Matches are distributed among these distances:
85 20 0.21
86 23 0.24
87 54 0.56
ACGTcount: A:0.45, C:0.16, G:0.08, T:0.32
Consensus pattern (86 bp):
TAAACATTTAGTTATACAAAAAATAAACGATTTGATTCTATCAAAACTTGAAATAAACCTATCCG
AAGTACACTACTAATAGATCA
Found at i:3045647 original size:25 final size:24
Alignment explanation
Indices: 3045619--3045665 Score: 67
Period size: 24 Copynumber: 1.9 Consensus size: 24
3045609 TTTTCGATTC
*
3045619 TCTTAATATTTTTTTCTTTGGTGTT
1 TCTT-ATATTTTTTTATTTGGTGTT
*
3045644 TCTTATTTTTTTTTATTTGGTG
1 TCTTATATTTTTTTATTTGGTG
3045666 AAAACAGATG
Statistics
Matches: 20, Mismatches: 2, Indels: 1
0.87 0.09 0.04
Matches are distributed among these distances:
24 16 0.80
25 4 0.20
ACGTcount: A:0.11, C:0.06, G:0.13, T:0.70
Consensus pattern (24 bp):
TCTTATATTTTTTTATTTGGTGTT
Found at i:3051751 original size:2 final size:2
Alignment explanation
Indices: 3051744--3051780 Score: 65
Period size: 2 Copynumber: 18.5 Consensus size: 2
3051734 TGTCTAAAGA
*
3051744 AT AT AT AT GT 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 AT AT A
3051781 GGGTTAAGAT
Statistics
Matches: 33, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
2 33 1.00
ACGTcount: A:0.49, C:0.00, G:0.03, T:0.49
Consensus pattern (2 bp):
AT
Found at i:3055690 original size:23 final size:23
Alignment explanation
Indices: 3055664--3055708 Score: 63
Period size: 23 Copynumber: 2.0 Consensus size: 23
3055654 CACCACAGCT
*
3055664 CGTATAAATGCACCGAAGTGCCC
1 CGTAGAAATGCACCGAAGTGCCC
* *
3055687 CGTAGAATTGCACCGTAGTGCC
1 CGTAGAAATGCACCGAAGTGCC
3055709 ATATAATAAT
Statistics
Matches: 19, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
23 19 1.00
ACGTcount: A:0.27, C:0.29, G:0.24, T:0.20
Consensus pattern (23 bp):
CGTAGAAATGCACCGAAGTGCCC
Found at i:3055959 original size:149 final size:149
Alignment explanation
Indices: 3055687--3055990 Score: 590
Period size: 149 Copynumber: 2.0 Consensus size: 149
3055677 CGAAGTGCCC
3055687 CGTAGAATTGCACCGTAGTGCCATATAATAATGTCCATAAGGACCACATAGAATTCCTTAAGAAT
1 CGTAGAATTGCACCGTAGTGCCATATAATAATGTCCATAAGGACCACATAGAATTCCTTAAGAAT
3055752 CATATACATATACTATGGATCAAGTATGTGTCTTTCAAGACTTCACACAGGTTCCAAAGGATATA
66 CATATACATATACTATGGATCAAGTATGTGTCTTTCAAGACTTCACACAGGTTCCAAAGGATATA
3055817 CATATGTCCTAAAGAACCG
131 CATATGTCCTAAAGAACCG
* *
3055836 CTTAGAATTGCACCGTAGTGCCATATAATGATGTCCATAAGGACCACATAGAATTCCTTAAGAAT
1 CGTAGAATTGCACCGTAGTGCCATATAATAATGTCCATAAGGACCACATAGAATTCCTTAAGAAT
3055901 CATATACATATACTATGGATCAAGTATGTGTCTTTCAAGACTTCACACAGGTTCCAAAGGATATA
66 CATATACATATACTATGGATCAAGTATGTGTCTTTCAAGACTTCACACAGGTTCCAAAGGATATA
3055966 CATATGTCCTAAAGAACCG
131 CATATGTCCTAAAGAACCG
3055985 CGTAGA
1 CGTAGA
3055991 CCCTCTACCC
Statistics
Matches: 152, Mismatches: 3, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
149 152 1.00
ACGTcount: A:0.36, C:0.20, G:0.16, T:0.28
Consensus pattern (149 bp):
CGTAGAATTGCACCGTAGTGCCATATAATAATGTCCATAAGGACCACATAGAATTCCTTAAGAAT
CATATACATATACTATGGATCAAGTATGTGTCTTTCAAGACTTCACACAGGTTCCAAAGGATATA
CATATGTCCTAAAGAACCG
Found at i:3056143 original size:30 final size:30
Alignment explanation
Indices: 3056075--3056143 Score: 95
Period size: 30 Copynumber: 2.3 Consensus size: 30
3056065 TCATATCGCG
* *
3056075 TAGTCATATTATTTCCATACCTTTATCACA
1 TAGTCATATCATTTACATACCTTTATCACA
*
3056105 TAGGCATATCATTTACATACC-TTATCACA
1 TAGTCATATCATTTACATACCTTTATCACA
3056134 TAGCTCATAT
1 TAG-TCATAT
3056144 AACTTTTTCT
Statistics
Matches: 34, Mismatches: 4, Indels: 2
0.85 0.10 0.05
Matches are distributed among these distances:
29 11 0.32
30 23 0.68
ACGTcount: A:0.32, C:0.23, G:0.06, T:0.39
Consensus pattern (30 bp):
TAGTCATATCATTTACATACCTTTATCACA
Found at i:3056237 original size:34 final size:29
Alignment explanation
Indices: 3056158--3056229 Score: 117
Period size: 29 Copynumber: 2.5 Consensus size: 29
3056148 TTTTCTGCAT
* *
3056158 ATTCATGTCATGCAATACATATAATATGA
1 ATTCATGTCATGTAATACATATAATATAA
*
3056187 ATTCATGTCATGTAATACATTTAATATAA
1 ATTCATGTCATGTAATACATATAATATAA
3056216 ATTCATGTCATGTA
1 ATTCATGTCATGTA
3056230 TCATAATATG
Statistics
Matches: 40, Mismatches: 3, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
29 40 1.00
ACGTcount: A:0.39, C:0.12, G:0.10, T:0.39
Consensus pattern (29 bp):
ATTCATGTCATGTAATACATATAATATAA
Found at i:3056664 original size:65 final size:67
Alignment explanation
Indices: 3056532--3056701 Score: 213
Period size: 66 Copynumber: 2.6 Consensus size: 67
3056522 TTTTTCTCAT
* * * *
3056532 GGGGGAATCGGTTCCCCCCT-GGGGTATCGATTCCCCTCAAGCATTATGGAATTTCATATACGAT
1 GGGGGTATCGGTTCCCCCTTGGGGGTACCGATTCCCCTCAAGCATTATGGAAATTCATATACGAT
3056596 GA
66 GA
* * * *
3056598 -GGGGTATCGGTTCCCCCTTGGGGGTACCGATTCCCCTCTAGCATTCTGGAAATTCAT-TTCGTT
1 GGGGGTATCGGTTCCCCCTTGGGGGTACCGATTCCCCTCAAGCATTATGGAAATTCATATACGAT
3056661 GA
66 GA
*
3056663 GGGGGTATCGGTT-CCCCTTGAATGGGTACCGATTCCCCT
1 GGGGGTATCGGTTCCCCCTTG--GGGGTACCGATTCCCCT
3056702 AACCCAGAAA
Statistics
Matches: 91, Mismatches: 9, Indels: 7
0.85 0.08 0.07
Matches are distributed among these distances:
65 30 0.33
66 45 0.49
67 16 0.18
ACGTcount: A:0.18, C:0.26, G:0.27, T:0.29
Consensus pattern (67 bp):
GGGGGTATCGGTTCCCCCTTGGGGGTACCGATTCCCCTCAAGCATTATGGAAATTCATATACGAT
GA
Found at i:3059768 original size:105 final size:105
Alignment explanation
Indices: 3059322--3060834 Score: 1537
Period size: 106 Copynumber: 14.4 Consensus size: 105
3059312 CATTGTTCCA
* * * ** *
3059322 AGTCCAATATCCTCCGTCGTGAAGTTGAAATTGGCTCTGGAACCGGGAAATTGTTTGTTGACAA-
1 AGTCCAATATCCTTCGTTGTGAAGTTGAAATTGGCTCTGAAATTGGG-AAGTGTTTGTTGACAAC
* * * * *
3059386 C--C-GTCCCTCCCGTTGTGAAGTTGAAATTGTGTTGTCTCG
65 CAGCGGTCCCT-TCGTCGTGAAGTTGAACTTGCGTTGTCTGG
* ** * *
3059425 AGTCCAACATCCTTCGTTGTGAAGTTGAAATTGATTCTG-AA-T--GAAAT-TTTGTTGACAAGC
1 AGTCCAATATCCTTCGTTGTGAAGTTGAAATTGGCTCTGAAATTGGGAAGTGTTTGTTGACAACC
3059485 AGCGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCTGG
66 AGCGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCTGG
* * *
3059525 AGTCTAATATCCTTCGTTGTGAAGTTGAAATTGGCTCTGAGATTGGGAAGT-TGTTGTTGACAAG
1 AGTCCAATATCCTTCGTTGTGAAGTTGAAATTGGCTCTGAAATTGGGAAGTGT-TTGTTGACAAC
*
3059589 CAGCGGT-CCTTCGTCG-GAAGTTGAACTTGCGTTATCTGG
65 CAGCGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCTGG
* **
3059628 AGTCC-ATATCCTTCGCTGTGAAGTTGAAATTGGCTCTGAAATTGGGAA-AATTTGTTGACAACC
1 AGTCCAATATCCTTCGTTGTGAAGTTGAAATTGGCTCTGAAATTGGGAAGTGTTTGTTGACAACC
* * * *
3059691 AGCGGTCCATTCGTCGTCGTGAAGTTGAACATACGTTGTATGG
66 AGCGGTCC---CTTCGTCGTGAAGTTGAACTTGCGTTGTCTGG
* *
3059734 AGTCC-A-ATCCTTCGATGTGAAGTTGAAATTGGCTCTGAAATTGGGAAGTTGTTTATTGACAAC
1 AGTCCAATATCCTTCGTTGTGAAGTTGAAATTGGCTCTGAAATTGGGAAG-TGTTTGTTGACAAC
*
3059797 C-GCGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTATCTGG
65 CAGCGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCTGG
*
3059837 AGTCCAATATCCTTCGTTGTGAAGTTG-AATTGGCTC-GAAATTGAGAAGTTGTTTGTTGACAAC
1 AGTCCAATATCCTTCGTTGTGAAGTTGAAATTGGCTCTGAAATTGGGAAG-TGTTTGTTGACAAC
* *
3059900 CAGTGGTCCCTTCGTCGTGAAGTTG-ACTTGTGTTGTCTGG
65 CAGCGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCTGG
* * * * * * *
3059940 AGTCC-A-CTCCTTCGCTGTGAAGTTGAAATTGACTCT-AGAATTGGAAATTATTTATTGACAA-
1 AGTCCAATATCCTTCGTTGTGAAGTTGAAATTGGCTCTGA-AATTGGGAAGTGTTTGTTGACAAC
*
3060001 CAACGGGT-CCTTCGTCGTGAAGTTGAACTTGCGTTG---GG
65 CAGC-GGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCTGG
*
3060039 AGTCCAATATCCTTCGTTGTGAAGTTG-AATTGG--CTGAAATTGAGAAGTTGTTTGTTGACAAC
1 AGTCCAATATCCTTCGTTGTGAAGTTGAAATTGGCTCTGAAATTGGGAAG-TGTTTGTTGACAAC
* **
3060101 CAGCGG-CCCTTCGTCGTGAAGTTGAACATGCGTTGTCAAG
65 CAGCGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCTGG
* *
3060141 AGTCCAATATCCTTCGATGTGAAGTTGAAATTGGCTCTGAAATTGGGAAGTTGTTTATTGACAAC
1 AGTCCAATATCCTTCGTTGTGAAGTTGAAATTGGCTCTGAAATTGGGAAG-TGTTTGTTGACAAC
3060206 CAGCGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCTGG
65 CAGCGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCTGG
*
3060247 AGTCCAATATCCTTCG-TGTGAAGTTGAAATTGGCTCTGAAATTGAGAAGTTGTTTGTTGAC-AC
1 AGTCCAATATCCTTCGTTGTGAAGTTGAAATTGGCTCTGAAATTGGGAAG-TGTTTGTTGACAAC
* * *
3060310 CAGTGGTCCCTTCGTCGTGAAG-TGAACTTGTCCCTTCGTCGTGA
65 CAGCGGTCCCTTCGTCGTGAAGTTGAACTTG--CGTT-GTC-TGG
** * * * *
3060354 AGT-TGA-A--CTTGTGTTGTCTGGAGTCT-AATATCCTTCGTTTTGAAGT-TGAAATTGACTCT
1 AGTCCAATATCCTT-CGTTG--TGAAGT-TGAA-A---TT-G----G--CTCTGAAATTG----G
* * ** * * * *
3060413 GAA-TGAAATTTTATTGAAAATTAGCCGCCCCTTCGTCGTGAAGTTGAGCTTGTGTTGTCTTGG
47 GAAGTG----TTTGTTGACAACCAGCGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTC-TGG
* * * *
3060476 -GTCCAAGATCCTTCGCTGAGAAGTTGAAATTGGCTCTGAAATTGGGAAGTTGTTTATTGACAAC
1 AGTCCAATATCCTTCGTTGTGAAGTTGAAATTGGCTCTGAAATTGGGAAG-TGTTTGTTGACAAC
* *
3060540 CAGCGGTCCCTTCGTCGTGAAGTTGAACTTGCATTGTCTTG
65 CAGCGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCTGG
* *
3060581 AGTCCAATATCCTTCGTTGTGAAGTTGAAATTGGCTCTGAAATTGGGAAATTGTTTATTGACAAC
1 AGTCCAATATCCTTCGTTGTGAAGTTGAAATTGGCTCTGAAATTGGG-AAGTGTTTGTTGACAAC
* *
3060646 CAGCGGTCCATTCGTCGTGAAGTTGAACTTGCGTTGTATGG
65 CAGCGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCTGG
* * *
3060687 AGTCCAATATCTTTCGTTGTGAAGTTGAAATTGGCTCTGAAATTGGGAAAATTGTTTATTGACAA
1 AGTCCAATATCCTTCGTTGTGAAGTTGAAATTGGCTCTGAAATTGGG--AAGTGTTTGTTGACAA
*
3060752 CCAACGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCTGG
64 CCAGCGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCTGG
* * * ** * * *
3060794 AGTTCAATTTTCTTCGCCGCGAAGTTGAAATAGACTCTGAA
1 AGTCCAATATCCTTCGTTGTGAAGTTGAAATTGGCTCTGAA
3060835 TGAAGTTGGA
Statistics
Matches: 1198, Mismatches: 133, Indels: 154
0.81 0.09 0.10
Matches are distributed among these distances:
97 11 0.01
98 13 0.01
99 49 0.04
100 70 0.06
101 77 0.06
102 106 0.09
103 160 0.13
104 70 0.06
105 167 0.14
106 265 0.22
107 114 0.10
108 5 0.00
110 2 0.00
111 3 0.00
112 9 0.01
113 1 0.00
116 1 0.00
117 9 0.01
118 3 0.00
119 2 0.00
121 7 0.01
122 12 0.01
123 10 0.01
124 22 0.02
125 10 0.01
ACGTcount: A:0.23, C:0.18, G:0.26, T:0.34
Consensus pattern (105 bp):
AGTCCAATATCCTTCGTTGTGAAGTTGAAATTGGCTCTGAAATTGGGAAGTGTTTGTTGACAACC
AGCGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCTGG
Found at i:3059825 original size:312 final size:316
Alignment explanation
Indices: 3059322--3060834 Score: 1577
Period size: 334 Copynumber: 4.8 Consensus size: 316
3059312 CATTGTTCCA
* * ** * *
3059322 AGTCCAATATCCTCCG-TCGTGAAGTTGAAATTGGCTCTGGAACCGGGAAATTGTTTGTTGACAA
1 AGTCCAATATCCTTCGCT-GTGAAGTTGAAATTGGCTCTGAAATTGGGAAA-TATTTATTGACAA
* * * * * * * *
3059386 -C--C-GTCCCTCCCGTTGTGAAGTTGAAATTGTGTTGTCTCGAGTCCAACATCCTTCGTTGTGA
64 CCAGCGGTCCAT-TCGTCGTGAAGTTGAACTTGCGTTGTATGGAGTCCAATATCCTTCGTTGTGA
** * * *
3059447 AGTTGAAATTGATTCTG-AA-T--GAA-AT-TTTGTTGACAAGCAGCGGTCCCTTCGTCGTGAAG
128 AGTTGAAATTGGCTCTGAAATTGGGAAGTTGTTTATTGACAA-CCGCGGTCCCTTCGTCGTGAAG
* *
3059506 TTGAACTTGCGTTGTCTGGAGTCTAATATCCTTCGTTGTGAAGTTGAAATTGGCTCTGAGATTGG
192 TTGAACTTGCGTTGTCTGGAGTCCAATATCCTTCGTTGTGAAGTTGAAATTGGCTCTGAAATTGG
* * *
3059571 GAAGTTG-TTGTTGACAAGCAGCGGT-CCTTCGTCG-GAAGTTGAACTTGCGTTATCTGG
257 GAAGTTGTTTATTGACAACCAGCGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCTGG
*
3059628 AGTCC-ATATCCTTCGCTGTGAAGTTGAAATTGGCTCTGAAATTGGGAAA-ATTTGTTGACAACC
1 AGTCCAATATCCTTCGCTGTGAAGTTGAAATTGGCTCTGAAATTGGGAAATATTTATTGACAACC
* * *
3059691 AGCGGTCCATTCGTCGTCGTGAAGTTGAACATACGTTGTATGGAGTCC-A-ATCCTTCGATGTGA
66 AGCGGTCCA-T--TCGTCGTGAAGTTGAACTTGCGTTGTATGGAGTCCAATATCCTTCGTTGTGA
3059754 AGTTGAAATTGGCTCTGAAATTGGGAAGTTGTTTATTGACAACCGCGGTCCCTTCGTCGTGAAGT
128 AGTTGAAATTGGCTCTGAAATTGGGAAGTTGTTTATTGACAACCGCGGTCCCTTCGTCGTGAAGT
* *
3059819 TGAACTTGCGTTATCTGGAGTCCAATATCCTTCGTTGTGAAGTTG-AATTGGCTC-GAAATTGAG
193 TGAACTTGCGTTGTCTGGAGTCCAATATCCTTCGTTGTGAAGTTGAAATTGGCTCTGAAATTGGG
* * *
3059882 AAGTTGTTTGTTGACAACCAGTGGTCCCTTCGTCGTGAAGTTG-ACTTGTGTTGTCTGG
258 AAGTTGTTTATTGACAACCAGCGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCTGG
* *
3059940 AGTCC-A-CTCCTTCGCTGTGAAGTTGAAATTGACTCT-AGAATT-GGAAATTATTTATTGACAA
1 AGTCCAATATCCTTCGCTGTGAAGTTGAAATTGGCTCTGA-AATTGGGAAA-TATTTATTGACAA
*
3060001 -CAACGGGTCC-TTCGTCGTGAAGTTGAACTTGCGTTG---GGAGTCCAATATCCTTCGTTGTGA
64 CCAGC-GGTCCATTCGTCGTGAAGTTGAACTTGCGTTGTATGGAGTCCAATATCCTTCGTTGTGA
* *
3060061 AGTTG-AATTGG--CTGAAATTGAGAAGTTGTTTGTTGACAACCAGCGG-CCCTTCGTCGTGAAG
128 AGTTGAAATTGGCTCTGAAATTGGGAAGTTGTTTATTGACAACC-GCGGTCCCTTCGTCGTGAAG
* ** *
3060122 TTGAACATGCGTTGTCAAGAGTCCAATATCCTTCGATGTGAAGTTGAAATTGGCTCTGAAATTGG
192 TTGAACTTGCGTTGTCTGGAGTCCAATATCCTTCGTTGTGAAGTTGAAATTGGCTCTGAAATTGG
3060187 GAAGTTGTTTATTGACAACCAGCGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCTGG
257 GAAGTTGTTTATTGACAACCAGCGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCTGG
* * * *
3060247 AGTCCAATATCCTTCG-TGTGAAGTTGAAATTGGCTCTGAAATTGAGAAGTTGTTTGTTGAC-AC
1 AGTCCAATATCCTTCGCTGTGAAGTTGAAATTGGCTCTGAAATTGGGAA-ATATTTATTGACAAC
* * * * * ** *
3060310 CAGTGGTCCCTTCGTCGTGAAG-TGAACTTGTCCCTTCGTCGTGAAGT-TGA-A--CTTGTGTTG
65 CAGCGGTCCATTCGTCGTGAAGTTGAACTTG--CGTT-GT-ATGGAGTCCAATATCCTT-CGTTG
* * * * *
3060370 TCTGGAGTCT-AATATCCTTCGTTTTGAAGT-TGAAATTGACTCTGAATGAAAT-TTTATTGAAA
125 --TGAAGT-TGAA-A---TT-G----G--CTCTGAAATTG----GGAA-G--TTGTTTATTGACA
** * * * * * * *
3060432 ATTAGCCGCCCCTTCGTCGTGAAGTTGAGCTTGTGTTGTCTTGG-GTCCAAGATCCTTCGCTGAG
169 A-CCGCGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTC-TGGAGTCCAATATCCTTCGTTGTG
3060496 AAGTTGAAATTGGCTCTGAAATTGGGAAGTTGTTTATTGACAACCAGCGGTCCCTTCGTCGTGAA
232 AAGTTGAAATTGGCTCTGAAATTGGGAAGTTGTTTATTGACAACCAGCGGTCCCTTCGTCGTGAA
* *
3060561 GTTGAACTTGCATTGTCTTG
297 GTTGAACTTGCGTTGTCTGG
* *
3060581 AGTCCAATATCCTTCGTTGTGAAGTTGAAATTGGCTCTGAAATTGGGAAATTGTTTATTGACAAC
1 AGTCCAATATCCTTCGCTGTGAAGTTGAAATTGGCTCTGAAATTGGGAAA-TATTTATTGACAAC
*
3060646 CAGCGGTCCATTCGTCGTGAAGTTGAACTTGCGTTGTATGGAGTCCAATATCTTTCGTTGTGAAG
65 CAGCGGTCCATTCGTCGTGAAGTTGAACTTGCGTTGTATGGAGTCCAATATCCTTCGTTGTGAAG
* *
3060711 TTGAAATTGGCTCTGAAATTGGGAAAATTGTTTATTGACAACCAACGGTCCCTTCGTCGTGAAGT
130 TTGAAATTGGCTCTGAAATTGGG-AAGTTGTTTATTGACAACC-GCGGTCCCTTCGTCGTGAAGT
* * * ** * * *
3060776 TGAACTTGCGTTGTCTGGAGTTCAATTTTCTTCGCCGCGAAGTTGAAATAGACTCTGAA
193 TGAACTTGCGTTGTCTGGAGTCCAATATCCTTCGTTGTGAAGTTGAAATTGGCTCTGAA
3060835 TGAAGTTGGA
Statistics
Matches: 1014, Mismatches: 111, Indels: 151
0.79 0.09 0.12
Matches are distributed among these distances:
303 11 0.01
304 85 0.08
305 58 0.06
306 63 0.06
307 69 0.07
308 66 0.07
309 62 0.06
310 23 0.02
311 67 0.07
312 114 0.11
313 18 0.02
314 6 0.01
315 6 0.01
316 1 0.00
318 4 0.00
319 75 0.07
320 2 0.00
321 2 0.00
323 1 0.00
324 9 0.01
325 1 0.00
327 8 0.01
329 1 0.00
330 2 0.00
331 3 0.00
332 1 0.00
333 19 0.02
334 155 0.15
335 46 0.05
336 26 0.03
337 10 0.01
ACGTcount: A:0.23, C:0.18, G:0.26, T:0.34
Consensus pattern (316 bp):
AGTCCAATATCCTTCGCTGTGAAGTTGAAATTGGCTCTGAAATTGGGAAATATTTATTGACAACC
AGCGGTCCATTCGTCGTGAAGTTGAACTTGCGTTGTATGGAGTCCAATATCCTTCGTTGTGAAGT
TGAAATTGGCTCTGAAATTGGGAAGTTGTTTATTGACAACCGCGGTCCCTTCGTCGTGAAGTTGA
ACTTGCGTTGTCTGGAGTCCAATATCCTTCGTTGTGAAGTTGAAATTGGCTCTGAAATTGGGAAG
TTGTTTATTGACAACCAGCGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCTGG
Found at i:3060347 original size:24 final size:25
Alignment explanation
Indices: 3060315--3060365 Score: 95
Period size: 24 Copynumber: 2.1 Consensus size: 25
3060305 GACACCAGTG
3060315 GTCCCTTCGTCGTGAAG-TGAACTT
1 GTCCCTTCGTCGTGAAGTTGAACTT
3060339 GTCCCTTCGTCGTGAAGTTGAACTT
1 GTCCCTTCGTCGTGAAGTTGAACTT
3060364 GT
1 GT
3060366 GTTGTCTGGA
Statistics
Matches: 26, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
24 17 0.65
25 9 0.35
ACGTcount: A:0.16, C:0.24, G:0.25, T:0.35
Consensus pattern (25 bp):
GTCCCTTCGTCGTGAAGTTGAACTT
Found at i:3060592 original size:440 final size:438
Alignment explanation
Indices: 3059905--3060783 Score: 1301
Period size: 440 Copynumber: 2.0 Consensus size: 438
3059895 ACAACCAGTG
* *
3059905 GTCCCTTCGTCGTGAAGTTGACTTGTGTTGTCTGGAGTCCACTCCTTCGCTGTGAAGTTGAAATT
1 GTCCCTTCGTCGTGAAGTTGACTTGTGTTGTCTGGAGTCAAATCCTTCGCTGTGAAGTTGAAATT
* * **
3059970 GACTCTAGAATTGGAAATTATTTATTGACAACAACGGGTCCTTCGTCGTGAAGTTGAACTTGCGT
66 GACTCTAGAATTGGAAATTATTTATTGAAAACAACCGCCCCTTCGTCGTGAAGTTGAACTTGCGT
* * * *
3060035 TGGGAGTCCAATATCCTTCGTTGTGAAGTTGAATTGGCTGAAATTGAGAAGTTGTTTGTTGACAA
131 TGGGAGTCCAAGATCCTTCGCTGAGAAGTTGAATTGGCTGAAATTGAGAAGTTGTTTATTGACAA
*
3060100 CCAGCGGCCCTTCGTCGTGAAGTTGAACATGCGTTGTCAAGAGTCCAATATCCTTCGATGTGAAG
196 CCAGCGGCCCTTCGTCGTGAAGTTGAACATGCATTGTCAAGAGTCCAATATCCTTCGATGTGAAG
* *
3060165 TTGAAATTGGCTCTGAAATTGGGAAGTTGTTTATTGACAACCAGCGGTCCCTTCGTCGTGAAGTT
261 TTGAAATTGGCTCTGAAATTGGGAAATTGTTTATTGACAACCAGCGGTCCATTCGTCGTGAAGTT
*
3060230 GAACTTGCGTTGTCTGGAGTCCAATATCCTTCG-TGTGAAGTTGAAATTGGCTCTGAAATTGAG-
326 GAACTTGCGTTGTATGGAGTCCAATATCCTTCGTTGTGAAGTTGAAATTGGCTCTGAAATTGAGA
* * **
3060293 AAGTTGTTTGTTGAC-ACCAGTGGTCCCTTCGTCGTGAAG-TGAACTT
391 AAATTGTTTATTGACAACCAACGGTCCCTTCGTCGTGAAGTTGAACTT
* *
3060339 GTCCCTTCGTCGTGAAGTTGAACTTGTGTTGTCTGGAGTCTAATATCCTTCGTTTTGAAGTTGAA
1 GTCCCTTCGTCGTGAAGTTG-ACTTGTGTTGTCTGGAGTC-AA-ATCCTTCGCTGTGAAGTTGAA
* * *
3060404 ATTGACTCT-GAA-T-GAAA-T-TTTATTGAAAATTAGCCGCCCCTTCGTCGTGAAGTTGAGCTT
63 ATTGACTCTAGAATTGGAAATTATTTATTGAAAA-CAACCGCCCCTTCGTCGTGAAGTTGAACTT
* *
3060464 GTGTTGTCTTGG-GTCCAAGATCCTTCGCTGAGAAGTTGAAATTGGCTCTGAAATTGGGAAGTTG
127 GCGTTG----GGAGTCCAAGATCCTTCGCTGAGAAGTTG-AATTGG--CTGAAATTGAGAAGTTG
* **
3060528 TTTATTGACAACCAGCGGTCCCTTCGTCGTGAAGTTGAACTTGCATTGTCTTGAGTCCAATATCC
185 TTTATTGACAACCAGCGG-CCCTTCGTCGTGAAGTTGAACATGCATTGTCAAGAGTCCAATATCC
*
3060593 TTCGTTGTGAAGTTGAAATTGGCTCTGAAATTGGGAAATTGTTTATTGACAACCAGCGGTCCATT
249 TTCGATGTGAAGTTGAAATTGGCTCTGAAATTGGGAAATTGTTTATTGACAACCAGCGGTCCATT
*
3060658 CGTCGTGAAGTTGAACTTGCGTTGTATGGAGTCCAATATCTTTCGTTGTGAAGTTGAAATTGGCT
314 CGTCGTGAAGTTGAACTTGCGTTGTATGGAGTCCAATATCCTTCGTTGTGAAGTTGAAATTGGCT
*
3060723 CTGAAATTGGGAAAATTGTTTATTGACAACCAACGGTCCCTTCGTCGTGAAGTTGAACTT
379 CTGAAATTGAGAAAATTGTTTATTGACAACCAACGGTCCCTTCGTCGTGAAGTTGAACTT
3060783 G
1 G
3060784 CGTTGTCTGG
Statistics
Matches: 398, Mismatches: 31, Indels: 22
0.88 0.07 0.05
Matches are distributed among these distances:
432 10 0.03
433 30 0.08
434 24 0.06
435 20 0.05
436 27 0.07
437 35 0.09
439 33 0.08
440 147 0.37
441 29 0.07
442 13 0.03
443 22 0.06
444 8 0.02
ACGTcount: A:0.23, C:0.18, G:0.25, T:0.34
Consensus pattern (438 bp):
GTCCCTTCGTCGTGAAGTTGACTTGTGTTGTCTGGAGTCAAATCCTTCGCTGTGAAGTTGAAATT
GACTCTAGAATTGGAAATTATTTATTGAAAACAACCGCCCCTTCGTCGTGAAGTTGAACTTGCGT
TGGGAGTCCAAGATCCTTCGCTGAGAAGTTGAATTGGCTGAAATTGAGAAGTTGTTTATTGACAA
CCAGCGGCCCTTCGTCGTGAAGTTGAACATGCATTGTCAAGAGTCCAATATCCTTCGATGTGAAG
TTGAAATTGGCTCTGAAATTGGGAAATTGTTTATTGACAACCAGCGGTCCATTCGTCGTGAAGTT
GAACTTGCGTTGTATGGAGTCCAATATCCTTCGTTGTGAAGTTGAAATTGGCTCTGAAATTGAGA
AAATTGTTTATTGACAACCAACGGTCCCTTCGTCGTGAAGTTGAACTT
Found at i:3060820 original size:213 final size:207
Alignment explanation
Indices: 3060339--3060838 Score: 657
Period size: 213 Copynumber: 2.4 Consensus size: 207
3060329 AAGTGAACTT
* *
3060339 GTCCCTTCGTCGTGAAGTTGAACTTGTGTTGTCTGGAG-TCTAATATCCTTCGTTTTGAAGTTGA
1 GTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCTGGAGTTC-AATATCCTTCGTTGTGAAGTTGA
** * * *
3060403 AATTGACTCTG-AATGAAATTTTATTGAAAATTAGCCGCCCCTTCGTCGTGAAGTTGAGCTTGTG
65 AATTGACTCTGAAATGAAATTTTATTGAAAACCAGCCGCCCATTCGTCGTGAAGTTGAACTTGCG
* *
3060467 TTGTCTTGGGTCCAAGATCCTTCGCTGAGAAGTTGAAATTGGCTCTGAAATTGGGAAGTTGTTTA
130 TTGTCATGGGTCCAAGATCCTTCGCTGAGAAGTTGAAATTGGCTCTGAAATTGGGAAATTGTTTA
*
3060532 TTGACAACCAGCG
195 TTGACAACCAACG
* * *
3060545 GTCCCTTCGTCGTGAAGTTGAACTTGCATTGTCTTGAGTCCAATATCCTTCGTTGTGAAGTTGAA
1 GTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCTGGAGTTCAATATCCTTCGTTGTGAAGTTGAA
* * * *
3060610 ATTGGCTCTGAAATTGGGAAATTGTTTATTGACAACCAGCGGTCCATTCGTCGTGAAGTTGAACT
66 ATTGACTCTGAAA-T--GAAA-T-TTTATTGAAAACCAGCCGCCCATTCGTCGTGAAGTTGAACT
* * * *
3060675 TGCGTTGT-ATGGAGTCCAATATCTTTCGTTGTGAAGTTGAAATTGGCTCTGAAATTGGGAAAAT
126 TGCGTTGTCATGG-GTCCAAGATCCTTCGCTGAGAAGTTGAAATTGGCTCTGAAATTGGG-AAAT
3060739 TGTTTATTGACAACCAACG
189 TGTTTATTGACAACCAACG
* * ** *
3060758 GTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCTGGAGTTCAATTTTCTTCGCCGCGAAGTTGAA
1 GTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCTGGAGTTCAATATCCTTCGTTGTGAAGTTGAA
*
3060823 ATAGACTCTG-AATGAA
66 ATTGACTCTGAAATGAA
3060839 GTTGGAAAGT
Statistics
Matches: 254, Mismatches: 31, Indels: 15
0.85 0.10 0.05
Matches are distributed among these distances:
206 67 0.26
207 3 0.01
208 1 0.00
209 3 0.01
210 4 0.02
211 5 0.02
212 85 0.33
213 86 0.34
ACGTcount: A:0.24, C:0.17, G:0.24, T:0.35
Consensus pattern (207 bp):
GTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCTGGAGTTCAATATCCTTCGTTGTGAAGTTGAA
ATTGACTCTGAAATGAAATTTTATTGAAAACCAGCCGCCCATTCGTCGTGAAGTTGAACTTGCGT
TGTCATGGGTCCAAGATCCTTCGCTGAGAAGTTGAAATTGGCTCTGAAATTGGGAAATTGTTTAT
TGACAACCAACG
Found at i:3078803 original size:14 final size:15
Alignment explanation
Indices: 3078784--3078821 Score: 62
Period size: 14 Copynumber: 2.7 Consensus size: 15
3078774 ATAATGTAAA
3078784 AAATATTTTAT-TTT
1 AAATATTTTATATTT
3078798 AAATATTTTATATTT
1 AAATATTTTATATTT
3078813 AAA-ATTTTA
1 AAATATTTTA
3078822 ATTAATTTAT
Statistics
Matches: 23, Mismatches: 0, Indels: 2
0.92 0.00 0.08
Matches are distributed among these distances:
14 17 0.74
15 6 0.26
ACGTcount: A:0.42, C:0.00, G:0.00, T:0.58
Consensus pattern (15 bp):
AAATATTTTATATTT
Found at i:3078821 original size:23 final size:23
Alignment explanation
Indices: 3078793--3078866 Score: 76
Period size: 23 Copynumber: 3.2 Consensus size: 23
3078783 AAAATATTTT
*
3078793 ATTTTAAATATTTTATATTTAAA
1 ATTTTAATTATTTTATATTTAAA
* * *
3078816 ATTTTAATTAATTTATAATTATA
1 ATTTTAATTATTTTATATTTAAA
** * *
3078839 CGTTTAATTATTTAAAATTTAAA
1 ATTTTAATTATTTTATATTTAAA
3078862 ATTTT
1 ATTTT
3078867 TATGAATTAA
Statistics
Matches: 38, Mismatches: 13, Indels: 0
0.75 0.25 0.00
Matches are distributed among these distances:
23 38 1.00
ACGTcount: A:0.42, C:0.01, G:0.01, T:0.55
Consensus pattern (23 bp):
ATTTTAATTATTTTATATTTAAA
Found at i:3086575 original size:2 final size:2
Alignment explanation
Indices: 3086563--3086598 Score: 63
Period size: 2 Copynumber: 18.0 Consensus size: 2
3086553 TAAAACAATA
*
3086563 AT AT TT 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
3086599 GTTTATGTTA
Statistics
Matches: 32, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
2 32 1.00
ACGTcount: A:0.47, C:0.00, G:0.00, T:0.53
Consensus pattern (2 bp):
AT
Found at i:3087187 original size:33 final size:33
Alignment explanation
Indices: 3087150--3087217 Score: 102
Period size: 33 Copynumber: 2.1 Consensus size: 33
3087140 AGATTTTGTG
3087150 TTTCAAGAGAAACTGTCTCAATG-GAGACAAAAT
1 TTTCAAGAGAAACTGTCTCAA-GAGAGACAAAAT
* *
3087183 TTTCAAGAGAAATTGTCTCGAGAGAGACAAAAT
1 TTTCAAGAGAAACTGTCTCAAGAGAGACAAAAT
3087216 TT
1 TT
3087218 GTTTAAAGGA
Statistics
Matches: 32, Mismatches: 2, Indels: 2
0.89 0.06 0.06
Matches are distributed among these distances:
32 1 0.03
33 31 0.97
ACGTcount: A:0.41, C:0.13, G:0.19, T:0.26
Consensus pattern (33 bp):
TTTCAAGAGAAACTGTCTCAAGAGAGACAAAAT
Found at i:3087296 original size:36 final size:36
Alignment explanation
Indices: 3087244--3087427 Score: 161
Period size: 36 Copynumber: 5.3 Consensus size: 36
3087234 ATTAAAAGAT
* *
3087244 TTTGTTTCAAGAGAAACTGTCTCAAGAGAAACAAAA
1 TTTGTTTCAAGGGAAACTGTCTCAAGAGAGACAAAA
* * *
3087280 TTTGTTTTAAGGGAAACCGTTTCAAGAGAGACAAAA
1 TTTGTTTCAAGGGAAACTGTCTCAAGAGAGACAAAA
** * * * *
3087316 TTCATTTCAAGTGAAA-TGTTTTC-A-A-TG-----T
1 TTTGTTTCAAGGGAAACTG-TCTCAAGAGAGACAAAA
3087344 TTATGTTTCAAGGGAAACTGTCTCAAGAGAGACAAAA
1 TT-TGTTTCAAGGGAAACTGTCTCAAGAGAGACAAAA
*
3087381 ATTGTTTCAAGGGAAACTGTCTCAAGAGAGACAAAA
1 TTTGTTTCAAGGGAAACTGTCTCAAGAGAGACAAAA
**
3087417 ACTGTTTCAAG
1 TTTGTTTCAAG
3087428 TTGGGTCAAT
Statistics
Matches: 117, Mismatches: 20, Indels: 22
0.74 0.13 0.14
Matches are distributed among these distances:
28 2 0.02
29 14 0.12
30 3 0.03
31 1 0.01
32 1 0.01
33 1 0.01
34 1 0.01
35 2 0.02
36 91 0.78
37 1 0.01
ACGTcount: A:0.39, C:0.13, G:0.20, T:0.29
Consensus pattern (36 bp):
TTTGTTTCAAGGGAAACTGTCTCAAGAGAGACAAAA
Found at i:3087420 original size:21 final size:21
Alignment explanation
Indices: 3087358--3087427 Score: 71
Period size: 21 Copynumber: 3.6 Consensus size: 21
3087348 GTTTCAAGGG
3087358 AAACTGTCTCAAGAGAGACAA
1 AAACTGTCTCAAGAGAGACAA
* *
3087379 AAATTGTTTCAAG-G-G----
1 AAACTGTCTCAAGAGAGACAA
3087394 AAACTGTCTCAAGAGAGACAA
1 AAACTGTCTCAAGAGAGACAA
*
3087415 AAACTGTTTCAAG
1 AAACTGTCTCAAG
3087428 TTGGGTCAAT
Statistics
Matches: 38, Mismatches: 5, Indels: 12
0.69 0.09 0.22
Matches are distributed among these distances:
15 11 0.29
16 1 0.03
17 1 0.03
19 1 0.03
20 1 0.03
21 23 0.61
ACGTcount: A:0.43, C:0.16, G:0.20, T:0.21
Consensus pattern (21 bp):
AAACTGTCTCAAGAGAGACAA
Found at i:3087425 original size:101 final size:102
Alignment explanation
Indices: 3087127--3087428 Score: 314
Period size: 101 Copynumber: 3.0 Consensus size: 102
3087117 TTTCATGAGA
* *
3087127 AAAATAAATTCAAAGATTTTGTGTTTCAAGAGAAACTGTCTCAATG-GAGAC-AAAA-T-TTTCA
1 AAAACAAATTAAAAGA-TTT-TGTTTCAAGAGAAACTGTCTCAA-GAGAGACAAAAATTGTTTCA
* * * * *
3087188 AGAGAAATTGTCTCGAGAGAGACAAAATTTGTTTAAAG-G
63 AGGGAAACTGTCTCAAGAGAGACAAAAATTGTTTCAAGTG
* * *
3087227 AAAACAAATTAAAAGATTTTGTTTCAAGAGAAACTGTCTCAAGAGAAACAAAATTTGTTTTAAGG
1 AAAACAAATTAAAAGATTTTGTTTCAAGAGAAACTGTCTCAAGAGAGACAAAAATTGTTTCAAGG
* * *
3087292 GAAACCGTTTCAAGAGAGAC-AAAATTCATTTCAAGTG
66 GAAACTGTCTCAAGAGAGACAAAAATT-GTTTCAAGTG
**** * * *
3087329 -AAATGTTTTCAATG-TTTATGTTTCAAGGGAAACTGTCTCAAGAGAGACAAAAATTGTTTCAAG
1 AAAACAAATTAAAAGATTT-TGTTTCAAGAGAAACTGTCTCAAGAGAGACAAAAATTGTTTCAAG
*
3087392 GGAAACTGTCTCAAGAGAGACAAAAACTGTTTCAAGT
65 GGAAACTGTCTCAAGAGAGACAAAAATTGTTTCAAGT
3087429 TGGGTCAATT
Statistics
Matches: 167, Mismatches: 27, Indels: 15
0.80 0.13 0.07
Matches are distributed among these distances:
97 1 0.01
98 27 0.16
99 6 0.04
100 23 0.14
101 104 0.62
102 6 0.04
ACGTcount: A:0.41, C:0.12, G:0.19, T:0.28
Consensus pattern (102 bp):
AAAACAAATTAAAAGATTTTGTTTCAAGAGAAACTGTCTCAAGAGAGACAAAAATTGTTTCAAGG
GAAACTGTCTCAAGAGAGACAAAAATTGTTTCAAGTG
Found at i:3088174 original size:217 final size:217
Alignment explanation
Indices: 3087799--3088380 Score: 873
Period size: 217 Copynumber: 2.7 Consensus size: 217
3087789 GTATTGCTCC
* * * * *
3087799 GAGTCCAATATACTCCG-TCGTGAAGTTGAAATTGGTTCTGGAACTGAGAAA-TTGCTTGTTGAC
1 GAGTCCAATATTCTTCGCT-GTGAAGTTGAAATTGGCTCTGAAACTG-GAAAGTTGTTTGTTGAC
* * *
3087862 AGTCAACCGCCCCTTCGCTGTGAAGTTGAGCTTGTGCTGTCTTGAGTCTAATATCCTTCGCTGTG
64 AATCAGCCGCCCCTTCGCTGTGAAGTTGAGCTTGTGTTGTCTTGAGTCTAATATCCTTCGCTGTG
3087927 AAGTTGAAATTGACTCTGAATGAAACTGAAGAAGTTGTTTATTGACAGTCAGCCGCCCCTCCGCT
129 AAGTTGAAATTGACTCTGAATGAAACTGAAGAAGTTGTTTATTGACAGTCAGCCGCCCCTCCGCT
*
3087992 GTGAAGTTGAGCTTGTGTTATCTT
194 GTGAAGTTGAGCTTGTGCTATCTT
*
3088016 GAGTCCAATA-TCATTCGCTGTGAAGTTGAAATTGGCTCTGAAACTGGAAAGTTGTTTGTTGATA
1 GAGTCCAATATTC-TTCGCTGTGAAGTTGAAATTGGCTCTGAAACTGGAAAGTTGTTTGTTGACA
* *
3088080 ATCAGCCGCCACTTCGCTGTGAAGTTGAGCTTGTGTTGTCTCGAGTCTAATATCCTTCGCTGTGA
65 ATCAGCCGCCCCTTCGCTGTGAAGTTGAGCTTGTGTTGTCTTGAGTCTAATATCCTTCGCTGTGA
* *
3088145 AGTTGAAATTGACTCTGAATGAAACTGAAGAAGTTGTTTGTTGTCAGTCAGCCGCCCCTCCGCTG
130 AGTTGAAATTGACTCTGAATGAAACTGAAGAAGTTGTTTATTGACAGTCAGCCGCCCCTCCGCTG
*
3088210 TGAAGTTGAGCTTGTGCTGTCTT
195 TGAAGTTGAGCTTGTGCTATCTT
* * *
3088233 GAGTCCAATATTCTTCGTTGTGAAGTTGAAATTGGCTCTTAAACTGGGAAGTTGTTTGTTGACAA
1 GAGTCCAATATTCTTCGCTGTGAAGTTGAAATTGGCTCTGAAACTGGAAAGTTGTTTGTTGACAA
* * * * * * * *
3088298 CCAGTCGCCCCTTCGTTGTGAAGCTGAGCTTGTGTTGTATTGAGTCCAGTATCCTTCACTGTGAA
66 TCAGCCGCCCCTTCGCTGTGAAGTTGAGCTTGTGTTGTCTTGAGTCTAATATCCTTCGCTGTGAA
*
3088363 GTTGAAATTGGCTCTGAA
131 GTTGAAATTGACTCTGAA
3088381 ACTGGGAAGC
Statistics
Matches: 331, Mismatches: 30, Indels: 8
0.90 0.08 0.02
Matches are distributed among these distances:
216 5 0.02
217 323 0.98
218 3 0.01
ACGTcount: A:0.23, C:0.19, G:0.25, T:0.34
Consensus pattern (217 bp):
GAGTCCAATATTCTTCGCTGTGAAGTTGAAATTGGCTCTGAAACTGGAAAGTTGTTTGTTGACAA
TCAGCCGCCCCTTCGCTGTGAAGTTGAGCTTGTGTTGTCTTGAGTCTAATATCCTTCGCTGTGAA
GTTGAAATTGACTCTGAATGAAACTGAAGAAGTTGTTTATTGACAGTCAGCCGCCCCTCCGCTGT
GAAGTTGAGCTTGTGCTATCTT
Found at i:3088386 original size:106 final size:106
Alignment explanation
Indices: 3087799--3088389 Score: 736
Period size: 106 Copynumber: 5.5 Consensus size: 106
3087789 GTATTGCTCC
* * * * * *
3087799 GAGTCCAATATACTCCG-TCGTGAAGTTGAAATTGGTTCTGGAACTGAGAAATTGCTTGTTGACA
1 GAGTCCAATATCCTTCGCT-GTGAAGTTGAAATTGGCTCTGAAACTGAGAAGTTGTTTGTTGACA
* *
3087863 GTCAACCGCCCCTTCGCTGTGAAGTTGAGCTTGTGCTGTCTT
65 GTCAGCCGCCCCTTCGCTGTGAAGTTGAGCTTGTGTTGTCTT
* * *
3087905 GAGTCTAATATCCTTCGCTGTGAAGTTGAAATTGACTCTGAATGAAACTGAAGAAGTTGTTTATT
1 GAGTCCAATATCCTTCGCTGTGAAGTTGAAATTGGCTC----TGAAACTG-AGAAGTTGTTTGTT
* *
3087970 GACAGTCAGCCGCCCCTCCGCTGTGAAGTTGAGCTTGTGTTATCTT
61 GACAGTCAGCCGCCCCTTCGCTGTGAAGTTGAGCTTGTGTTGTCTT
* *
3088016 GAGTCCAATATCATTCGCTGTGAAGTTGAAATTGGCTCTGAAACTG-GAAAGTTGTTTGTTGATA
1 GAGTCCAATATCCTTCGCTGTGAAGTTGAAATTGGCTCTGAAACTGAG-AAGTTGTTTGTTGACA
* * *
3088080 ATCAGCCGCCACTTCGCTGTGAAGTTGAGCTTGTGTTGTCTC
65 GTCAGCCGCCCCTTCGCTGTGAAGTTGAGCTTGTGTTGTCTT
* *
3088122 GAGTCTAATATCCTTCGCTGTGAAGTTGAAATTGACTCTGAATGAAACTGAAGAAGTTGTTTGTT
1 GAGTCCAATATCCTTCGCTGTGAAGTTGAAATTGGCTC----TGAAACTG-AGAAGTTGTTTGTT
* * *
3088187 GTCAGTCAGCCGCCCCTCCGCTGTGAAGTTGAGCTTGTGCTGTCTT
61 GACAGTCAGCCGCCCCTTCGCTGTGAAGTTGAGCTTGTGTTGTCTT
* * * * *
3088233 GAGTCCAATATTCTTCGTTGTGAAGTTGAAATTGGCTCTTAAACTGGGAAGTTGTTTGTTGACAA
1 GAGTCCAATATCCTTCGCTGTGAAGTTGAAATTGGCTCTGAAACTGAGAAGTTGTTTGTTGACAG
* * * * *
3088298 CCAGTCGCCCCTTCGTTGTGAAGCTGAGCTTGTGTTGTATT
66 TCAGCCGCCCCTTCGCTGTGAAGTTGAGCTTGTGTTGTCTT
* * *
3088339 GAGTCCAGTATCCTTCACTGTGAAGTTGAAATTGGCTCTGAAACTGGGAAG
1 GAGTCCAATATCCTTCGCTGTGAAGTTGAAATTGGCTCTGAAACTGAGAAG
3088390 CCCCTTCGTC
Statistics
Matches: 419, Mismatches: 53, Indels: 26
0.84 0.11 0.05
Matches are distributed among these distances:
105 1 0.00
106 213 0.51
107 16 0.04
110 15 0.04
111 173 0.41
112 1 0.00
ACGTcount: A:0.23, C:0.19, G:0.25, T:0.33
Consensus pattern (106 bp):
GAGTCCAATATCCTTCGCTGTGAAGTTGAAATTGGCTCTGAAACTGAGAAGTTGTTTGTTGACAG
TCAGCCGCCCCTTCGCTGTGAAGTTGAGCTTGTGTTGTCTT
Found at i:3089878 original size:96 final size:95
Alignment explanation
Indices: 3089703--3089882 Score: 279
Period size: 95 Copynumber: 1.9 Consensus size: 95
3089693 ATATGTAAAT
* * *
3089703 ACCTTTATCAGGTTAGCTGAATCTTATCCATAAAGCCAGGGCGTTTAACCAATTGCTTTAGAGGG
1 ACCTTTATCAGGCTAGCTGAATATTATCCATAAAGCCAGGGCGTTTAACCAATTGCTCTAGAGGG
*
3089768 ACAGCTCAAACTTTATTGTGTAGTATATTC
66 ACAACTCAAACTTTATTGTGTAGTATATTC
* * *
3089798 ACCTTTATCAGGCTAGCTGAATATTATCTATAAAGCCGGGGCATTTTAACCAATTGCTCTAGAGG
1 ACCTTTATCAGGCTAGCTGAATATTATCCATAAAGCCAGGGC-GTTTAACCAATTGCTCTAGAGG
*
3089863 GACAACTCAAGCTTTATTGT
65 GACAACTCAAACTTTATTGT
3089883 ATATAAATAA
Statistics
Matches: 76, Mismatches: 8, Indels: 1
0.89 0.09 0.01
Matches are distributed among these distances:
95 38 0.50
96 38 0.50
ACGTcount: A:0.29, C:0.19, G:0.19, T:0.33
Consensus pattern (95 bp):
ACCTTTATCAGGCTAGCTGAATATTATCCATAAAGCCAGGGCGTTTAACCAATTGCTCTAGAGGG
ACAACTCAAACTTTATTGTGTAGTATATTC
Found at i:3094432 original size:45 final size:43
Alignment explanation
Indices: 3094368--3094451 Score: 132
Period size: 45 Copynumber: 1.9 Consensus size: 43
3094358 TCTCCGGGGC
*
3094368 TCTTCACTTTCCAAACTGTAGCTTCGAAAAAAATAGTGACCGTCG
1 TCTTCACTTTCCAAACTGTACCTTC--AAAAAATAGTGACCGTCG
*
3094413 TCTTCACTTTCCAAACTGTACCTTCAAAAAATGGTGACC
1 TCTTCACTTTCCAAACTGTACCTTCAAAAAATAGTGACC
3094452 AACGGGCTTC
Statistics
Matches: 37, Mismatches: 2, Indels: 2
0.90 0.05 0.05
Matches are distributed among these distances:
43 13 0.35
45 24 0.65
ACGTcount: A:0.31, C:0.26, G:0.13, T:0.30
Consensus pattern (43 bp):
TCTTCACTTTCCAAACTGTACCTTCAAAAAATAGTGACCGTCG
Found at i:3095941 original size:33 final size:33
Alignment explanation
Indices: 3095899--3095965 Score: 107
Period size: 33 Copynumber: 2.0 Consensus size: 33
3095889 AGTTTACAAT
* *
3095899 AATTGAAATACTTAAATACTTCCAAGTTCGATA
1 AATTCAAATACTTAAAAACTTCCAAGTTCGATA
*
3095932 AATTCAAATACTTAAAAACTTCCAAGTTTGATA
1 AATTCAAATACTTAAAAACTTCCAAGTTCGATA
3095965 A
1 A
3095966 TTGAAACAAA
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:0.45, C:0.15, G:0.07, T:0.33
Consensus pattern (33 bp):
AATTCAAATACTTAAAAACTTCCAAGTTCGATA
Found at i:3095987 original size:21 final size:21
Alignment explanation
Indices: 3095961--3096001 Score: 82
Period size: 21 Copynumber: 2.0 Consensus size: 21
3095951 TTCCAAGTTT
3095961 GATAATTGAAACAAAGTTTAC
1 GATAATTGAAACAAAGTTTAC
3095982 GATAATTGAAACAAAGTTTA
1 GATAATTGAAACAAAGTTTA
3096002 AAATTAAACT
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
21 20 1.00
ACGTcount: A:0.49, C:0.07, G:0.15, T:0.29
Consensus pattern (21 bp):
GATAATTGAAACAAAGTTTAC
Found at i:3098962 original size:38 final size:37
Alignment explanation
Indices: 3098919--3099028 Score: 170
Period size: 35 Copynumber: 3.0 Consensus size: 37
3098909 ATATTTCAAC
* *
3098919 AAACATCTACCAAACTTTGAAAAACCATTTTTTCAAAT
1 AAACATTTACCAAACTTTG-AAAACCATTTTTTCAAAG
3098957 AAACATTTACCAAACTTTGAAAACCA--TTTTCAAAG
1 AAACATTTACCAAACTTTGAAAACCATTTTTTCAAAG
*
3098992 AAACATTTACCAAACTTTGAAAGCCATTTTTTCAAAG
1 AAACATTTACCAAACTTTGAAAACCATTTTTTCAAAG
3099029 TTGGTTGCCA
Statistics
Matches: 67, Mismatches: 3, Indels: 5
0.89 0.04 0.07
Matches are distributed among these distances:
35 33 0.49
37 16 0.24
38 18 0.27
ACGTcount: A:0.44, C:0.20, G:0.05, T:0.31
Consensus pattern (37 bp):
AAACATTTACCAAACTTTGAAAACCATTTTTTCAAAG
Found at i:3098984 original size:21 final size:21
Alignment explanation
Indices: 3098960--3099020 Score: 55
Period size: 21 Copynumber: 3.2 Consensus size: 21
3098950 TTCAAATAAA
3098960 CATTTACCAAACTTTGAAAAC
1 CATTTACCAAACTTTGAAAAC
*
3098981 CATTT-TCAAA----G-AAA-
1 CATTTACCAAACTTTGAAAAC
*
3098995 CATTTACCAAACTTTGAAAGC
1 CATTTACCAAACTTTGAAAAC
3099016 CATTT
1 CATTT
3099021 TTTCAAAGTT
Statistics
Matches: 30, Mismatches: 3, Indels: 14
0.64 0.06 0.30
Matches are distributed among these distances:
14 5 0.17
15 7 0.23
16 1 0.03
19 1 0.03
20 6 0.20
21 10 0.33
ACGTcount: A:0.41, C:0.21, G:0.07, T:0.31
Consensus pattern (21 bp):
CATTTACCAAACTTTGAAAAC
Found at i:3102343 original size:15 final size:15
Alignment explanation
Indices: 3102323--3102354 Score: 55
Period size: 15 Copynumber: 2.1 Consensus size: 15
3102313 AAAATCTTTC
*
3102323 TTTCCCGTTCTTGAT
1 TTTCCCGTTCTGGAT
3102338 TTTCCCGTTCTGGAT
1 TTTCCCGTTCTGGAT
3102353 TT
1 TT
3102355 CGATCTGCCT
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
15 16 1.00
ACGTcount: A:0.06, C:0.25, G:0.16, T:0.53
Consensus pattern (15 bp):
TTTCCCGTTCTGGAT
Found at i:3103637 original size:33 final size:36
Alignment explanation
Indices: 3103553--3103659 Score: 166
Period size: 33 Copynumber: 3.0 Consensus size: 36
3103543 ATATTTCAAC
*
3103553 AAACATCTACCAAACTTTGAAAAAACCATTTTTCAAAG
1 AAACATTTACCAAACTTTG--AAAACCATTTTTCAAAG
3103591 AAACATTTACCAAACTTTGAAAACCA-TTTTCAAAG
1 AAACATTTACCAAACTTTGAAAACCATTTTTCAAAG
3103626 -AA-ATTTACCAAACTTTGAAAACCATTTTTCAAAG
1 AAACATTTACCAAACTTTGAAAACCATTTTTCAAAG
3103660 TCGGTTGCCA
Statistics
Matches: 67, Mismatches: 1, Indels: 6
0.91 0.01 0.08
Matches are distributed among these distances:
33 22 0.33
34 11 0.16
35 9 0.13
36 7 0.10
38 18 0.27
ACGTcount: A:0.46, C:0.20, G:0.06, T:0.29
Consensus pattern (36 bp):
AAACATTTACCAAACTTTGAAAACCATTTTTCAAAG
Found at i:3103671 original size:34 final size:34
Alignment explanation
Indices: 3103546--3103678 Score: 151
Period size: 33 Copynumber: 3.8 Consensus size: 34
3103536 CATTACAATA
* *
3103546 TTTCAACAAACATCTACCAAACTTTGAAAAAACCATT
1 TTTCAA-AGACATTTACCAAACTTTG--AAAACCATT
3103583 TTTCAAAGAAACATTTACCAAACTTTGAAAACCA-T
1 TTTCAAAG--ACATTTACCAAACTTTGAAAACCATT
*
3103618 TTTCAAAGAAATTTACCAAACTTTGAAAACCATT
1 TTTCAAAGACATTTACCAAACTTTGAAAACCATT
* ** *
3103652 TTTCAAAGTCGGTTGCCAAACTTTGAA
1 TTTCAAAGACATTTACCAAACTTTGAA
3103679 CTTTTAATTT
Statistics
Matches: 85, Mismatches: 8, Indels: 9
0.83 0.08 0.09
Matches are distributed among these distances:
33 23 0.27
34 23 0.27
35 9 0.11
36 8 0.09
37 6 0.07
38 16 0.19
ACGTcount: A:0.42, C:0.20, G:0.08, T:0.30
Consensus pattern (34 bp):
TTTCAAAGACATTTACCAAACTTTGAAAACCATT
Found at i:3106442 original size:20 final size:22
Alignment explanation
Indices: 3106419--3106463 Score: 58
Period size: 22 Copynumber: 2.1 Consensus size: 22
3106409 GTGCATAACC
*
3106419 TATGATTA-TAAAATA-TAAAA
1 TATGATGATTAAAATACTAAAA
*
3106439 TATGATGATTAAACTACTAAAA
1 TATGATGATTAAAATACTAAAA
3106461 TAT
1 TAT
3106464 TAATTATATA
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
20 7 0.33
21 6 0.29
22 8 0.38
ACGTcount: A:0.53, C:0.04, G:0.07, T:0.36
Consensus pattern (22 bp):
TATGATGATTAAAATACTAAAA
Found at i:3107681 original size:41 final size:41
Alignment explanation
Indices: 3107559--3107914 Score: 367
Period size: 41 Copynumber: 8.6 Consensus size: 41
3107549 TCATCGATAA
* * * *
3107559 TGGCGTTTTT-TCAACAAGCGCCGCAAAAGAGTAGTACTTTAG
1 TGGCGTTTTTAT--ACAAACGCCGCTAAAGACTCGTACTTTAG
*
3107601 TGGCGTTTTTATAC-AACGCCGCTAAAGACTCGTAATTTAG
1 TGGCGTTTTTATACAAACGCCGCTAAAGACTCGTACTTTAG
* * * *
3107641 TGGCATTTTTATACAAACGCCGCTATAGAATTGTACTTTAG
1 TGGCGTTTTTATACAAACGCCGCTAAAGACTCGTACTTTAG
* * * *
3107682 TGGCGTTTTTATACAAACGCCGTTATACACAT-GTACTATAG
1 TGGCGTTTTTATACAAACGCCGCTAAAGAC-TCGTACTTTAG
* * *
3107723 TGGCGTTTGTGTTTACAAACGCCGCTAAAGACTCATAATTTAG
1 TGGCGTTT-T-TATACAAACGCCGCTAAAGACTCGTACTTTAG
* * * *
3107766 TGGCATTTTTATACAAACACAGCTAAAGACTCGTACTTTAT
1 TGGCGTTTTTATACAAACGCCGCTAAAGACTCGTACTTTAG
* *
3107807 TGACATTTTTTATACAAACGCCGCTAAAGACTCGTACTTTAG
1 TGGC-GTTTTTATACAAACGCCGCTAAAGACTCGTACTTTAG
* * * * *
3107849 TGGCGTTTTTATTCAAACGCCGCTATACACTTGTACTATAG
1 TGGCGTTTTTATACAAACGCCGCTAAAGACTCGTACTTTAG
*
3107890 TGGCGTTTGTGTTTACAAACGCCGC
1 TGGCGTTT-T-TATACAAACGCCGC
3107915 AAGTTTACAA
Statistics
Matches: 262, Mismatches: 43, Indels: 17
0.81 0.13 0.05
Matches are distributed among these distances:
40 34 0.13
41 134 0.51
42 51 0.19
43 43 0.16
ACGTcount: A:0.28, C:0.20, G:0.19, T:0.33
Consensus pattern (41 bp):
TGGCGTTTTTATACAAACGCCGCTAAAGACTCGTACTTTAG
Found at i:3107775 original size:125 final size:124
Alignment explanation
Indices: 3107592--3107873 Score: 374
Period size: 125 Copynumber: 2.3 Consensus size: 124
3107582 CAAAAGAGTA
* *
3107592 GTACTTTAGTGGCGTTTTTATAC-AACGCCGCTAAAGACTCGTAATTTAGTGGCATTTTTATACA
1 GTACTTTAGTGGCGTTTTTTTACAAACGCCGCTAAAGACTCATAATTTAGTGGCATTTTTATACA
* * * * * * *
3107656 AACGCCGCTATAGAATTGTACTTTAGTGGC-GTTTTTATACAAACGCCGTTATACACAT-
66 AACACAGCTAAAGAATCGTACTTTAGTGACAGTTTTTATACAAACGCCGCTAAACAC-TC
*
3107714 GTACTATAGTGGCGTTTGTGTTTACAAACGCCGCTAAAGACTCATAATTTAGTGGCATTTTTATA
1 GTACTTTAGTGGCGTTT-T-TTTACAAACGCCGCTAAAGACTCATAATTTAGTGGCATTTTTATA
* * * *
3107779 CAAACACAGCTAAAGACTCGTACTTTATTGACATTTTTTATACAAACGCCGCTAAAGACTC
64 CAAACACAGCTAAAGAATCGTACTTTAGTGACAGTTTTTATACAAACGCCGCTAAACACTC
3107840 GTACTTTAGTGGCGTTTTTATT-CAAACGCCGCTA
1 GTACTTTAGTGGCGTTTTT-TTACAAACGCCGCTA
3107874 TACACTTGTA
Statistics
Matches: 139, Mismatches: 15, Indels: 10
0.85 0.09 0.06
Matches are distributed among these distances:
122 16 0.12
123 1 0.01
124 17 0.12
125 67 0.48
126 38 0.27
ACGTcount: A:0.29, C:0.20, G:0.17, T:0.34
Consensus pattern (124 bp):
GTACTTTAGTGGCGTTTTTTTACAAACGCCGCTAAAGACTCATAATTTAGTGGCATTTTTATACA
AACACAGCTAAAGAATCGTACTTTAGTGACAGTTTTTATACAAACGCCGCTAAACACTC
Found at i:3107846 original size:167 final size:165
Alignment explanation
Indices: 3107596--3107914 Score: 512
Period size: 167 Copynumber: 1.9 Consensus size: 165
3107586 AGAGTAGTAC
* * * *
3107596 TTTAGTGGCGTTTTTATACAACGCCGCTAAAGACTCGTAATTTAGTGGCATTTTTATACAAACGC
1 TTTAGTGGCATTTTTATACAACACAGCTAAAGACTCGTAATTTAGTGACATTTTTATACAAACGC
* * *
3107661 CGCTATAGAATTGTACTTTAGTGGCGTTTTTATACAAACGCCGTTATACACATGTACTATAGTGG
66 CGCTAAAGAATCGTACTTTAGTGGCGTTTTTATACAAACGCCGCTATACACATGTACTATAGTGG
3107726 CGTTTGTGTTTACAAACGCCGCTAAAGACTCATAA
131 CGTTTGTGTTTACAAACGCCGCTAAAGACTCATAA
* *
3107761 TTTAGTGGCATTTTTATACAAACACAGCTAAAGACTCGTACTTTATTGACATTTTTTATACAAAC
1 TTTAGTGGCATTTTTATAC-AACACAGCTAAAGACTCGTAATTTAGTGACA-TTTTTATACAAAC
* * *
3107826 GCCGCTAAAGACTCGTACTTTAGTGGCGTTTTTATTCAAACGCCGCTATACACTTGTACTATAGT
64 GCCGCTAAAGAATCGTACTTTAGTGGCGTTTTTATACAAACGCCGCTATACACATGTACTATAGT
3107891 GGCGTTTGTGTTTACAAACGCCGC
129 GGCGTTTGTGTTTACAAACGCCGC
3107915 AAGTTTACAA
Statistics
Matches: 140, Mismatches: 12, Indels: 2
0.91 0.08 0.01
Matches are distributed among these distances:
165 18 0.13
166 26 0.19
167 96 0.69
ACGTcount: A:0.28, C:0.20, G:0.18, T:0.34
Consensus pattern (165 bp):
TTTAGTGGCATTTTTATACAACACAGCTAAAGACTCGTAATTTAGTGACATTTTTATACAAACGC
CGCTAAAGAATCGTACTTTAGTGGCGTTTTTATACAAACGCCGCTATACACATGTACTATAGTGG
CGTTTGTGTTTACAAACGCCGCTAAAGACTCATAA
Found at i:3111465 original size:43 final size:43
Alignment explanation
Indices: 3111403--3111688 Score: 253
Period size: 43 Copynumber: 6.7 Consensus size: 43
3111393 AAGGTAATTA
* * *
3111403 GCGGCGTTTGTATCCAAAAACGCCGCTATATGTCTGACTTTTT
1 GCGGCGTTTGTGTTCAAAAACGCCGCTATAGGTCTGACTTTTT
* * *
3111446 ACGGCGTTTGTGTTCAAAAACGCCGTTATAGGTCTGACATTTT
1 GCGGCGTTTGTGTTCAAAAACGCCGCTATAGGTCTGACTTTTT
* * *
3111489 GCGGCGTTTGTGTCCAAAAACGCCACTATAGGTCTGACCTTTT
1 GCGGCGTTTGTGTTCAAAAACGCCGCTATAGGTCTGACTTTTT
* * *
3111532 ACGGCG-TT-TGTTCTAAAAATGCCAG-TATAGGTCTTA-TCTTTT
1 GCGGCGTTTGTGTTC-AAAAACGCC-GCTATAGGTCTGACT-TTTT
* * * *
3111574 GCGGCATTTGT-ATCAAAAAACGCCGCTATAGATCTGACCTTTT
1 GCGGCGTTTGTGTTC-AAAAACGCCGCTATAGGTCTGACTTTTT
* ** *
3111617 GCGGCGTTT-T-TTCTAGAAACGCCGCTATATATCATAACTTTTT
1 GCGGCGTTTGTGTTC-AAAAACGCCGCTATAGGTC-TGACTTTTT
* **
3111660 GCGGCGTTTTTTGTTCTCAAACGCCGCTA
1 GCGGCG-TTTGTGTTCAAAAACGCCGCTA
3111689 ACTTTAGCGG
Statistics
Matches: 198, Mismatches: 34, Indels: 20
0.79 0.13 0.08
Matches are distributed among these distances:
41 4 0.02
42 49 0.25
43 126 0.64
44 4 0.02
45 12 0.06
46 3 0.02
ACGTcount: A:0.22, C:0.22, G:0.21, T:0.35
Consensus pattern (43 bp):
GCGGCGTTTGTGTTCAAAAACGCCGCTATAGGTCTGACTTTTT
Found at i:3111603 original size:85 final size:85
Alignment explanation
Indices: 3111403--3111668 Score: 313
Period size: 85 Copynumber: 3.1 Consensus size: 85
3111393 AAGGTAATTA
* *
3111403 GCGGCGTTTGTATCCAAAAACGCCGCTATATGTCTGACTTTTTACGGCGTTTGTGT-TCAAAAAC
1 GCGGCGTTTGTATCCAAAAACGCCGCTATAGGTCTGACCTTTTACGGCGTTTGT-TCT-AAAAAC
3111467 GCCGTTATAGGTCTGACATTTT
64 GCCGTTATAGGTCTGACATTTT
* * *
3111489 GCGGCGTTTGTGTCCAAAAACGCCACTATAGGTCTGACCTTTTACGGCGTTTGTTCTAAAAATGC
1 GCGGCGTTTGTATCCAAAAACGCCGCTATAGGTCTGACCTTTTACGGCGTTTGTTCTAAAAACGC
*
3111554 CAG-TATAGGTCTTATC-TTTT
66 C-GTTATAGGTCTGA-CATTTT
* * * * * *
3111574 GCGGCATTTGTATCAAAAAACGCCGCTATAGATCTGACCTTTTGCGGCGTTTTTTCTAGAAACGC
1 GCGGCGTTTGTATCCAAAAACGCCGCTATAGGTCTGACCTTTTACGGCGTTTGTTCTAAAAACGC
* ** * *
3111639 CGCTATATATCATAACTTTTT
66 CGTTATAGGTC-TGACATTTT
3111660 GCGGCGTTT
1 GCGGCGTTT
3111669 TTTGTTCTCA
Statistics
Matches: 155, Mismatches: 19, Indels: 12
0.83 0.10 0.06
Matches are distributed among these distances:
84 1 0.01
85 87 0.56
86 67 0.43
ACGTcount: A:0.23, C:0.21, G:0.21, T:0.35
Consensus pattern (85 bp):
GCGGCGTTTGTATCCAAAAACGCCGCTATAGGTCTGACCTTTTACGGCGTTTGTTCTAAAAACGC
CGTTATAGGTCTGACATTTT
Found at i:3112100 original size:2 final size:2
Alignment explanation
Indices: 3112093--3112135 Score: 86
Period size: 2 Copynumber: 21.5 Consensus size: 2
3112083 TACCCTCGTT
3112093 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
3112135 T
1 T
3112136 GACTTGATTA
Statistics
Matches: 41, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 41 1.00
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (2 bp):
TA
Found at i:3114322 original size:19 final size:19
Alignment explanation
Indices: 3114298--3114350 Score: 70
Period size: 19 Copynumber: 2.7 Consensus size: 19
3114288 ATAATGTTTA
3114298 AAAGTATCGATACTTATAT
1 AAAGTATCGATACTTATAT
* * *
3114317 AAAGTATCAAAACTTTTAT
1 AAAGTATCGATACTTATAT
3114336 AGAAGTATCGATACT
1 A-AAGTATCGATACT
3114351 CTTGGACTAG
Statistics
Matches: 28, Mismatches: 5, Indels: 1
0.82 0.15 0.03
Matches are distributed among these distances:
19 17 0.61
20 11 0.39
ACGTcount: A:0.43, C:0.11, G:0.11, T:0.34
Consensus pattern (19 bp):
AAAGTATCGATACTTATAT
Found at i:3116618 original size:22 final size:22
Alignment explanation
Indices: 3116577--3116620 Score: 61
Period size: 22 Copynumber: 2.0 Consensus size: 22
3116567 TCGAAAAATA
* * *
3116577 GAAATTAAATTCATTCATGTAT
1 GAAATTAAATTAACTAATGTAT
3116599 GAAATTAAATTAACTAATGTAT
1 GAAATTAAATTAACTAATGTAT
3116621 TTTAATTCCT
Statistics
Matches: 19, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
22 19 1.00
ACGTcount: A:0.45, C:0.07, G:0.09, T:0.39
Consensus pattern (22 bp):
GAAATTAAATTAACTAATGTAT
Found at i:3118522 original size:2 final size:2
Alignment explanation
Indices: 3118515--3118544 Score: 60
Period size: 2 Copynumber: 15.0 Consensus size: 2
3118505 CAATGATCTC
3118515 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
3118545 GTGTGTGTGT
Statistics
Matches: 28, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 28 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:3119707 original size:27 final size:27
Alignment explanation
Indices: 3119667--3119731 Score: 98
Period size: 27 Copynumber: 2.4 Consensus size: 27
3119657 ATTTTAAAAG
3119667 AATTAAA--AATTTAAATACTAAAATA
1 AATTAAATTAATTTAAATACTAAAATA
3119692 AATTAAATTAATTTAAATACTAAAATA
1 AATTAAATTAATTTAAATACTAAAATA
*
3119719 AACTAAAGTTAAT
1 AATTAAA-TTAAT
3119732 AATATAAGTA
Statistics
Matches: 36, Mismatches: 1, Indels: 3
0.90 0.03 0.08
Matches are distributed among these distances:
25 7 0.19
27 24 0.67
28 5 0.14
ACGTcount: A:0.60, C:0.05, G:0.02, T:0.34
Consensus pattern (27 bp):
AATTAAATTAATTTAAATACTAAAATA
Found at i:3119921 original size:2 final size:2
Alignment explanation
Indices: 3119914--3119943 Score: 60
Period size: 2 Copynumber: 15.0 Consensus size: 2
3119904 GAAAGATTTC
3119914 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
3119944 GAACTACTTG
Statistics
Matches: 28, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 28 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:3120283 original size:190 final size:190
Alignment explanation
Indices: 3119960--3120529 Score: 1043
Period size: 190 Copynumber: 3.0 Consensus size: 190
3119950 CTTGTTGAAT
* *
3119960 GAGTGAAAATAGATGTCTAGTAATCTAAACTTTCATTTTTTTCAGTAAATATATTCATAATTCTT
1 GAGTGAAAATAGATGTCTAGTCATCTAAACTTTCGTTTTTTTCAGTAAATATATTCATAATTCTT
*
3120025 ATTTTTAATCTCAGTCATCTATTTTTACTCATCTAATGATTTTAAATATGTGTAAAACTAAGAGT
66 ATTTTTAATCTCAGTCATCTATTTTTACTCATCTAATGATTTTAAATATGTGTAAAGCTAAGAGT
3120090 TTTTTTACGGTTACGATCCACTTATACAATGTAAAAGTTTTTAGTTTTACACATATTTAG
131 TTTTTTACGGTTACGATCCACTTATACAATGTAAAAGTTTTTAGTTTTACACATATTTAG
3120150 GAGTGAAAATAGATGTCTAGTCATCTAAACTTTCGTTTTTTTTCAGTAAATATATTCATAATTCT
1 GAGTGAAAATAGATGTCTAGTCATCTAAACTTTCG-TTTTTTTCAGTAAATATATTCATAATTCT
3120215 TATTTTTAATCTCAGTCATCTATTTTTACTCATCTAATGATTTT-AATATGTGTAAAGCTAAGAG
65 TATTTTTAATCTCAGTCATCTATTTTTACTCATCTAATGATTTTAAATATGTGTAAAGCTAAGAG
**
3120279 TTTTTTTACGGTTACGATCCACTTATACAATGTAAATTTTTTTAGTTTTACACATATTTAG
130 TTTTTTTACGGTTACGATCCACTTATACAATGTAAAAGTTTTTAGTTTTACACATATTTAG
3120340 GAGTGAAAATAGATGTCTAGTCATCTAAACTTTCGTTTTTTTCAGTAAATATATTCATAATTCTT
1 GAGTGAAAATAGATGTCTAGTCATCTAAACTTTCGTTTTTTTCAGTAAATATATTCATAATTCTT
*
3120405 ATTTTTAATCTCAGTCATCTATTTTCACTCATCTAATGATTTTAAATATGTGTAAAGCTAAGAGT
66 ATTTTTAATCTCAGTCATCTATTTTTACTCATCTAATGATTTTAAATATGTGTAAAGCTAAGAGT
* * *
3120470 TTTTTTACGGTTATGATCCACTTATATAATGTAAAAGTTTTTAATTTTACACATATTTAG
131 TTTTTTACGGTTACGATCCACTTATACAATGTAAAAGTTTTTAGTTTTACACATATTTAG
3120530 AACCGTTAAA
Statistics
Matches: 367, Mismatches: 11, Indels: 4
0.96 0.03 0.01
Matches are distributed among these distances:
189 72 0.20
190 222 0.60
191 73 0.20
ACGTcount: A:0.32, C:0.12, G:0.11, T:0.45
Consensus pattern (190 bp):
GAGTGAAAATAGATGTCTAGTCATCTAAACTTTCGTTTTTTTCAGTAAATATATTCATAATTCTT
ATTTTTAATCTCAGTCATCTATTTTTACTCATCTAATGATTTTAAATATGTGTAAAGCTAAGAGT
TTTTTTACGGTTACGATCCACTTATACAATGTAAAAGTTTTTAGTTTTACACATATTTAG
Found at i:3120694 original size:2 final size:2
Alignment explanation
Indices: 3120687--3120719 Score: 66
Period size: 2 Copynumber: 16.5 Consensus size: 2
3120677 AATAAGATCT
3120687 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
3120720 TAAAATGGAA
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:3125663 original size:94 final size:98
Alignment explanation
Indices: 3125541--3125732 Score: 268
Period size: 94 Copynumber: 2.0 Consensus size: 98
3125531 CCCGATTCCA
* *
3125541 AAATTGATATAATTTGATACCTGATTCGAAAAATTCAATTT-ATTTGCCGATTGCAAGGAATTTT
1 AAATTGATATAATTTGATACCTGATTCGAAAAATTCAATTTGA-TGGCCGATTGCAAGGAATTTA
3125605 AA-A-A-ACATA-AGATATTAAAATTTTATTTTT
65 AATATATACATATAGATATTAAAATTTTATTTTT
** * *
3125635 AAATTGATATAATTTGATATTTTATTCGAAAAATTCAATTTGATGGCCGATTGTAAGGAATTTAA
1 AAATTGATATAATTTGATACCTGATTCGAAAAATTCAATTTGATGGCCGATTGCAAGGAATTTAA
* *
3125700 ATATATATATATATATATTAAAATTTTATTTTT
66 ATATATACATATAGATATTAAAATTTTATTTTT
3125733 TAGATCAAAT
Statistics
Matches: 85, Mismatches: 8, Indels: 6
0.86 0.08 0.06
Matches are distributed among these distances:
94 58 0.68
95 2 0.02
96 1 0.01
97 4 0.05
98 20 0.24
ACGTcount: A:0.40, C:0.06, G:0.10, T:0.43
Consensus pattern (98 bp):
AAATTGATATAATTTGATACCTGATTCGAAAAATTCAATTTGATGGCCGATTGCAAGGAATTTAA
ATATATACATATAGATATTAAAATTTTATTTTT
Found at i:3128231 original size:22 final size:22
Alignment explanation
Indices: 3128206--3128962 Score: 1171
Period size: 22 Copynumber: 34.6 Consensus size: 22
3128196 CTATTTTAGA
**
3128206 ATTTATTTTAAAATATACATTG
1 ATTTATTTTAAAATATGGATTG
*
3128228 ATTTATCTTAAAATATGGATTG
1 ATTTATTTTAAAATATGGATTG
3128250 ATTTATTTTAAAATATGGATTG
1 ATTTATTTTAAAATATGGATTG
3128272 ATTTATTTTAAAATATGGATTG
1 ATTTATTTTAAAATATGGATTG
3128294 ATTTATTTTAAAATATGGATTG
1 ATTTATTTTAAAATATGGATTG
**
3128316 ATTTATTTTAAAATATATATTG
1 ATTTATTTTAAAATATGGATTG
* ***
3128338 ATTTATTTTAAAATATGAAAAA
1 ATTTATTTTAAAATATGGATTG
***
3128360 ATTTATTTTAAAATATGGAAAA
1 ATTTATTTTAAAATATGGATTG
3128382 ATTTATTTTAAAATATGGATTG
1 ATTTATTTTAAAATATGGATTG
*
3128404 AATTATTTTAAAATATGGATTG
1 ATTTATTTTAAAATATGGATTG
3128426 ATTTATTTTAAAATATGGATTG
1 ATTTATTTTAAAATATGGATTG
3128448 ATTTATTTTAAAATATGGATTG
1 ATTTATTTTAAAATATGGATTG
***
3128470 ATTTATTTTAAAATATGGAAAA
1 ATTTATTTTAAAATATGGATTG
3128492 ATTTATTTTAAAATATGGATTG
1 ATTTATTTTAAAATATGGATTG
3128514 ATTTATTTTAAAATAT-GATTG
1 ATTTATTTTAAAATATGGATTG
3128535 ATTTATTTTAAAATATGGATTG
1 ATTTATTTTAAAATATGGATTG
* *
3128557 ATTTAGTTTAAACTATGGATTG
1 ATTTATTTTAAAATATGGATTG
3128579 ATTTATTTTAAAATATGGATTG
1 ATTTATTTTAAAATATGGATTG
3128601 ATTTATTTTAAAATATGGATTG
1 ATTTATTTTAAAATATGGATTG
3128623 ATTTATTTTAAAATATGGATTG
1 ATTTATTTTAAAATATGGATTG
*
3128645 ATTTATTTTAAAAAATGGATTG
1 ATTTATTTTAAAATATGGATTG
*
3128667 ATTTATTTTAAAATATAGATTG
1 ATTTATTTTAAAATATGGATTG
*
3128689 ATTTATTTTAAAATATAGATTG
1 ATTTATTTTAAAATATGGATTG
* ***
3128711 ATTTATTTTAAAATATGAAAAA
1 ATTTATTTTAAAATATGGATTG
***
3128733 ATTTATTTTAAAATATGGAAAA
1 ATTTATTTTAAAATATGGATTG
3128755 ATTTATTTTAAAATATGGATTG
1 ATTTATTTTAAAATATGGATTG
*
3128777 AATTATTTTAAAATATGGATTG
1 ATTTATTTTAAAATATGGATTG
*
3128799 ATTTATTTTAAAATATAGATTG
1 ATTTATTTTAAAATATGGATTG
3128821 ATTTATTTTAAAATATGGATTG
1 ATTTATTTTAAAATATGGATTG
***
3128843 ATTTATTTT-AAA-ATGGAAAA
1 ATTTATTTTAAAATATGGATTG
3128863 ATTTATTTTAAAATATGGATTG
1 ATTTATTTTAAAATATGGATTG
3128885 ATTTATTTTAAAATAT-GATTG
1 ATTTATTTTAAAATATGGATTG
3128906 ATTTATTTTAAAATATGGATTG
1 ATTTATTTTAAAATATGGATTG
* *
3128928 ATTTAATTTAAAATATGAATTG
1 ATTTATTTTAAAATATGGATTG
3128950 ATTTATTTTAAAA
1 ATTTATTTTAAAA
3128963 AAATTATTAT
Statistics
Matches: 679, Mismatches: 52, Indels: 8
0.92 0.07 0.01
Matches are distributed among these distances:
20 14 0.02
21 48 0.07
22 617 0.91
ACGTcount: A:0.40, C:0.00, G:0.11, T:0.48
Consensus pattern (22 bp):
ATTTATTTTAAAATATGGATTG
Found at i:3133673 original size:37 final size:37
Alignment explanation
Indices: 3133597--3133673 Score: 102
Period size: 37 Copynumber: 2.1 Consensus size: 37
3133587 TTTTTATATT
*
3133597 TTTAATTTTGTAAAAAAAATTATATAAATATTATGAA
1 TTTAATTTTGTAAAAAAAATTATATAAATATTATCAA
* * *
3133634 TTTAATTTTTTAAAGAAAA-TATATAAATATTTTACAA
1 TTTAATTTTGTAAAAAAAATTATATAAATATTAT-CAA
3133671 TTT
1 TTT
3133674 GTAATATTAT
Statistics
Matches: 35, Mismatches: 4, Indels: 2
0.85 0.10 0.05
Matches are distributed among these distances:
36 13 0.37
37 22 0.63
ACGTcount: A:0.48, C:0.01, G:0.04, T:0.47
Consensus pattern (37 bp):
TTTAATTTTGTAAAAAAAATTATATAAATATTATCAA
Found at i:3133846 original size:20 final size:19
Alignment explanation
Indices: 3133811--3133892 Score: 112
Period size: 20 Copynumber: 4.2 Consensus size: 19
3133801 CCAGTAATCC
*
3133811 TATTCC-CTGATAATCTTT
1 TATTCCACTGGTAATCTTT
3133829 TATTCTCACTGGTAATCTTT
1 TATTC-CACTGGTAATCTTT
3133849 TATTCCCACTGGTAATCTTT
1 TATT-CCACTGGTAATCTTT
*
3133869 TATTCCTACTGGTAATCTTA
1 TATTCC-ACTGGTAATCTTT
3133889 TATT
1 TATT
3133893 TCGTGAACCA
Statistics
Matches: 58, Mismatches: 2, Indels: 6
0.88 0.03 0.09
Matches are distributed among these distances:
18 5 0.09
19 3 0.05
20 49 0.84
21 1 0.02
ACGTcount: A:0.22, C:0.21, G:0.09, T:0.49
Consensus pattern (19 bp):
TATTCCACTGGTAATCTTT
Found at i:3134745 original size:25 final size:25
Alignment explanation
Indices: 3134711--3134759 Score: 98
Period size: 25 Copynumber: 2.0 Consensus size: 25
3134701 GCAATCTTGA
3134711 ATAAGGTCTTTGAGTATTACAACTG
1 ATAAGGTCTTTGAGTATTACAACTG
3134736 ATAAGGTCTTTGAGTATTACAACT
1 ATAAGGTCTTTGAGTATTACAACT
3134760 CAATCTTGAA
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
25 24 1.00
ACGTcount: A:0.33, C:0.12, G:0.18, T:0.37
Consensus pattern (25 bp):
ATAAGGTCTTTGAGTATTACAACTG
Found at i:3137246 original size:118 final size:118
Alignment explanation
Indices: 3137008--3137247 Score: 329
Period size: 118 Copynumber: 2.0 Consensus size: 118
3136998 GATTTTACAT
* * * * *
3137008 TTCGCAACACGAATTTGCCAAATTCGCAACTCAATTTTTAAATTGGCGATTCGGATTTTTATCGG
1 TTCGCAACACGAATTTGCCAAATTCGCAACTCAATTTTCAAATTGACGATTCAGATTTTTACCAG
* *
3137073 ATTGTTCTACCGTGTTTACCTATATCGGTAATTGAGTTGCGAAATTGGTCAAA
66 ATTGTTCTACCGTGTTTACCTATATCGGTAATTGAGTTACGAAATTGGACAAA
* * *
3137126 TTCGCAACATGAATTTGCCAAATTCGCAACTCAGTTTTCAAATTGACGAATTTAGATTTTTACCA
1 TTCGCAACACGAATTTGCCAAATTCGCAACTCAATTTTCAAATTGACG-ATTCAGATTTTTACCA
* * * * *
3137191 GATTTTTTTACTGTGTTTACCTATATCGGTAATTGAGTTACG-AATTTGACGAA
65 GATTGTTCTACCGTGTTTACCTATATCGGTAATTGAGTTACGAAATTGGACAAA
3137244 TTCG
1 TTCG
3137248 AGTTGCGAAA
Statistics
Matches: 106, Mismatches: 15, Indels: 2
0.86 0.12 0.02
Matches are distributed among these distances:
118 56 0.53
119 50 0.47
ACGTcount: A:0.28, C:0.17, G:0.17, T:0.38
Consensus pattern (118 bp):
TTCGCAACACGAATTTGCCAAATTCGCAACTCAATTTTCAAATTGACGATTCAGATTTTTACCAG
ATTGTTCTACCGTGTTTACCTATATCGGTAATTGAGTTACGAAATTGGACAAA
Found at i:3137256 original size:22 final size:22
Alignment explanation
Indices: 3137221--3137279 Score: 75
Period size: 22 Copynumber: 2.7 Consensus size: 22
3137211 CTATATCGGT
* *
3137221 AATT-GAGTTACGAATTTGACG
1 AATTCGAGTTGCGAAATTGACG
**
3137242 AATTCGAGTTGCGAAATTGTGG
1 AATTCGAGTTGCGAAATTGACG
3137264 AATTCGAGTTGCGAAA
1 AATTCGAGTTGCGAAA
3137280 ATTTCCATGT
Statistics
Matches: 33, Mismatches: 4, Indels: 1
0.87 0.11 0.03
Matches are distributed among these distances:
21 4 0.12
22 29 0.88
ACGTcount: A:0.32, C:0.10, G:0.27, T:0.31
Consensus pattern (22 bp):
AATTCGAGTTGCGAAATTGACG
Found at i:3137337 original size:20 final size:20
Alignment explanation
Indices: 3137292--3137403 Score: 72
Period size: 20 Copynumber: 5.7 Consensus size: 20
3137282 TTCCATGTTC
*
3137292 GAGTTGCGAATT-CAACTTCT
1 GAGTTGCGAATTCCAAATT-T
*
3137312 GTGTTGCGAATTCCAAATTT
1 GAGTTGCGAATTCCAAATTT
* *
3137332 GAGTTGCTAATTCGGAAA-TT
1 GAGTTGCGAATTC-CAAATTT
* **
3137352 GTGTTGCGAAATT--GGATTT
1 GAGTTGCG-AATTCCAAATTT
* *
3137371 CGAGTTGCGAA-TCCGAATTC
1 -GAGTTGCGAATTCCAAATTT
3137391 GAGTTGCGAATTC
1 GAGTTGCGAATTC
3137404 GTTGGTTATT
Statistics
Matches: 72, Mismatches: 12, Indels: 16
0.72 0.12 0.16
Matches are distributed among these distances:
18 2 0.03
19 14 0.19
20 44 0.61
21 12 0.17
ACGTcount: A:0.25, C:0.15, G:0.25, T:0.35
Consensus pattern (20 bp):
GAGTTGCGAATTCCAAATTT
Found at i:3141743 original size:61 final size:59
Alignment explanation
Indices: 3141629--3141845 Score: 233
Period size: 61 Copynumber: 3.6 Consensus size: 59
3141619 AACATGCTTA
* * * * *
3141629 AATTTAGGGCCTAATCGAAAGAAGGTAAACTTATTATGCTCGAATATCGATTAATTTAATT
1 AATTAAGGACCTAATCGAAAGAAGTTAAACTTATTA-GCTC-AATATCAATTAATTTAACT
**
3141690 AATTAAAAACCTAATCGAAAGAAGTTAAACTTATTAGGCTCAACTATCAATTAATTTAACT
1 AATTAAGGACCTAATCGAAAGAAGTTAAACTTATTA-GCTCAA-TATCAATTAATTTAACT
* * *
3141751 AATCAAGGACCTAATTGAAAGAAGTT-AACTTATTAGCTCAATTAAT-ATTTAATTTAACT
1 AATTAAGGACCTAATCGAAAGAAGTTAAACTTATTAGCTCAA-T-ATCAATTAATTTAACT
* * *
3141810 AATTAGGGACCTAA-CTAAAAGAAGCTAAACTTATTA
1 AATTAAGGACCTAATC-GAAAGAAGTTAAACTTATTA
3141846 ATTAATTTAA
Statistics
Matches: 133, Mismatches: 19, Indels: 9
0.83 0.12 0.06
Matches are distributed among these distances:
59 39 0.29
60 22 0.17
61 72 0.54
ACGTcount: A:0.43, C:0.13, G:0.12, T:0.32
Consensus pattern (59 bp):
AATTAAGGACCTAATCGAAAGAAGTTAAACTTATTAGCTCAATATCAATTAATTTAACT
Found at i:3141911 original size:61 final size:61
Alignment explanation
Indices: 3141840--3141985 Score: 186
Period size: 61 Copynumber: 2.4 Consensus size: 61
3141830 GAAGCTAAAC
* * *
3141840 TTATTAATTAATTTAATTAAATAATGATCTAATT-GAAAGAAACTAAATTTATTAGGCTCAA
1 TTATTAATTAATTTAATTAAATAAAGATCTAATTAG-AAGAAACTAAACTTATTAGGATCAA
* * * * **
3141901 TTATTAATTAATTAAACTAATTAAAGATCTAATTAGAATAAGTTAAACTTATTAGGATCAA
1 TTATTAATTAATTTAATTAAATAAAGATCTAATTAGAAGAAACTAAACTTATTAGGATCAA
*
3141962 TTATTAATTGATTTAATTAAATAA
1 TTATTAATTAATTTAATTAAATAA
3141986 GAACATAATT
Statistics
Matches: 71, Mismatches: 13, Indels: 2
0.83 0.15 0.02
Matches are distributed among these distances:
61 70 0.99
62 1 0.01
ACGTcount: A:0.47, C:0.05, G:0.08, T:0.40
Consensus pattern (61 bp):
TTATTAATTAATTTAATTAAATAAAGATCTAATTAGAAGAAACTAAACTTATTAGGATCAA
Found at i:3141948 original size:109 final size:107
Alignment explanation
Indices: 3141738--3141954 Score: 256
Period size: 109 Copynumber: 2.0 Consensus size: 107
3141728 CTCAACTATC
* * *
3141738 AATTAATTTAACTAATCAAGGACCTAATTGAAAGAAGTTAACTTATTAGCTCAATTAATATTTAA
1 AATTAATTTAACTAATCAAGGACCTAATTGAAAGAACTAAACTTATTAGCTCAATTAATAATTAA
* **
3141803 TTTAACTAATTAGGGACCTAACTAAAAGAAGCTAAACTTATT
66 TTAAACTAATTAAAGACCTAACTAAAAGAAGCTAAACTTATT
* * * * *
3141845 AATTAATTTAATTAAAT-AATGATCTAATTGAAAGAAACTAAATTTATTAGGCTCAATTATTAAT
1 AATTAATTTAACT-AATCAAGGACCTAATTGAAAG-AACTAAACTTATTA-GCTCAATTAATAAT
* * * * *
3141909 TAATTAAACTAATTAAAGATCTAATTAGAATAAGTTAAACTTATT
63 TAATTAAACTAATTAAAGACCTAACTAAAAGAAGCTAAACTTATT
3141954 A
1 A
3141955 GGATCAATTA
Statistics
Matches: 91, Mismatches: 16, Indels: 4
0.82 0.14 0.04
Matches are distributed among these distances:
107 27 0.30
108 14 0.15
109 50 0.55
ACGTcount: A:0.46, C:0.09, G:0.09, T:0.36
Consensus pattern (107 bp):
AATTAATTTAACTAATCAAGGACCTAATTGAAAGAACTAAACTTATTAGCTCAATTAATAATTAA
TTAAACTAATTAAAGACCTAACTAAAAGAAGCTAAACTTATT
Found at i:3142962 original size:21 final size:21
Alignment explanation
Indices: 3142938--3142981 Score: 63
Period size: 21 Copynumber: 2.1 Consensus size: 21
3142928 ATTATTTTAA
3142938 TATATATATTTTTAAT-AAATT
1 TATATAT-TTTTTAATAAAATT
*
3142959 TATATATTTTTTTATAAAATT
1 TATATATTTTTTAATAAAATT
3142980 TA
1 TA
3142982 AAAGATAAAT
Statistics
Matches: 21, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
20 7 0.33
21 14 0.67
ACGTcount: A:0.41, C:0.00, G:0.00, T:0.59
Consensus pattern (21 bp):
TATATATTTTTTAATAAAATT
Found at i:3145332 original size:30 final size:30
Alignment explanation
Indices: 3145296--3145361 Score: 105
Period size: 30 Copynumber: 2.2 Consensus size: 30
3145286 CTAAGTCCAT
3145296 GGCAAATAACAATTTGATAAGCAATTTATA
1 GGCAAATAACAATTTGATAAGCAATTTATA
**
3145326 GGCAAATAACAATTTGATAATTAATTTATA
1 GGCAAATAACAATTTGATAAGCAATTTATA
*
3145356 GACAAA
1 GGCAAA
3145362 AATCAATCAA
Statistics
Matches: 33, Mismatches: 3, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
30 33 1.00
ACGTcount: A:0.48, C:0.09, G:0.12, T:0.30
Consensus pattern (30 bp):
GGCAAATAACAATTTGATAAGCAATTTATA
Found at i:3155316 original size:16 final size:16
Alignment explanation
Indices: 3155292--3155324 Score: 57
Period size: 16 Copynumber: 2.1 Consensus size: 16
3155282 TGTGCTTGGT
*
3155292 AGGACAGAAAAGTAAG
1 AGGAAAGAAAAGTAAG
3155308 AGGAAAGAAAAGTAAG
1 AGGAAAGAAAAGTAAG
3155324 A
1 A
3155325 TGGATGGTCC
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
16 16 1.00
ACGTcount: A:0.61, C:0.03, G:0.30, T:0.06
Consensus pattern (16 bp):
AGGAAAGAAAAGTAAG
Found at i:3155910 original size:21 final size:21
Alignment explanation
Indices: 3155884--3155941 Score: 82
Period size: 21 Copynumber: 2.8 Consensus size: 21
3155874 ATTTACCGTG
3155884 ATTGCGGCCGTCGC-GAGCGCT
1 ATTGCGGCCGTCGCGGA-CGCT
* *
3155905 ATTGCGGCCATCACGGACGCT
1 ATTGCGGCCGTCGCGGACGCT
3155926 ATTGCGGCCGTCGCGG
1 ATTGCGGCCGTCGCGG
3155942 GTAACTCGGA
Statistics
Matches: 32, Mismatches: 4, Indels: 2
0.84 0.11 0.05
Matches are distributed among these distances:
21 30 0.94
22 2 0.06
ACGTcount: A:0.12, C:0.33, G:0.36, T:0.19
Consensus pattern (21 bp):
ATTGCGGCCGTCGCGGACGCT
Found at i:3165414 original size:22 final size:22
Alignment explanation
Indices: 3165386--3165436 Score: 68
Period size: 22 Copynumber: 2.4 Consensus size: 22
3165376 TTATGTATCT
* *
3165386 TATATTTTTA-TTTAATAAAAA
1 TATATTTTTATTTTAAGAAATA
*
3165407 TATAATTTTATTTTAAGAAATA
1 TATATTTTTATTTTAAGAAATA
3165429 TATATTTT
1 TATATTTT
3165437 AATTAAAAAT
Statistics
Matches: 25, Mismatches: 4, Indels: 1
0.83 0.13 0.03
Matches are distributed among these distances:
21 9 0.36
22 16 0.64
ACGTcount: A:0.43, C:0.00, G:0.02, T:0.55
Consensus pattern (22 bp):
TATATTTTTATTTTAAGAAATA
Found at i:3165437 original size:21 final size:21
Alignment explanation
Indices: 3165386--3165445 Score: 65
Period size: 21 Copynumber: 3.0 Consensus size: 21
3165376 TTATGTATCT
3165386 TATAT-TTTTATTTAATAAAAA
1 TATATATTTTATTT-ATAAAAA
3165407 TATA-ATTTTATTT-TAAGAAA
1 TATATATTTTATTTATAA-AAA
*
3165427 TATATATTTTAATTA-AAAA
1 TATATATTTTATTTATAAAA
3165446 TATTTATGAA
Statistics
Matches: 34, Mismatches: 1, Indels: 9
0.77 0.02 0.20
Matches are distributed among these distances:
19 3 0.09
20 9 0.26
21 22 0.65
ACGTcount: A:0.48, C:0.00, G:0.02, T:0.50
Consensus pattern (21 bp):
TATATATTTTATTTATAAAAA
Found at i:3165442 original size:20 final size:18
Alignment explanation
Indices: 3165396--3165448 Score: 63
Period size: 20 Copynumber: 2.8 Consensus size: 18
3165386 TATATTTTTA
3165396 TTTAA-TAAAAATATAAT
1 TTTAATTAAAAATATAAT
*
3165413 TTTATTTTAAGAAATATATAT
1 TTTA-ATTAA-AAATATA-AT
3165434 TTTAATTAAAAATAT
1 TTTAATTAAAAATAT
3165449 TTATGAAAAA
Statistics
Matches: 30, Mismatches: 2, Indels: 6
0.79 0.05 0.16
Matches are distributed among these distances:
17 4 0.13
19 9 0.30
20 11 0.37
21 6 0.20
ACGTcount: A:0.51, C:0.00, G:0.02, T:0.47
Consensus pattern (18 bp):
TTTAATTAAAAATATAAT
Found at i:3170876 original size:160 final size:159
Alignment explanation
Indices: 3170503--3170885 Score: 520
Period size: 160 Copynumber: 2.4 Consensus size: 159
3170493 GAGCATGAAG
* *
3170503 TTCAAATTTGGTAAAAAAGAAGTGACTTAAAATAAATCACAAATTGAA-AGAATAA-AGAGATTA
1 TTCAAATTTGGTAAAAAA-ATG-GACTTAAAATAAATGACAAATTGAAGA-AATAAGA-AGATTA
* * * *
3170566 TGAAAATTTGAAGGACTAAATTGAAAAATAAAAAATTTGTTATCAAAAAAAGGAATTGAAAGTAC
62 TGAAAAATTAAAGGACTAAATTGAAAAATAAAAAATTTGTTATAAAAAAAAGGAATTGAAAGAAC
*
3170631 ACATGTATTCCACTATGGTTTAGGAGCACGTGA
127 ACATGTATTCCACTATGGTTTAGGAGCACGCGA
* * * *
3170664 CTCAAATTTGGTAAAAAAATGGACTTAAAATAAATGACTAATCGACGAAATAAGAAGATTATGAA
1 TTCAAATTTGGTAAAAAAATGGACTTAAAATAAATGACAAATTGAAGAAATAAGAAGATTATGAA
* *
3170729 AAATTAAAGGACTAAATTGAAAAATGAAAAATTTGTTATAAAAAAAGAGGAATTGAAAGAACATA
66 AAATTAAAGGACTAAATTGAAAAATAAAAAATTTGTTATAAAAAAA-AGGAATTGAAAGAACACA
* *
3170794 TGTATTCTACTATGGTTTAGGAGCATGCGA
130 TGTATTCCACTATGGTTTAGGAGCACGCGA
* * * *
3170824 TTCAAATTCGGTAAAAAAATGGACTTAAAATGAAGGAGAAATTGAAGAAATAATGAA-ATTAT
1 TTCAAATTTGGTAAAAAAATGGACTTAAAATAAATGACAAATTGAAGAAATAA-GAAGATTAT
3170886 AGATTAAATC
Statistics
Matches: 195, Mismatches: 23, Indels: 9
0.86 0.10 0.04
Matches are distributed among these distances:
159 78 0.40
160 97 0.50
161 20 0.10
ACGTcount: A:0.49, C:0.07, G:0.17, T:0.26
Consensus pattern (159 bp):
TTCAAATTTGGTAAAAAAATGGACTTAAAATAAATGACAAATTGAAGAAATAAGAAGATTATGAA
AAATTAAAGGACTAAATTGAAAAATAAAAAATTTGTTATAAAAAAAAGGAATTGAAAGAACACAT
GTATTCCACTATGGTTTAGGAGCACGCGA
Found at i:3187955 original size:87 final size:88
Alignment explanation
Indices: 3187846--3188019 Score: 287
Period size: 87 Copynumber: 2.0 Consensus size: 88
3187836 TCAAAAGTTT
*
3187846 AGTGAGTAAAAACTAAATGTACAATGAATAAAATAGAAGAAAAAGTATAGTTCATTGAGAAATAA
1 AGTGAGTAAAAACTAAAAGTACAATGAATAAAATAGAAGAAAAAGTATAGTTCATTGAGAAATAA
*
3187911 TTTAATTTACCTTTAGTCTATTC
66 TGTAATTTACCTTTAGTCTATTC
* * * *
3187934 AGTGAGT-AAAACTAAAAGTACAATGAATAAAGTAGAAGAAATAGTATAGTTGATTGAGAAATAG
1 AGTGAGTAAAAACTAAAAGTACAATGAATAAAATAGAAGAAAAAGTATAGTTCATTGAGAAATAA
3187998 TGTAATTTACCTTTAGTCTATT
66 TGTAATTTACCTTTAGTCTATT
3188020 AGTATGGTAG
Statistics
Matches: 80, Mismatches: 6, Indels: 1
0.92 0.07 0.01
Matches are distributed among these distances:
87 73 0.91
88 7 0.09
ACGTcount: A:0.45, C:0.07, G:0.16, T:0.32
Consensus pattern (88 bp):
AGTGAGTAAAAACTAAAAGTACAATGAATAAAATAGAAGAAAAAGTATAGTTCATTGAGAAATAA
TGTAATTTACCTTTAGTCTATTC
Found at i:3190003 original size:12 final size:12
Alignment explanation
Indices: 3189986--3190017 Score: 55
Period size: 12 Copynumber: 2.7 Consensus size: 12
3189976 TTAATAAACC
*
3189986 TTATCCCAAGTT
1 TTATCCAAAGTT
3189998 TTATCCAAAGTT
1 TTATCCAAAGTT
3190010 TTATCCAA
1 TTATCCAA
3190018 CTTTTACTGT
Statistics
Matches: 19, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
12 19 1.00
ACGTcount: A:0.31, C:0.22, G:0.06, T:0.41
Consensus pattern (12 bp):
TTATCCAAAGTT
Found at i:3190834 original size:5 final size:5
Alignment explanation
Indices: 3190819--3190863 Score: 54
Period size: 5 Copynumber: 8.8 Consensus size: 5
3190809 GGTTTTTTTT
* * *
3190819 CTTTCC CTTTC CTTTC CTTTC CTTTC TTTTC TTTTC TTTTC CTTT
1 CTTT-C CTTTC CTTTC CTTTC CTTTC CTTTC CTTTC CTTTC CTTT
3190864 TGTGGAGAGA
Statistics
Matches: 37, Mismatches: 2, Indels: 1
0.93 0.05 0.03
Matches are distributed among these distances:
5 33 0.89
6 4 0.11
ACGTcount: A:0.00, C:0.33, G:0.00, T:0.67
Consensus pattern (5 bp):
CTTTC
Found at i:3191858 original size:17 final size:17
Alignment explanation
Indices: 3191836--3191871 Score: 72
Period size: 17 Copynumber: 2.1 Consensus size: 17
3191826 AGTCAGATGA
3191836 CTTAATAAAATAATATT
1 CTTAATAAAATAATATT
3191853 CTTAATAAAATAATATT
1 CTTAATAAAATAATATT
3191870 CT
1 CT
3191872 ATAGTCAGGT
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
17 19 1.00
ACGTcount: A:0.50, C:0.08, G:0.00, T:0.42
Consensus pattern (17 bp):
CTTAATAAAATAATATT
Found at i:3193648 original size:60 final size:60
Alignment explanation
Indices: 3193533--3193654 Score: 160
Period size: 60 Copynumber: 2.0 Consensus size: 60
3193523 TGTTACACTT
* * *
3193533 TTTTATTTTATTTACTTACATCGGTATAAGTATGTGTTAAGAGTTACACTTTTTATTTTA
1 TTTTATTTTATTCACTTACACCAGTATAAGTATGTGTTAAGAGTTACACTTTTTATTTTA
*
3193593 TTTTATTTTATTCACTTACACCAGTGT-AGTATGTGTTAA-ATGCTT-CACTTGTTTATTTTA
1 TTTTATTTTATTCACTTACACCAGTATAAGTATGTGTTAAGA-G-TTACACTT-TTTATTTTA
3193653 TT
1 TT
3193655 CAGTTACACC
Statistics
Matches: 55, Mismatches: 4, Indels: 6
0.85 0.06 0.09
Matches are distributed among these distances:
58 1 0.02
59 18 0.33
60 36 0.65
ACGTcount: A:0.25, C:0.11, G:0.11, T:0.53
Consensus pattern (60 bp):
TTTTATTTTATTCACTTACACCAGTATAAGTATGTGTTAAGAGTTACACTTTTTATTTTA
Found at i:3193696 original size:110 final size:111
Alignment explanation
Indices: 3193495--3193696 Score: 284
Period size: 110 Copynumber: 1.8 Consensus size: 111
3193485 AGATGTATAA
* * * **
3193495 ACTTACACCAGTGTAAGTATGTGTTAAATGTTACACTTTTTTATTTTATTTACTTACATCGGTAT
1 ACTTACACCAGTGTAAGTATGTGTTAAATGTTACACTTGTTTATTTTATTCACTTACACCAATAT
*
3193560 AAGTATGTGTTAAGAGTTACACTTTTTATTTTATTTTATTTTATTC
66 AAGTATGTGTTAAGAGCTACACTTTTTATTTTATTTTATTTTATTC
* *
3193606 ACTTACACCAGTGT-AGTATGTGTTAAATGCTT-CACTTGTTTATTTTATTCAGTTACACCAATG
1 ACTTACACCAGTGTAAGTATGTGTTAAATG-TTACACTTGTTTATTTTATTCACTTACACCAATA
*
3193669 TAAGTATGTGTTAA-ATGCTACATTTTTT
65 TAAGTATGTGTTAAGA-GCTACACTTTTT
3193697 GTAGTATGAA
Statistics
Matches: 80, Mismatches: 9, Indels: 5
0.85 0.10 0.05
Matches are distributed among these distances:
109 1 0.01
110 63 0.79
111 16 0.20
ACGTcount: A:0.27, C:0.12, G:0.13, T:0.48
Consensus pattern (111 bp):
ACTTACACCAGTGTAAGTATGTGTTAAATGTTACACTTGTTTATTTTATTCACTTACACCAATAT
AAGTATGTGTTAAGAGCTACACTTTTTATTTTATTTTATTTTATTC
Found at i:3196905 original size:12 final size:12
Alignment explanation
Indices: 3196890--3196927 Score: 58
Period size: 12 Copynumber: 3.2 Consensus size: 12
3196880 TGGAGTCATG
3196890 CATGCATGCATA
1 CATGCATGCATA
3196902 CATGCATGCATA
1 CATGCATGCATA
* *
3196914 CATACATACATA
1 CATGCATGCATA
3196926 CA
1 CA
3196928 CACACTATTC
Statistics
Matches: 24, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
12 24 1.00
ACGTcount: A:0.39, C:0.26, G:0.11, T:0.24
Consensus pattern (12 bp):
CATGCATGCATA
Found at i:3199021 original size:21 final size:21
Alignment explanation
Indices: 3198997--3199131 Score: 107
Period size: 21 Copynumber: 6.4 Consensus size: 21
3198987 TCGAAGTTCG
*
3198997 CGTTGTGATTTATTCCAAATT
1 CGTTGCGATTTATTCCAAATT
3199018 CGTTGCGATTTATTCCAAATT
1 CGTTGCGATTTATTCCAAATT
* *
3199039 CGTTGCGA--TAATCCAAGTT
1 CGTTGCGATTTATTCCAAATT
* * *
3199058 CGCGTTACGATTTATTTCAAGTT
1 --CGTTGCGATTTATTCCAAATT
* * * *
3199081 CGTTGTGA--TAGTCGAAGTT
1 CGTTGCGATTTATTCCAAATT
3199100 CACGTTGCGATTTATTCCAAATT
1 --CGTTGCGATTTATTCCAAATT
*
3199123 CATTGCGAT
1 CGTTGCGAT
3199132 AGTCCAAAAT
Statistics
Matches: 90, Mismatches: 16, Indels: 16
0.74 0.13 0.13
Matches are distributed among these distances:
19 17 0.19
21 56 0.62
23 17 0.19
ACGTcount: A:0.24, C:0.18, G:0.19, T:0.40
Consensus pattern (21 bp):
CGTTGCGATTTATTCCAAATT
Found at i:3199069 original size:42 final size:42
Alignment explanation
Indices: 3199018--3199138 Score: 170
Period size: 42 Copynumber: 2.9 Consensus size: 42
3199008 ATTCCAAATT
* *
3199018 CGTTGCGATTTATTCCAAATTCGTTGCGATAATCCAAGTTCG
1 CGTTGCGATTTATTCCAAATTCGTTGCGATAGTCCAAGTTCA
* * * * *
3199060 CGTTACGATTTATTTCAAGTTCGTTGTGATAGTCGAAGTTCA
1 CGTTGCGATTTATTCCAAATTCGTTGCGATAGTCCAAGTTCA
*
3199102 CGTTGCGATTTATTCCAAATTCATTGCGATAGTCCAA
1 CGTTGCGATTTATTCCAAATTCGTTGCGATAGTCCAA
3199139 AATCGCAACG
Statistics
Matches: 66, Mismatches: 13, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
42 66 1.00
ACGTcount: A:0.25, C:0.19, G:0.19, T:0.37
Consensus pattern (42 bp):
CGTTGCGATTTATTCCAAATTCGTTGCGATAGTCCAAGTTCA
Done.