Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: VEPZ01008282.1 Hibiscus syriacus cultivar Beakdansim tig00110944_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: 1335609
ACGTcount: A:0.32, C:0.17, G:0.17, T:0.33
File 6 of 8
Found at i:958248 original size:41 final size:40
Alignment explanation
Indices: 958129--958428 Score: 166
Period size: 41 Copynumber: 7.3 Consensus size: 40
958119 ATATAAGTTT
* * *
958129 GCGGCGTTTGTAAAATAATGCCTCTATAGTGCTAA-TATATC
1 GCGGCGTTTGTAAAA-AATGCCTCTATAGTTC-AACTCTATA
* * *
958170 GCGACGTTTACTTAAAAAATGCCACTACT-G-TCTAACTCTATA
1 GCGGCGTTT--GTAAAAAATGCCTCTA-TAGTTC-AACTCTATA
958212 GCGGCGTTTGTACAAAAATGCCTCTATAGTTCAACTCTATCA
1 GCGGCGTTTGTA-AAAAATGCCTCTATAGTTCAACTCTAT-A
* * * * *
958254 -CGGCGTATATCTATAAAACGCCACTA-ATGTCCAACTCTATA
1 GCGGCGT-T-TGTAAAAAATGCCTCTATA-GTTCAACTCTATA
* ** *
958295 GCGGCATTTGTTTGAAAATGCCTCTATAGTGT-AACTCTATT
1 GCGGCGTTTG-TAAAAAATGCCTCTATAGT-TCAACTCTATA
* * * *** *
958336 GCGGCGTTTACT-AAAAACGGCAGAACT-GTCCAACTCTATA
1 GCGGCGTTT-GTAAAAAATGCCTCTA-TAGTTCAACTCTATA
* * *
958376 GCGGCATTTGTACAAAAAGCGCCTCTATAGTTCAACTCTATC
1 GCGGCGTTTGTA-AAAAA-TGCCTCTATAGTTCAACTCTATA
958418 GCGGCGTTTGT
1 GCGGCGTTTGT
958429 GTTTAAAAAC
Statistics
Matches: 196, Mismatches: 41, Indels: 43
0.70 0.15 0.15
Matches are distributed among these distances:
39 1 0.01
40 29 0.15
41 79 0.40
42 78 0.40
43 9 0.05
ACGTcount: A:0.29, C:0.23, G:0.18, T:0.31
Consensus pattern (40 bp):
GCGGCGTTTGTAAAAAATGCCTCTATAGTTCAACTCTATA
Found at i:958277 original size:83 final size:82
Alignment explanation
Indices: 958129--958426 Score: 343
Period size: 83 Copynumber: 3.6 Consensus size: 82
958119 ATATAAGTTT
* * * * *
958129 GCGGCGTTTGTA-AAATAATGCCTCTATAGTGCTAA-TATATCGCGACGTTTACTTAAAAAATGC
1 GCGGCGTTTGTACAAA-AATGCCTCTATAGTTC-AACTCTATCGCGGCGTTTAC-TATAAAACGC
*
958192 CACTACTGTCTAACTCTATA
63 CACTACTGTCCAACTCTATA
* *
958212 GCGGCGTTTGTACAAAAATGCCTCTATAGTTCAACTCTATCACGGCGTATATCTATAAAACGCCA
1 GCGGCGTTTGTACAAAAATGCCTCTATAGTTCAACTCTATCGCGGCGTTTA-CTATAAAACGCCA
*
958277 CTAATGTCCAACTCTATA
65 CTACTGTCCAACTCTATA
* *** * *
958295 GCGGCATTTGTTTGAAAATGCCTCTATAGTGT-AACTCTATTGCGGCGTTTACTA-AAAACGGCA
1 GCGGCGTTTGTACAAAAATGCCTCTATAGT-TCAACTCTATCGCGGCGTTTACTATAAAACGCCA
**
958358 GAACTGTCCAACTCTATA
65 CTACTGTCCAACTCTATA
* *
958376 GCGGCATTTGTACAAAAAGCGCCTCTATAGTTCAACTCTATCGCGGCGTTT
1 GCGGCGTTTGTACAAAAA-TGCCTCTATAGTTCAACTCTATCGCGGCGTTT
958427 GTGTTTAAAA
Statistics
Matches: 184, Mismatches: 25, Indels: 13
0.83 0.11 0.06
Matches are distributed among these distances:
81 39 0.21
82 33 0.18
83 107 0.58
84 5 0.03
ACGTcount: A:0.29, C:0.23, G:0.17, T:0.31
Consensus pattern (82 bp):
GCGGCGTTTGTACAAAAATGCCTCTATAGTTCAACTCTATCGCGGCGTTTACTATAAAACGCCAC
TACTGTCCAACTCTATA
Found at i:958414 original size:42 final size:41
Alignment explanation
Indices: 958203--958428 Score: 151
Period size: 42 Copynumber: 5.5 Consensus size: 41
958193 ACTACTGTCT
* *
958203 AACTCTATAGCGGCGTTTGTACAAAAATGCCTCTATAGTTC
1 AACTCTATAGCGGCATTTGTACAAAAACGCCTCTATAGTTC
* * * * *
958244 AACTCTATCA-CGGCGTATATCTA-TAAAACGCCACTA-ATGTCC
1 AACTCTAT-AGCGGC--ATTTGTACAAAAACGCCTCTATA-GTTC
*** *
958286 AACTCTATAGCGGCATTTGTTTGAAAATGCCTCTATAGTGT-
1 AACTCTATAGCGGCATTTGTACAAAAACGCCTCTATAGT-TC
* * * *** *
958327 AACTCTATTGCGGC-GTT-TACTAAAAACGGCAGAACT-GTCC
1 AACTCTATAGCGGCATTTGTAC-AAAAACGCCTCTA-TAGTTC
958367 AACTCTATAGCGGCATTTGTACAAAAAGCGCCTCTATAGTTC
1 AACTCTATAGCGGCATTTGTACAAAAA-CGCCTCTATAGTTC
* *
958409 AACTCTATCGCGGCGTTTGT
1 AACTCTATAGCGGCATTTGT
958429 GTTTAAAAAC
Statistics
Matches: 136, Mismatches: 34, Indels: 29
0.68 0.17 0.15
Matches are distributed among these distances:
39 1 0.01
40 28 0.21
41 48 0.35
42 55 0.40
43 4 0.03
ACGTcount: A:0.29, C:0.23, G:0.18, T:0.30
Consensus pattern (41 bp):
AACTCTATAGCGGCATTTGTACAAAAACGCCTCTATAGTTC
Found at i:958506 original size:166 final size:164
Alignment explanation
Indices: 958196--958511 Score: 379
Period size: 166 Copynumber: 1.9 Consensus size: 164
958186 AAATGCCACT
* * *
958196 ACTGTCTAACTCTATAGCGGCGTTTGTACAAAAATGCCTCTATAGTTCAACTCTATCACGGCGTA
1 ACTGTCCAACTCTATAGCGGCATTTGTACAAAAACGCCTCTATAGTTCAACTCTATCACGGCGTA
* * ** * * *
958261 TATCTATAAAACGCCACTAATGTCCAACTCTATAGCGGCATTTGTTTGAAAATGCCTCTATAGTG
66 TATCTATAAAACGCCACTAACGTACAACTCTATAGCGGCATTTGTTCCAAAACGCCGCTATAGCG
958326 TAACTCTATTGCGGCGTTTACTAAAAACGGCAGA
131 TAACTCTATTGCGGCGTTTACTAAAAACGGCAGA
*
958360 ACTGTCCAACTCTATAGCGGCATTTGTACAAAAAGCGCCTCTATAGTTCAACTCTATCGCGGCGT
1 ACTGTCCAACTCTATAGCGGCATTTGTACAAAAA-CGCCTCTATAGTTCAACTCTATCACGGCGT
* * * * ** * *
958425 TTGTGTTTAAAAACGCCACTAACGTATGACTCTTTAGCGGCGTTT-TTACCAAAACGCCGCTA-A
65 ATATCTAT-AAAACGCCACTAACGTACAACTCTATAGCGGCATTTGTT-CCAAAACGCCGCTATA
958488 -CGT-ACATCTATGTTGCGGCGTTTA
128 GCGTAAC-TCTA--TTGCGGCGTTTA
958512 TTGAAAAAAA
Statistics
Matches: 127, Mismatches: 19, Indels: 10
0.81 0.12 0.06
Matches are distributed among these distances:
163 2 0.02
164 38 0.30
165 35 0.28
166 52 0.41
ACGTcount: A:0.28, C:0.24, G:0.18, T:0.30
Consensus pattern (164 bp):
ACTGTCCAACTCTATAGCGGCATTTGTACAAAAACGCCTCTATAGTTCAACTCTATCACGGCGTA
TATCTATAAAACGCCACTAACGTACAACTCTATAGCGGCATTTGTTCCAAAACGCCGCTATAGCG
TAACTCTATTGCGGCGTTTACTAAAAACGGCAGA
Found at i:959734 original size:64 final size:64
Alignment explanation
Indices: 959661--959823 Score: 161
Period size: 64 Copynumber: 2.5 Consensus size: 64
959651 ATTGTTTGAA
* *** *
959661 GGTGTATCGATGCACAGGTAGTGCATCGATGCA-CTCTTTTAATCTAA-AAACATCGAATGCAAT
1 GGTGCATCGATGCACAGGTAGTGCATCGATGCATC-CCAGTAAT-AAACAAACATCGAATGCAAT
959724 T
64 T
* * * *
959725 GGTGCATCGATGCATAAGGCA-TGCATCGATGCATCCCAGTAATAAACAAACATCGAATGTATTT
1 GGTGCATCGATGCA-CAGGTAGTGCATCGATGCATCCCAGTAATAAACAAACATCGAATGCAATT
** * *
959789 TTTGCATCGATGCACAAGTAGTGCATCGATTCATC
1 GGTGCATCGATGCACAGGTAGTGCATCGATGCATC
959824 GTTAGGGAAT
Statistics
Matches: 80, Mismatches: 15, Indels: 8
0.78 0.15 0.08
Matches are distributed among these distances:
63 5 0.06
64 70 0.88
65 5 0.06
ACGTcount: A:0.31, C:0.20, G:0.20, T:0.28
Consensus pattern (64 bp):
GGTGCATCGATGCACAGGTAGTGCATCGATGCATCCCAGTAATAAACAAACATCGAATGCAATT
Found at i:960789 original size:103 final size:103
Alignment explanation
Indices: 960605--960819 Score: 385
Period size: 103 Copynumber: 2.1 Consensus size: 103
960595 GTCGAGGGTC
*
960605 TATGTGGTCCTTCGGGACATATATGTATTCTTTGGAACATGTGTGAAGTCTGGTGAGACACATAC
1 TATGTGGTCCTTCAGGACATATATGTATTCTTTGGAACATGTGTGAAGTCTGGTGAGACACATAC
* *
960670 TTGATCCTTGGCATATGTATATGATTCTTAAGGAATGA
66 TTGATCCCTAGCATATGTATATGATTCTTAAGGAATGA
*
960708 TATGTGGTCCTTCAGGACATATATGTATTCTTTGGAATATGTGTGAAGTCTGGTGAGACACATAC
1 TATGTGGTCCTTCAGGACATATATGTATTCTTTGGAACATGTGTGAAGTCTGGTGAGACACATAC
*
960773 TTGATCCCTAGTATATGTATATGATTCTTAAGGAATGA
66 TTGATCCCTAGCATATGTATATGATTCTTAAGGAATGA
960811 TATGTGGTC
1 TATGTGGTC
960820 ATTATGGACA
Statistics
Matches: 107, Mismatches: 5, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
103 107 1.00
ACGTcount: A:0.27, C:0.13, G:0.24, T:0.37
Consensus pattern (103 bp):
TATGTGGTCCTTCAGGACATATATGTATTCTTTGGAACATGTGTGAAGTCTGGTGAGACACATAC
TTGATCCCTAGCATATGTATATGATTCTTAAGGAATGA
Found at i:966623 original size:103 final size:103
Alignment explanation
Indices: 966398--966611 Score: 374
Period size: 103 Copynumber: 2.1 Consensus size: 103
966388 GTCGAGGGTC
*
966398 TATGTGGTACTTCGGGACATATATGTATTCTTTGGAATATGTGTGAAGTCTGGTGAGACACATAC
1 TATGTGGTACTTCGGGACATATATGTATTCTTTGGAACATGTGTGAAGTCTGGTGAGACACATAC
* *
966463 TTGATCCTTGGCATATGTATATGATTCTTAAAGAATGA
66 TTGATCCCTAGCATATGTATATGATTCTTAAAGAATGA
*
966501 TATGTGGTTCTTCGGGACATATATGTATTCTTTGGAACATGTGTGAAGTCTGGTGAGACACATAC
1 TATGTGGTACTTCGGGACATATATGTATTCTTTGGAACATGTGTGAAGTCTGGTGAGACACATAC
* *
966566 TTGATCCCTAGTATATGTATATGATTCTTAAGGAATGA
66 TTGATCCCTAGCATATGTATATGATTCTTAAAGAATGA
966604 TATGTGGT
1 TATGTGGT
966612 CCTTATGGAC
Statistics
Matches: 105, Mismatches: 6, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
103 105 1.00
ACGTcount: A:0.27, C:0.12, G:0.24, T:0.37
Consensus pattern (103 bp):
TATGTGGTACTTCGGGACATATATGTATTCTTTGGAACATGTGTGAAGTCTGGTGAGACACATAC
TTGATCCCTAGCATATGTATATGATTCTTAAAGAATGA
Found at i:972455 original size:30 final size:29
Alignment explanation
Indices: 972419--972627 Score: 106
Period size: 30 Copynumber: 7.3 Consensus size: 29
972409 TGTATATGTT
*
972419 CTATGTGAATAAACGTTAATTTGAATAAAG
1 CTATGTGAATAAAC-TTAATTTGAATAATG
* *
972449 CTATGTGAA-ATA-TT-A--TGCATATATG
1 CTATGTGAATAAACTTAATTTGAATA-ATG
*
972474 TTCTATGTGAATAAACATTAATTTAAATAATG
1 --CTATGTGAATAAAC-TTAATTTGAATAATG
* *
972506 CTATGTGAA-ATA-TT-A--TGCATATATATT
1 CTATGTGAATAAACTTAATTTG-A-ATA-ATG
972533 CTATGTGAATAAACGTTAATTTGAATAATG
1 CTATGTGAATAAAC-TTAATTTGAATAATG
* * *
972563 CTATGTGAA-ATA-TT-ATATGTAT-ATG
1 CTATGTGAATAAACTTAATTTGAATAATG
*
972588 TTCTATGTGAATAAA-TGACAATTTGAATAATG
1 --CTATGTGAATAAACT--TAATTTGAATAATG
972620 CTATGTGA
1 CTATGTGA
972628 GGTACTTATA
Statistics
Matches: 136, Mismatches: 18, Indels: 50
0.67 0.09 0.25
Matches are distributed among these distances:
24 6 0.04
25 6 0.04
26 11 0.08
27 35 0.26
28 7 0.05
29 6 0.04
30 41 0.30
31 11 0.08
32 7 0.05
33 6 0.04
ACGTcount: A:0.39, C:0.07, G:0.15, T:0.39
Consensus pattern (29 bp):
CTATGTGAATAAACTTAATTTGAATAATG
Found at i:972480 original size:57 final size:57
Alignment explanation
Indices: 972411--972627 Score: 344
Period size: 57 Copynumber: 3.8 Consensus size: 57
972401 TTGCTATGTG
*
972411 TATATGTTCTATGTGAATAAACGTTAATTTGAATAAAGCTATGTGAAATATTATGCA
1 TATATGTTCTATGTGAATAAACGTTAATTTGAATAATGCTATGTGAAATATTATGCA
* *
972468 TATATGTTCTATGTGAATAAACATTAATTTAAATAATGCTATGTGAAATATTATGCA
1 TATATGTTCTATGTGAATAAACGTTAATTTGAATAATGCTATGTGAAATATTATGCA
* ***
972525 TATATATTCTATGTGAATAAACGTTAATTTGAATAATGCTATGTGAAATATTATATG
1 TATATGTTCTATGTGAATAAACGTTAATTTGAATAATGCTATGTGAAATATTATGCA
* **
972582 TATATGTTCTATGTGAATAAATGACAATTTGAATAATGCTATGTGA
1 TATATGTTCTATGTGAATAAACGTTAATTTGAATAATGCTATGTGA
972628 GGTACTTATA
Statistics
Matches: 147, Mismatches: 13, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
57 147 1.00
ACGTcount: A:0.39, C:0.06, G:0.15, T:0.40
Consensus pattern (57 bp):
TATATGTTCTATGTGAATAAACGTTAATTTGAATAATGCTATGTGAAATATTATGCA
Found at i:972484 original size:27 final size:27
Alignment explanation
Indices: 972449--972541 Score: 82
Period size: 27 Copynumber: 3.3 Consensus size: 27
972439 TTGAATAAAG
972449 CTATGTGAAATATTATGCATATATGTT
1 CTATGTGAAATATTATGCATATATGTT
* ** *
972476 CTATGTGAATAAACATTAATTTAAATAATG--
1 CTATGTG---AAATATT-ATGCATAT-ATGTT
*
972506 CTATGTGAAATATTATGCATATATATT
1 CTATGTGAAATATTATGCATATATGTT
972533 CTATGTGAA
1 CTATGTGAA
972542 TAAACGTTAA
Statistics
Matches: 50, Mismatches: 9, Indels: 14
0.68 0.12 0.19
Matches are distributed among these distances:
25 2 0.04
26 5 0.10
27 22 0.44
30 13 0.26
31 5 0.10
32 3 0.06
ACGTcount: A:0.39, C:0.08, G:0.13, T:0.41
Consensus pattern (27 bp):
CTATGTGAAATATTATGCATATATGTT
Found at i:972749 original size:23 final size:23
Alignment explanation
Indices: 972709--972752 Score: 61
Period size: 23 Copynumber: 1.9 Consensus size: 23
972699 CTACGCGGTC
* * *
972709 CTTCGGGATAATTCTATGTGGTT
1 CTTCGGGACAAATATATGTGGTT
972732 CTTCGGGACAAATATATGTGG
1 CTTCGGGACAAATATATGTGG
972753 CACTTTGATG
Statistics
Matches: 18, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
23 18 1.00
ACGTcount: A:0.23, C:0.14, G:0.27, T:0.36
Consensus pattern (23 bp):
CTTCGGGACAAATATATGTGGTT
Found at i:972776 original size:24 final size:24
Alignment explanation
Indices: 972749--972797 Score: 62
Period size: 24 Copynumber: 2.0 Consensus size: 24
972739 ACAAATATAT
* *
972749 GTGGCACTTTGATGCATATTCTAC
1 GTGGCACTTCGATGCAAATTCTAC
* *
972773 GTGGTACTTCGGTGCAAATTCTAC
1 GTGGCACTTCGATGCAAATTCTAC
972797 G
1 G
972798 CGACAGTTTC
Statistics
Matches: 21, Mismatches: 4, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
24 21 1.00
ACGTcount: A:0.20, C:0.20, G:0.24, T:0.35
Consensus pattern (24 bp):
GTGGCACTTCGATGCAAATTCTAC
Found at i:978447 original size:14 final size:14
Alignment explanation
Indices: 978424--978461 Score: 51
Period size: 14 Copynumber: 2.7 Consensus size: 14
978414 TCTGTCTATA
*
978424 TGCAGAGATTT-TT
1 TGCAGGGATTTATT
978437 TCGCAGGGATTTATT
1 T-GCAGGGATTTATT
978452 TGCAGGGATT
1 TGCAGGGATT
978462 ACTTCCCATT
Statistics
Matches: 22, Mismatches: 1, Indels: 3
0.85 0.04 0.12
Matches are distributed among these distances:
13 1 0.05
14 18 0.82
15 3 0.14
ACGTcount: A:0.21, C:0.11, G:0.29, T:0.39
Consensus pattern (14 bp):
TGCAGGGATTTATT
Found at i:978743 original size:11 final size:11
Alignment explanation
Indices: 978729--978753 Score: 50
Period size: 11 Copynumber: 2.3 Consensus size: 11
978719 AATAATGATT
978729 TGGGTTTTAAA
1 TGGGTTTTAAA
978740 TGGGTTTTAAA
1 TGGGTTTTAAA
978751 TGG
1 TGG
978754 ATTGGACCGG
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 14 1.00
ACGTcount: A:0.24, C:0.00, G:0.32, T:0.44
Consensus pattern (11 bp):
TGGGTTTTAAA
Found at i:980627 original size:30 final size:29
Alignment explanation
Indices: 980591--980686 Score: 90
Period size: 30 Copynumber: 3.3 Consensus size: 29
980581 CATATATGTT
980591 CTATGTGAATAAAGGTTAATTTGAATAATC
1 CTATGTGAATAAA-GTTAATTTGAATAATC
* * * * *
980621 CTATGTGAA-ATA-TT-ATGTGTATATGTT
1 CTATGTGAATAAAGTTAATTTGAATA-ATC
*
980648 CTATGTGAATAAACGTTAATTTGAATAATG
1 CTATGTGAATAAA-GTTAATTTGAATAATC
980678 CTATGTGAA
1 CTATGTGAA
980687 ATATTATGCT
Statistics
Matches: 51, Mismatches: 10, Indels: 10
0.72 0.14 0.14
Matches are distributed among these distances:
26 7 0.14
27 12 0.24
28 2 0.04
29 2 0.04
30 21 0.41
31 7 0.14
ACGTcount: A:0.36, C:0.06, G:0.18, T:0.40
Consensus pattern (29 bp):
CTATGTGAATAAAGTTAATTTGAATAATC
Found at i:980652 original size:57 final size:57
Alignment explanation
Indices: 980583--980800 Score: 339
Period size: 57 Copynumber: 3.8 Consensus size: 57
980573 TTACTATGCA
* *
980583 TATATGTTCTATGTGAATAAAGGTTAATTTGAATAATCCTATGTGAAATATTATGTG
1 TATATGTTCTATGTGAATAAAAGTTAATTTGAATAATGCTATGTGAAATATTATGTG
*
980640 TATATGTTCTATGTGAATAAACGTTAATTTGAATAATGCTATGTGAAATATTATGCT-
1 TATATGTTCTATGTGAATAAAAGTTAATTTGAATAATGCTATGTGAAATATTATG-TG
* *
980697 TATATGTTCTATGTGAATAAAAGTTCATTTGAATAATGATATGTGAAATATTATGTG
1 TATATGTTCTATGTGAATAAAAGTTAATTTGAATAATGCTATGTGAAATATTATGTG
* ** *
980754 TATATGTTCTATGTGAATAAATGACAATTTGAATAAGGCTATGTGAA
1 TATATGTTCTATGTGAATAAAAGTTAATTTGAATAATGCTATGTGAA
980801 CACTTGTATA
Statistics
Matches: 148, Mismatches: 11, Indels: 4
0.91 0.07 0.02
Matches are distributed among these distances:
56 1 0.01
57 146 0.99
58 1 0.01
ACGTcount: A:0.36, C:0.06, G:0.17, T:0.41
Consensus pattern (57 bp):
TATATGTTCTATGTGAATAAAAGTTAATTTGAATAATGCTATGTGAAATATTATGTG
Found at i:980656 original size:27 final size:27
Alignment explanation
Indices: 980621--980770 Score: 103
Period size: 27 Copynumber: 5.3 Consensus size: 27
980611 TTGAATAATC
980621 CTATGTGAAATATTATGTGTATATGTT
1 CTATGTGAAATATTATGTGTATATGTT
* * *
980648 CTATGTGAATAAACGTTAATTTGAATAATG--
1 CTATGTGAA-ATA--TT-ATGTGTAT-ATGTT
980678 CTATGTGAAATATTATGCT-TATATGTT
1 CTATGTGAAATATTATG-TGTATATGTT
* * *
980705 CTATGTGAATAAAAGTTCATTTGAATAATG--
1 CTATGTG-A-AATA-TT-ATGTGTAT-ATGTT
*
980735 ATATGTGAAATATTATGTGTATATGTT
1 CTATGTGAAATATTATGTGTATATGTT
980762 CTATGTGAA
1 CTATGTGAA
980771 TAAATGACAA
Statistics
Matches: 93, Mismatches: 14, Indels: 32
0.67 0.10 0.23
Matches are distributed among these distances:
25 6 0.06
26 10 0.11
27 29 0.31
28 6 0.06
29 6 0.06
30 20 0.22
31 10 0.11
32 6 0.06
ACGTcount: A:0.35, C:0.05, G:0.17, T:0.43
Consensus pattern (27 bp):
CTATGTGAAATATTATGTGTATATGTT
Found at i:980930 original size:23 final size:22
Alignment explanation
Indices: 980874--980946 Score: 83
Period size: 23 Copynumber: 3.2 Consensus size: 22
980864 GAGTCGAGGG
980874 TTCTACGCGGTCCTTCGGACAA
1 TTCTACGCGGTCCTTCGGACAA
* * *
980896 TTCTATGTGGTCCTTTGGGACAA
1 TTCTACGCGGTCC-TTCGGACAA
*
980919 TTCTACGCGGTCTTTCTGGACAA
1 TTCTACGCGGTCCTTC-GGACAA
*
980942 ATCTA
1 TTCTA
980947 TATGGAACAT
Statistics
Matches: 41, Mismatches: 8, Indels: 3
0.79 0.15 0.06
Matches are distributed among these distances:
22 13 0.32
23 28 0.68
ACGTcount: A:0.19, C:0.25, G:0.22, T:0.34
Consensus pattern (22 bp):
TTCTACGCGGTCCTTCGGACAA
Found at i:989156 original size:24 final size:23
Alignment explanation
Indices: 989103--989157 Score: 60
Period size: 23 Copynumber: 2.4 Consensus size: 23
989093 GAGGTGAGCA
989103 GAGG-TGGCAGTGGTCCCCCTGG
1 GAGGCTGGCAGTGGTCCCCCTGG
* *
989125 GCA-ACTGGCAGTGGTCCATCCTGG
1 G-AGGCTGGCAGTGGTCC-CCCTGG
989149 GAGGCTGGC
1 GAGGCTGGC
989158 TGACTACCCG
Statistics
Matches: 26, Mismatches: 3, Indels: 6
0.74 0.09 0.17
Matches are distributed among these distances:
22 1 0.04
23 14 0.54
24 11 0.42
ACGTcount: A:0.13, C:0.27, G:0.42, T:0.18
Consensus pattern (23 bp):
GAGGCTGGCAGTGGTCCCCCTGG
Found at i:989214 original size:30 final size:29
Alignment explanation
Indices: 989180--989278 Score: 117
Period size: 30 Copynumber: 3.3 Consensus size: 29
989170 AAGATCAGGC
* * *
989180 TGCAGCAAGTCATGGTCCAAAAGAATCAGT
1 TGCAGC-AGTCACGATCCAGAAGAATCAGT
* *
989210 TGCAGCAGTTTACGATCCAGCAGAATCAGT
1 TGCAGCAG-TCACGATCCAGAAGAATCAGT
*
989240 TGCAGCAGGTCACGATCCAGTAGAATCAGT
1 TGCAGCA-GTCACGATCCAGAAGAATCAGT
989270 TGCAGCAGT
1 TGCAGCAGT
989279 GCATGGTCCC
Statistics
Matches: 60, Mismatches: 7, Indels: 5
0.83 0.10 0.07
Matches are distributed among these distances:
29 4 0.07
30 55 0.92
31 1 0.02
ACGTcount: A:0.31, C:0.22, G:0.25, T:0.21
Consensus pattern (29 bp):
TGCAGCAGTCACGATCCAGAAGAATCAGT
Found at i:989245 original size:15 final size:15
Alignment explanation
Indices: 989227--989277 Score: 50
Period size: 15 Copynumber: 3.4 Consensus size: 15
989217 GTTTACGATC
989227 CAGCAGAATCAGTTG
1 CAGCAGAATCAGTTG
* * *
989242 CAGCAG-GTCACGATC
1 CAGCAGAATCA-GTTG
*
989257 CAGTAGAATCAGTTG
1 CAGCAGAATCAGTTG
989272 CAGCAG
1 CAGCAG
989278 TGCATGGTCC
Statistics
Matches: 26, Mismatches: 8, Indels: 4
0.68 0.21 0.11
Matches are distributed among these distances:
14 3 0.12
15 20 0.77
16 3 0.12
ACGTcount: A:0.31, C:0.24, G:0.27, T:0.18
Consensus pattern (15 bp):
CAGCAGAATCAGTTG
Found at i:989583 original size:20 final size:20
Alignment explanation
Indices: 989554--989592 Score: 60
Period size: 20 Copynumber: 1.9 Consensus size: 20
989544 ATTCCACCAC
*
989554 ATGCAACTATATGCTCCTAA
1 ATGCAACTATATGATCCTAA
*
989574 ATGCATCTATATGATCCTA
1 ATGCAACTATATGATCCTA
989593 CATGGGCTCT
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
20 17 1.00
ACGTcount: A:0.33, C:0.23, G:0.10, T:0.33
Consensus pattern (20 bp):
ATGCAACTATATGATCCTAA
Found at i:991478 original size:10 final size:10
Alignment explanation
Indices: 991463--991501 Score: 60
Period size: 10 Copynumber: 3.8 Consensus size: 10
991453 TAAAATATAT
991463 TATATTTTAA
1 TATATTTTAA
*
991473 TATATTTATAT
1 TATATTT-TAA
991484 TATATTTTAA
1 TATATTTTAA
991494 TATATTTT
1 TATATTTT
991502 TATAATAATA
Statistics
Matches: 26, Mismatches: 2, Indels: 2
0.87 0.07 0.07
Matches are distributed among these distances:
10 17 0.65
11 9 0.35
ACGTcount: A:0.36, C:0.00, G:0.00, T:0.64
Consensus pattern (10 bp):
TATATTTTAA
Found at i:991498 original size:23 final size:21
Alignment explanation
Indices: 991458--991500 Score: 86
Period size: 21 Copynumber: 2.0 Consensus size: 21
991448 AATGATAAAA
991458 TATATTATATTTTAATATATT
1 TATATTATATTTTAATATATT
991479 TATATTATATTTTAATATATT
1 TATATTATATTTTAATATATT
991500 T
1 T
991501 TTATAATAAT
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
21 22 1.00
ACGTcount: A:0.37, C:0.00, G:0.00, T:0.63
Consensus pattern (21 bp):
TATATTATATTTTAATATATT
Found at i:991503 original size:23 final size:23
Alignment explanation
Indices: 991458--991522 Score: 82
Period size: 21 Copynumber: 2.9 Consensus size: 23
991448 AATGATAAAA
991458 TATATTATATTTTAATATA--TT
1 TATATTATATTTTAATATATTTT
991479 TATATTATATTTTAATATATTTT
1 TATATTATATTTTAATATATTTT
* *
991502 TATAATA-ATATTTAAAATATT
1 TATATTATAT-TTTAATATATT
991523 ACAATTTTAG
Statistics
Matches: 39, Mismatches: 2, Indels: 4
0.87 0.04 0.09
Matches are distributed among these distances:
21 19 0.49
22 2 0.05
23 18 0.46
ACGTcount: A:0.42, C:0.00, G:0.00, T:0.58
Consensus pattern (23 bp):
TATATTATATTTTAATATATTTT
Found at i:992411 original size:130 final size:130
Alignment explanation
Indices: 992173--992413 Score: 401
Period size: 130 Copynumber: 1.9 Consensus size: 130
992163 TATATCATAT
*
992173 TTTTTAAGAGAAATGCACTATACATTCTCAAAGTATGATCTTCATTTTAAATTGGTCCTCAAAGT
1 TTTTTAAGAGAAATGCACTATACATTCTCAAAGTATGATCCTCATTTTAAATTGGTCCTCAAAGT
* * **
992238 TTTGAATATTTTAATTTTATCCCTAAACTATGACTCTTTTTCTAAATTAGTCCCTAAAGTTAATA
66 TTTGAATATTTTAATCTTATCCCTAAACTATGAATCTCATTCTAAATTAGTCCCTAAAGTTAATA
* **
992303 TTTTTAAGAGAACTGCACTATACATTCTTTAAGTATGATCCTCATTTTAAATTGGTCCTCAAAGT
1 TTTTTAAGAGAAATGCACTATACATTCTCAAAGTATGATCCTCATTTTAAATTGGTCCTCAAAGT
*
992368 TTTGAATATTTTAATCTTATCCCTAAATTATGAATCTCATTCTAAA
66 TTTGAATATTTTAATCTTATCCCTAAACTATGAATCTCATTCTAAA
992414 AAAAGTCGAC
Statistics
Matches: 102, Mismatches: 9, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
130 102 1.00
ACGTcount: A:0.33, C:0.16, G:0.09, T:0.42
Consensus pattern (130 bp):
TTTTTAAGAGAAATGCACTATACATTCTCAAAGTATGATCCTCATTTTAAATTGGTCCTCAAAGT
TTTGAATATTTTAATCTTATCCCTAAACTATGAATCTCATTCTAAATTAGTCCCTAAAGTTAATA
Found at i:996430 original size:30 final size:30
Alignment explanation
Indices: 996396--996455 Score: 120
Period size: 30 Copynumber: 2.0 Consensus size: 30
996386 CGAACAAGAG
996396 AGCGAGAGTGAAAGAGGAAGATCAATGACA
1 AGCGAGAGTGAAAGAGGAAGATCAATGACA
996426 AGCGAGAGTGAAAGAGGAAGATCAATGACA
1 AGCGAGAGTGAAAGAGGAAGATCAATGACA
996456 TACCTACTGT
Statistics
Matches: 30, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
30 30 1.00
ACGTcount: A:0.47, C:0.10, G:0.33, T:0.10
Consensus pattern (30 bp):
AGCGAGAGTGAAAGAGGAAGATCAATGACA
Found at i:998216 original size:1 final size:1
Alignment explanation
Indices: 998205--998243 Score: 51
Period size: 1 Copynumber: 39.0 Consensus size: 1
998195 GACCCTGAAC
* * *
998205 AAAAAACAAAAAATAAAAATAAAAAAAAAAAAAAAAAAA
1 AAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAA
998244 CAATTTTGAA
Statistics
Matches: 32, Mismatches: 6, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
1 32 1.00
ACGTcount: A:0.92, C:0.03, G:0.00, T:0.05
Consensus pattern (1 bp):
A
Found at i:998371 original size:73 final size:71
Alignment explanation
Indices: 998294--998592 Score: 242
Period size: 73 Copynumber: 4.2 Consensus size: 71
998284 TTTTAAAAAC
998294 TATATATTATATGC-AT-TTTTCAAAAACTATATAATATTATATATA-TTTTCAAAATGTTTCAA
1 TATATATTATATGCAATGTTTT-AAAAAC--TAT-ATATTATAT-TAGTTTTCAAAATGTTTCAA
998356 AAACTATATAA
61 AAACTATATAA
* * *
998367 TATATA-TATTTTCAAAAATGTTTTAAAAACTATATATTATATTAGTTTTCAAAATGTTTTAAAA
1 TATATATTATATGC---AATGTTTTAAAAACTATATATTATATTAGTTTTCAAAATGTTTCAAAA
998431 ACTATATAA
63 ACTATATAA
** * *
998440 TATATATTCA-A-AAAATGTTTTAAAAA--ATAT-TTATATTAGTTTTCAAAATTTTTAAAAAAC
1 TATATATT-ATATGCAATGTTTTAAAAACTATATATTATATTAGTTTTCAAAATGTTTCAAAAAC
998500 TATATAA
65 TATATAA
* * * * * ** * *
998507 TATATAAATGTTTCCAACATGCTTGTCGAAACTATATATTATA-TA-TTTTAAAAATGTTTCCAA
1 TATAT-ATTATATGC-A-ATG-TTTTAAAAACTATATATTATATTAGTTTTCAAAATGTTTCAAA
*
998570 AACTATATAC
62 AACTATATAA
998580 TATATATATATAT
1 TATATAT-TATAT
998593 AAATGGGACG
Statistics
Matches: 184, Mismatches: 24, Indels: 36
0.75 0.10 0.15
Matches are distributed among these distances:
67 40 0.22
68 6 0.03
70 14 0.08
71 3 0.02
72 14 0.08
73 79 0.43
74 10 0.05
75 6 0.03
76 8 0.04
77 4 0.02
ACGTcount: A:0.45, C:0.08, G:0.04, T:0.43
Consensus pattern (71 bp):
TATATATTATATGCAATGTTTTAAAAACTATATATTATATTAGTTTTCAAAATGTTTCAAAAACT
ATATAA
Found at i:998378 original size:36 final size:36
Alignment explanation
Indices: 998311--998588 Score: 252
Period size: 36 Copynumber: 7.7 Consensus size: 36
998301 TATATGCATT
998311 TTTCAAAAACTATATAATATTATATATATTTTCAAAATG
1 TTTCAAAAACTATAT-A-A-TATATATATTTTCAAAATG
998350 TTTCAAAAACTATATAATATATATATTTTCAAAAATG
1 TTTCAAAAACTATATAATATATATATTTTC-AAAATG
* *
998387 TTTTAAAAACTATATATTATAT-TAGTTTTCAAAATG
1 TTTCAAAAACTATATAATATATATA-TTTTCAAAATG
* ***
998423 TTTTAAAAACTATAT-A-ATATATATTCAAAAAATG
1 TTTCAAAAACTATATAATATATATATTTTCAAAATG
* * *
998457 TTTTAAAAA--ATAT-TTATAT-TAGTTTTCAAAATT
1 TTTCAAAAACTATATAATATATATA-TTTTCAAAATG
* * *
998490 TTTAAAAAACTATATAATATATAAATGTTTCCAACATG
1 TTTCAAAAACTATATAATATATATAT-TTT-CAAAATG
* *
998528 CTTGTC-GAAACTATAT-AT-TATATATTTTAAAAATG
1 -TT-TCAAAAACTATATAATATATATATTTTCAAAATG
* *
998563 TTTCCAAAACTATATACTATATATAT
1 TTTCAAAAACTATATAATATATATAT
998589 ATATAAATGG
Statistics
Matches: 200, Mismatches: 23, Indels: 35
0.78 0.09 0.14
Matches are distributed among these distances:
32 6 0.03
33 21 0.10
34 32 0.16
35 12 0.06
36 52 0.26
37 42 0.21
38 8 0.04
39 26 0.13
40 1 0.00
ACGTcount: A:0.45, C:0.08, G:0.04, T:0.43
Consensus pattern (36 bp):
TTTCAAAAACTATATAATATATATATTTTCAAAATG
Found at i:998504 original size:140 final size:139
Alignment explanation
Indices: 998326--998586 Score: 357
Period size: 140 Copynumber: 1.9 Consensus size: 139
998316 AAAACTATAT
* *
998326 AATATTATATATATTTTCAAAATGTTTCAAAAACTATATAATATATATAT-TTTCAAAAATG-TT
1 AATATTATATATATTTTCAAAATGTTTAAAAAACTATATAATATATAAATGTTTCAAAAATGCTT
* * *
998389 TTAAAAACTATATATTATATTAGTTTTCAAAATGTTTTAAAAACTATATAATATATATTCAAAAA
66 GTAAAAACTATATATTATA-TA-TTTTAAAAATGTTTCAAAAACTATATAATATATATTCAAAAA
998454 ATGTTTTAAAA
129 ATGTTTTAAAA
* * *
998465 AATATT-TATATTAGTTTTCAAAATTTTTAAAAAACTATATAATATATAAATGTTTCCAACATGC
1 AATATTATATA-TA-TTTTCAAAATGTTTAAAAAACTATATAATATATAAATGTTTCAAAAATGC
** * *
998529 TTGTCGAAACTATATATTATATATTTTAAAAATGTTTCCAAAACTATATACTATATAT
64 TTGTAAAAACTATATATTATATATTTTAAAAATGTTTCAAAAACTATATAATATATAT
998587 ATATATAAAT
Statistics
Matches: 106, Mismatches: 12, Indels: 7
0.85 0.10 0.06
Matches are distributed among these distances:
138 4 0.04
139 8 0.08
140 65 0.61
141 11 0.10
142 18 0.17
ACGTcount: A:0.45, C:0.08, G:0.04, T:0.43
Consensus pattern (139 bp):
AATATTATATATATTTTCAAAATGTTTAAAAAACTATATAATATATAAATGTTTCAAAAATGCTT
GTAAAAACTATATATTATATATTTTAAAAATGTTTCAAAAACTATATAATATATATTCAAAAAAT
GTTTTAAAA
Found at i:999582 original size:326 final size:321
Alignment explanation
Indices: 999169--999966 Score: 880
Period size: 326 Copynumber: 2.4 Consensus size: 321
999159 GAGCTGAGTT
*
999169 TAATCGAACTCGAAGGTCTTCGGTTGGCAGATAACCCTTCTCGACTTAAGCTATACTGCAAATGA
1 TAATCGAACTCGAAGGTCTT--ATTGGCAGATAACCCTTCTCGACTTAAGCTATA-TGCAAATGA
999234 TGTGCCTTGGAGCTGAGCGTAGTCGAACTCGAAGGTCTTTTGGTGACAGATAAACCTTCTAGCCT
63 TGTGCCTTGGAGCTGAGCGTAGTCGAACTCGAAGGTC-TTTGGTGACAGATAAACCTTCTAG-CT
* * * * * *
999299 TGAGTTATGTTGTAAATGATGTGCCCTCGAAGCTGAGTGTAATCG-ACTCGAAAGGTCTTTGG-C
126 TGAGTTATGCTGCAAATGATATGCCCTAG-AGCTAAGCGTAATCGAACTC-AAAGGTCTTTGGAC
* * * * *
999362 AGATAGCCCTTCTCGACTTAAGCTATGCTGCAAATGATGCA-CCTTGGAGCTGAGCGTAGTCAAA
189 AGATA-ACCTTCTAG-CTTAAG-TATACTGCAAATGATGCACCCTCGAAGCTGAGCGTAGTCAAA
* * * * *
999426 CTCGACGGTCTTTTGGTGACAGA-A-CCCTTCT-AGACTTGAGTTATGCTGTAAATGATGTTC-C
251 CTCGACGGTC-TTT-G-GA-AGATAGCCCGTCTCA-AC-TAAGCTATGCTGCAAATGA--TACGC
*
999487 CTCGAAGCTGAATG
308 CTCGAAGCTGAACG
* *
999501 TAATCGAACTC-AGGGTC-T-TTGGCACATAACCCTTCTCGACTTAAGCTATATGCAAATGATGT
1 TAATCGAACTCGAAGGTCTTATTGGCAGATAACCCTTCTCGACTTAAGCTATATGCAAATGATGT
* * * * *
999563 GCCTTGAAGCTGAGCGTAGTCGAACTCGAAGGTCTTTGTTTGGCAGAT-AACCTTCTCGACTTAA
66 GCCTTGGAGCTGAGCGTAGTCGAACTCGAAGGTCTTTG-GTGACAGATAAACCTTCTAG-CTTGA
* * * *
999627 GTTATGCTGCAAATGATATGCCTTAGAGCTAAGCGTAGTTGAACTCTAAGGTCTTTGGTAACAGA
129 GTTATGCTGCAAATGATATGCCCTAGAGCTAAGCGTAATCGAACTCAAAGGTCTTTGG--ACAGA
* * * * * *
999692 TAACCTTCTAGCTTGAGTTTACTGTAAATGATGTACCCTCGAAGCTGAGCGTAGTCGAACTCGAG
192 TAACCTTCTAGCTTAAGTATACTGCAAATGATGCACCCTCGAAGCTGAGCGTAGTCAAACTCGAC
* * *
999757 GGTCTTTGGAAGATAGCCCGTCTCAACTAAGCTATGCTGCAAATGATACGCCTTGGAGCTGAGCG
257 GGTCTTTGGAAGATAGCCCGTCTCAACTAAGCTATGCTGCAAATGATACGCCTCGAAGCTGAACG
* * * * * * *
999822 TAGTCGAACTCGAAGGTCTTTAGTTGGTAGATAACCCTTCTCGATTTAAGTTATGTGTATATGAT
1 TAATCGAACTCGAAGGTC-TTA-TTGGCAGATAACCCTTCTCGACTTAAGCTATATGCAAATGAT
* *
999887 ATGCCTTGGAGCTGAGCGTAGTCGAACTCGAAGGTCTTTGGTGACAGATAACCCTTCTAGCTTGA
64 GTGCCTTGGAGCTGAGCGTAGTCGAACTCGAAGGTCTTTGGTGACAGATAAACCTTCTAGCTTGA
999952 GTTATGCTGCAAATG
129 GTTATGCTGCAAATG
999967 TTGTCTTAAA
Statistics
Matches: 396, Mismatches: 54, Indels: 39
0.81 0.11 0.08
Matches are distributed among these distances:
320 2 0.01
321 24 0.06
322 24 0.06
323 9 0.02
324 41 0.10
325 102 0.26
326 140 0.35
327 37 0.09
330 1 0.00
331 5 0.01
332 11 0.03
ACGTcount: A:0.26, C:0.20, G:0.24, T:0.30
Consensus pattern (321 bp):
TAATCGAACTCGAAGGTCTTATTGGCAGATAACCCTTCTCGACTTAAGCTATATGCAAATGATGT
GCCTTGGAGCTGAGCGTAGTCGAACTCGAAGGTCTTTGGTGACAGATAAACCTTCTAGCTTGAGT
TATGCTGCAAATGATATGCCCTAGAGCTAAGCGTAATCGAACTCAAAGGTCTTTGGACAGATAAC
CTTCTAGCTTAAGTATACTGCAAATGATGCACCCTCGAAGCTGAGCGTAGTCAAACTCGACGGTC
TTTGGAAGATAGCCCGTCTCAACTAAGCTATGCTGCAAATGATACGCCTCGAAGCTGAACG
Found at i:999638 original size:83 final size:82
Alignment explanation
Indices: 999172--999966 Score: 656
Period size: 83 Copynumber: 9.7 Consensus size: 82
999162 CTGAGTTTAA
** * *
999172 TCGAACTCGAAGGTCTTCGGTTGGCAGATAACCCTTCTCGACTTAAGCTATACTGCAAATGATGT
1 TCGAACTCGAAGGTCTT-TTTTGGCAGATAA-CCTTCTCGACTTAAGTTATGCTGCAAATGATGT
*
999237 GCCTTGGAGCTGAGCGTAG
64 GCCTTGAAGCTGAGCGTAG
* * * * * * *
999256 TCGAACTCGAAGGTCTTTTGGTGACAGATAAACCTTCTAGCCTTGAGTTATGTTGTAAATGATGT
1 TCGAACTCGAAGGTCTTTT-TTGGCAGAT-AACCTTCTCGACTTAAGTTATGCTGCAAATGATGT
* * *
999321 GCCCTCGAAGCTGAGTGTAA
64 G-CCTTGAAGCTGAGCGTAG
* * *
999341 TCG-ACTCGAAAGGTC---TTTGGCAGATAGCCCTTCTCGACTTAAGCTATGCTGCAAATGATGC
1 TCGAACTCG-AAGGTCTTTTTTGGCAGATA-ACCTTCTCGACTTAAGTTATGCTGCAAATGATGT
* *
999402 ACCTTGGAGCTGAGCGTAG
64 GCCTTGAAGCTGAGCGTAG
* * * * * * * *
999421 TCAAACTCGACGGTCTTTTGGTGACAGA-ACCCTTCTAGACTTGAGTTATGCTGTAAATGATGTT
1 TCGAACTCGAAGGTCTTTT-TTGGCAGATAACCTTCTCGACTTAAGTTATGCTGCAAATGATG-T
* * ** *
999485 CCCTCGAAGCTGAATGTAA
64 GCCTTGAAGCTGAGCGTAG
* * * *
999504 TCGAACTC-AGGGTC---TTTGGCACATAACCCTTCTCGACTTAAGCTAT-ATGCAAATGATGTG
1 TCGAACTCGAAGGTCTTTTTTGGCAGATAA-CCTTCTCGACTTAAGTTATGCTGCAAATGATGTG
999564 CCTTGAAGCTGAGCGTAG
65 CCTTGAAGCTGAGCGTAG
*
999582 TCGAACTCGAAGGTCTTTGTTTGGCAGATAACCTTCTCGACTTAAGTTATGCTGCAAATGATATG
1 TCGAACTCGAAGGTCTTT-TTTGGCAGATAACCTTCTCGACTTAAGTTATGCTGCAAATGATGTG
*
999647 CCTT-AGAGCTAAGCGTAG
65 CCTTGA-AGCTGAGCGTAG
* * ** ** * * * * *
999665 TTGAACTCTAAGGTCTTTGGTAACAGATAACCTTCTAG-CTTGAGTT-TACTGTAAATGATGTAC
1 TCGAACTCGAAGGTCTTTTTTGGCAGATAACCTTCTCGACTTAAGTTATGCTGCAAATGATGT-G
*
999728 CCTCGAAGCTGAGCGTAG
65 CCTTGAAGCTGAGCGTAG
* * * * * * **
999746 TCGAACTCGAGGGTC---TTTGGAAGATAGCCCGTCTCAAC-TAAGCTATGCTGCAAATGATACG
1 TCGAACTCGAAGGTCTTTTTTGGCAGATA-ACCTTCTCGACTTAAGTTATGCTGCAAATGATGTG
*
999807 CCTTGGAGCTGAGCGTAG
65 CCTTGAAGCTGAGCGTAG
* * * * * *
999825 TCGAACTCGAAGGTCTTTAGTTGGTAGATAACCCTTCTCGATTTAAGTTATG-TGTATATGATAT
1 TCGAACTCGAAGGTCTTT-TTTGGCAGATAA-CCTTCTCGACTTAAGTTATGCTGCAAATGATGT
*
999889 GCCTTGGAGCTGAGCGTAG
64 GCCTTGAAGCTGAGCGTAG
** * * *
999908 TCGAACTCGAAGGTCTTTGGTGACAGATAACCCTTCTAG-CTTGAGTTATGCTGCAAATG
1 TCGAACTCGAAGGTCTTTTTTGGCAGATAA-CCTTCTCGACTTAAGTTATGCTGCAAATG
999967 TTGTCTTAAA
Statistics
Matches: 558, Mismatches: 121, Indels: 66
0.75 0.16 0.09
Matches are distributed among these distances:
78 34 0.06
79 56 0.10
80 62 0.11
81 80 0.14
82 93 0.17
83 138 0.25
84 70 0.13
85 25 0.04
ACGTcount: A:0.25, C:0.20, G:0.24, T:0.30
Consensus pattern (82 bp):
TCGAACTCGAAGGTCTTTTTTGGCAGATAACCTTCTCGACTTAAGTTATGCTGCAAATGATGTGC
CTTGAAGCTGAGCGTAG
Found at i:999836 original size:243 final size:244
Alignment explanation
Indices: 999356--999966 Score: 820
Period size: 243 Copynumber: 2.5 Consensus size: 244
999346 TCGAAAGGTC
* * ***
999356 TTTGGCAGATAGCCCTTCTCGACTTAAGCTATGCTGCAAATGATGCACCTTGGAGCTGAGCGTAG
1 TTTGGCAGATA-ACCTTCTCGACTTAAGTTATGCTGCAAATGATATGCCTTGGAGCTGAGCGTAG
* * * * *
999421 TCAAACTCGACGGTCTTTTGGTGACAGA-ACCCTTCTAGACTTGAGTTATGCTGTAAATGATGTT
65 TCGAACTCGAAGGTC-TTTGGTGACAGATAACCTTCTAG-CTTGAGTTATACTGTAAATGATGTA
* * * *
999485 CCCTCGAAGCTGAATGTAATCGAACTCAGGGTCTTTGGCACATAACCCTTCTCGACTTAAGCTAT
128 CCCTCGAAGCTGAACGTAATCGAACTCAGGGTCTTTGGAACATAACCCGTCTCAACTTAAGCTAT
**
999550 ATGCAAATGATGTGCCTTGAAGCTGAGCGTAGTCGAACTCGAAGGTCTTT-G
193 ATGCAAATGATACGCCTTGAAGCTGAGCGTAGTCGAACTCGAAGGTCTTTAG
* *
999601 TTTGGCAGATAACCTTCTCGACTTAAGTTATGCTGCAAATGATATGCCTTAGAGCTAAGCGTAGT
1 TTTGGCAGATAACCTTCTCGACTTAAGTTATGCTGCAAATGATATGCCTTGGAGCTGAGCGTAGT
* * *
999666 TGAACTCTAAGGTCTTTGGTAACAGATAACCTTCTAGCTTGAGTT-TACTGTAAATGATGTACCC
66 CGAACTCGAAGGTCTTTGGTGACAGATAACCTTCTAGCTTGAGTTATACTGTAAATGATGTACCC
* * * * *
999730 TCGAAGCTGAGCGTAGTCGAACTCGAGGGTCTTTGGAAGATAGCCCGTCTCAAC-TAAGCTATGC
131 TCGAAGCTGAACGTAATCGAACTC-AGGGTCTTTGGAACATAACCCGTCTCAACTTAAGCTAT-A
*
999794 TGCAAATGATACGCCTTGGAGCTGAGCGTAGTCGAACTCGAAGGTCTTTAG
194 TGCAAATGATACGCCTTGAAGCTGAGCGTAGTCGAACTCGAAGGTCTTTAG
* * * *
999845 -TTGGTAGATAACCCTTCTCGATTTAAGTTATG-TGTATATGATATGCCTTGGAGCTGAGCGTAG
1 TTTGGCAGATAA-CCTTCTCGACTTAAGTTATGCTGCAAATGATATGCCTTGGAGCTGAGCGTAG
* *
999908 TCGAACTCGAAGGTCTTTGGTGACAGATAACCCTTCTAGCTTGAGTTATGCTGCAAATG
65 TCGAACTCGAAGGTCTTTGGTGACAGATAA-CCTTCTAGCTTGAGTTATACTGTAAATG
999967 TTGTCTTAAA
Statistics
Matches: 321, Mismatches: 38, Indels: 14
0.86 0.10 0.04
Matches are distributed among these distances:
242 46 0.14
243 153 0.48
244 102 0.32
245 20 0.06
ACGTcount: A:0.26, C:0.20, G:0.24, T:0.30
Consensus pattern (244 bp):
TTTGGCAGATAACCTTCTCGACTTAAGTTATGCTGCAAATGATATGCCTTGGAGCTGAGCGTAGT
CGAACTCGAAGGTCTTTGGTGACAGATAACCTTCTAGCTTGAGTTATACTGTAAATGATGTACCC
TCGAAGCTGAACGTAATCGAACTCAGGGTCTTTGGAACATAACCCGTCTCAACTTAAGCTATATG
CAAATGATACGCCTTGAAGCTGAGCGTAGTCGAACTCGAAGGTCTTTAG
Found at i:1001271 original size:90 final size:90
Alignment explanation
Indices: 1001125--1001289 Score: 228
Period size: 90 Copynumber: 1.8 Consensus size: 90
1001115 TAAGGTTAGC
* * * *
1001125 TGAATCTTATCCATAAAGTCGGGGCGTTTAACCAATTGCCTTAGAGGGACAGCTCAAGCTTTATT
1 TGAATATTATCCATAAAGCCAGGGCGTTTAACCAATTGCCTTAGAGGGACAACTCAAGC-TTATT
1001190 G-TATAGTATAAACCTTATCAGCTAGA
65 GTTATA-TATAAACCTTATCAGCTAGA
* *
1001216 TGAATATTTTCCATAAAGCCAGGGCG-TTAACCACTTG-CTCTAGAGGGACAACTCAAGCTTATT
1 TGAATATTATCCATAAAGCCAGGGCGTTTAACCAATTGCCT-TAGAGGGACAACTCAAGCTTATT
1001279 GTTATATATAA
65 GTTATATATAA
1001290 TATTATATTT
Statistics
Matches: 66, Mismatches: 6, Indels: 6
0.85 0.08 0.08
Matches are distributed among these distances:
89 13 0.20
90 31 0.47
91 22 0.33
ACGTcount: A:0.32, C:0.19, G:0.19, T:0.31
Consensus pattern (90 bp):
TGAATATTATCCATAAAGCCAGGGCGTTTAACCAATTGCCTTAGAGGGACAACTCAAGCTTATTG
TTATATATAAACCTTATCAGCTAGA
Found at i:1004934 original size:14 final size:13
Alignment explanation
Indices: 1004913--1004946 Score: 50
Period size: 14 Copynumber: 2.5 Consensus size: 13
1004903 ATAAATAAAT
1004913 AAAAATAAAAGGA
1 AAAAATAAAAGGA
*
1004926 AAAACATAAAATGA
1 AAAA-ATAAAAGGA
1004940 AAAAATA
1 AAAAATA
1004947 TAATAATAAT
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
13 7 0.37
14 12 0.63
ACGTcount: A:0.76, C:0.03, G:0.09, T:0.12
Consensus pattern (13 bp):
AAAAATAAAAGGA
Found at i:1005014 original size:23 final size:24
Alignment explanation
Indices: 1004964--1005035 Score: 94
Period size: 24 Copynumber: 3.0 Consensus size: 24
1004954 AATGAAAATG
*
1004964 AATCAAAGAAAA-AAAGAAATAAAAA
1 AATCAAAGAAAATAAA-TAA-AAAAA
*
1004989 AATCAAAG-AAATAGATAAAAAAA
1 AATCAAAGAAAATAAATAAAAAAA
1005012 AATCAAAGAAAATAAATAAAAAAA
1 AATCAAAGAAAATAAATAAAAAAA
1005036 TAAATTAAAA
Statistics
Matches: 42, Mismatches: 3, Indels: 5
0.84 0.06 0.10
Matches are distributed among these distances:
23 13 0.31
24 19 0.45
25 10 0.24
ACGTcount: A:0.78, C:0.04, G:0.07, T:0.11
Consensus pattern (24 bp):
AATCAAAGAAAATAAATAAAAAAA
Found at i:1005045 original size:22 final size:22
Alignment explanation
Indices: 1004975--1005054 Score: 83
Period size: 22 Copynumber: 3.6 Consensus size: 22
1004965 ATCAAAGAAA
*
1004975 AAAAGAAATAAAAAAATCAAAG
1 AAAAGAAAGAAAAAAATCAAAG
1004997 AAATAGATAA-AAAAAAATCAAAG
1 AAA-AGA-AAGAAAAAAATCAAAG
* * *
1005020 AAAATAAATAAAAAAAT-AAATT
1 AAAAGAAAGAAAAAAATCAAA-G
1005042 AAAAGAAAGAAAA
1 AAAAGAAAGAAAA
1005055 CGATGAAGAA
Statistics
Matches: 50, Mismatches: 4, Indels: 8
0.81 0.06 0.13
Matches are distributed among these distances:
21 5 0.10
22 24 0.48
23 19 0.38
24 2 0.04
ACGTcount: A:0.78, C:0.03, G:0.07, T:0.12
Consensus pattern (22 bp):
AAAAGAAAGAAAAAAATCAAAG
Found at i:1005145 original size:26 final size:26
Alignment explanation
Indices: 1005116--1005189 Score: 66
Period size: 26 Copynumber: 2.9 Consensus size: 26
1005106 AAAATGGAAA
*
1005116 CAATATGAAGTAAAATA-AATAATACT
1 CAATAT-AAGTAAAACATAATAATACT
* *
1005142 CAATATAATTAAAACATAATAATAAT
1 CAATATAAGTAAAACATAATAATACT
*
1005168 -AATAATAA-TAATA-ATAATAATA
1 CAAT-ATAAGTAAAACATAATAATA
1005190 ATAATAATAA
Statistics
Matches: 42, Mismatches: 4, Indels: 6
0.81 0.08 0.12
Matches are distributed among these distances:
24 9 0.21
25 15 0.36
26 18 0.43
ACGTcount: A:0.62, C:0.05, G:0.03, T:0.30
Consensus pattern (26 bp):
CAATATAAGTAAAACATAATAATACT
Found at i:1005165 original size:3 final size:3
Alignment explanation
Indices: 1005157--1005204 Score: 89
Period size: 3 Copynumber: 16.3 Consensus size: 3
1005147 TAATTAAAAC
1005157 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA A-A ATA
1 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA
1005204 A
1 A
1005205 GAATTTAGGT
Statistics
Matches: 44, Mismatches: 0, Indels: 2
0.96 0.00 0.04
Matches are distributed among these distances:
2 2 0.05
3 42 0.95
ACGTcount: A:0.69, C:0.00, G:0.00, T:0.31
Consensus pattern (3 bp):
ATA
Found at i:1013953 original size:32 final size:32
Alignment explanation
Indices: 1013881--1013956 Score: 84
Period size: 32 Copynumber: 2.4 Consensus size: 32
1013871 TCAGATTTGT
* * *
1013881 ATTTAGATAATACACAGTATGTTAAGGTCTGC
1 ATTTAGATAATGCACAGAATGTTAAGGTCTAC
*
1013913 ATTCAGATAATGCACATGAATG-TAAGTGTC-AC
1 ATTTAGATAATGCACA-GAATGTTAAG-GTCTAC
1013945 ATTTAGATAATG
1 ATTTAGATAATG
1013957 TGTGGTAGTT
Statistics
Matches: 37, Mismatches: 5, Indels: 4
0.80 0.11 0.09
Matches are distributed among these distances:
32 30 0.81
33 7 0.19
ACGTcount: A:0.37, C:0.12, G:0.18, T:0.33
Consensus pattern (32 bp):
ATTTAGATAATGCACAGAATGTTAAGGTCTAC
Found at i:1016245 original size:20 final size:20
Alignment explanation
Indices: 1016208--1016270 Score: 81
Period size: 20 Copynumber: 3.1 Consensus size: 20
1016198 GAAAACATCG
*
1016208 AAGGGATCGATCCTTTTTCAT
1 AAGGGATCGATCC-TTTTCAA
* *
1016229 AGGGGATCGATCCTTTTGAA
1 AAGGGATCGATCCTTTTCAA
*
1016249 AAGGGATCGATCCTTTACAA
1 AAGGGATCGATCCTTTTCAA
1016269 AA
1 AA
1016271 CAGAAACTTT
Statistics
Matches: 36, Mismatches: 6, Indels: 1
0.84 0.14 0.02
Matches are distributed among these distances:
20 24 0.67
21 12 0.33
ACGTcount: A:0.30, C:0.17, G:0.22, T:0.30
Consensus pattern (20 bp):
AAGGGATCGATCCTTTTCAA
Found at i:1017291 original size:21 final size:21
Alignment explanation
Indices: 1017238--1017291 Score: 90
Period size: 21 Copynumber: 2.5 Consensus size: 21
1017228 CTTTTGTTCA
*
1017238 AAACACAACTCACTCATTGGAT
1 AAACA-AACTCCCTCATTGGAT
1017260 AAACAAACTCCCTCATTGGAT
1 AAACAAACTCCCTCATTGGAT
1017281 AAACAAACTCC
1 AAACAAACTCC
1017292 ATACAACTCC
Statistics
Matches: 31, Mismatches: 1, Indels: 1
0.94 0.03 0.03
Matches are distributed among these distances:
21 26 0.84
22 5 0.16
ACGTcount: A:0.43, C:0.30, G:0.07, T:0.20
Consensus pattern (21 bp):
AAACAAACTCCCTCATTGGAT
Found at i:1019221 original size:22 final size:22
Alignment explanation
Indices: 1019193--1019246 Score: 99
Period size: 22 Copynumber: 2.5 Consensus size: 22
1019183 TTAGTGGACA
1019193 TATGTATTCATAGGACCTTACT
1 TATGTATTCATAGGACCTTACT
*
1019215 TATGTATTCATAGGACCTTATT
1 TATGTATTCATAGGACCTTACT
1019237 TATGTATTCA
1 TATGTATTCA
1019247 GTGTATTAAA
Statistics
Matches: 31, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
22 31 1.00
ACGTcount: A:0.28, C:0.15, G:0.13, T:0.44
Consensus pattern (22 bp):
TATGTATTCATAGGACCTTACT
Found at i:1021958 original size:31 final size:31
Alignment explanation
Indices: 1021920--1021990 Score: 97
Period size: 31 Copynumber: 2.3 Consensus size: 31
1021910 AATTTCAAAA
* * **
1021920 ATAACAAATCCATTATTAACGTTATTGATTT
1 ATAACAAATCCATAATTAACATTATCAATTT
*
1021951 ATAACAAATCTATAATTAACATTATCAATTT
1 ATAACAAATCCATAATTAACATTATCAATTT
1021982 ATAACAAAT
1 ATAACAAAT
1021991 TGATCACTCA
Statistics
Matches: 35, Mismatches: 5, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
31 35 1.00
ACGTcount: A:0.46, C:0.13, G:0.03, T:0.38
Consensus pattern (31 bp):
ATAACAAATCCATAATTAACATTATCAATTT
Found at i:1022285 original size:11 final size:12
Alignment explanation
Indices: 1022259--1022308 Score: 66
Period size: 12 Copynumber: 4.2 Consensus size: 12
1022249 TTTAAATGGA
1022259 TATTGGGCCGGG
1 TATTGGGCCGGG
*
1022271 TATTGGGTC-GG
1 TATTGGGCCGGG
1022282 TATTGGGCCGGG
1 TATTGGGCCGGG
* *
1022294 AATCGGGCCGGG
1 TATTGGGCCGGG
1022306 TAT
1 TAT
1022309 ATATATATTT
Statistics
Matches: 32, Mismatches: 5, Indels: 2
0.82 0.13 0.05
Matches are distributed among these distances:
11 10 0.31
12 22 0.69
ACGTcount: A:0.12, C:0.16, G:0.46, T:0.26
Consensus pattern (12 bp):
TATTGGGCCGGG
Found at i:1022364 original size:24 final size:25
Alignment explanation
Indices: 1022308--1022364 Score: 66
Period size: 24 Copynumber: 2.3 Consensus size: 25
1022298 GGGCCGGGTA
1022308 TATATATATTTAAATTAAATATATAT
1 TATAT-TATTTAAATTAAATATATAT
*
1022334 T-TTTTATTTAAATTAAAT-T-TAT
1 TATATTATTTAAATTAAATATATAT
1022356 TAATATTAT
1 T-ATATTAT
1022365 ATATATATAT
Statistics
Matches: 27, Mismatches: 2, Indels: 6
0.77 0.06 0.17
Matches are distributed among these distances:
22 4 0.15
23 1 0.04
24 19 0.70
25 2 0.07
26 1 0.04
ACGTcount: A:0.44, C:0.00, G:0.00, T:0.56
Consensus pattern (25 bp):
TATATTATTTAAATTAAATATATAT
Found at i:1023268 original size:30 final size:30
Alignment explanation
Indices: 1023232--1023303 Score: 126
Period size: 30 Copynumber: 2.4 Consensus size: 30
1023222 CAAAAGTAAC
*
1023232 AAATCGGTCACTACATTATCGATTTATAAT
1 AAATCGGTCACTACAATATCGATTTATAAT
1023262 AAATCGGTCACTACAATATCGATTTATAAT
1 AAATCGGTCACTACAATATCGATTTATAAT
*
1023292 AAATCAGTCACT
1 AAATCGGTCACT
1023304 CACCATTAAC
Statistics
Matches: 40, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
30 40 1.00
ACGTcount: A:0.39, C:0.18, G:0.10, T:0.33
Consensus pattern (30 bp):
AAATCGGTCACTACAATATCGATTTATAAT
Found at i:1023988 original size:38 final size:38
Alignment explanation
Indices: 1023944--1024019 Score: 134
Period size: 38 Copynumber: 2.0 Consensus size: 38
1023934 TCGGGCCGAG
1023944 TTTTTTAAGTGTGATATTCGGGTCGAGTCAGGTCGGGT
1 TTTTTTAAGTGTGATATTCGGGTCGAGTCAGGTCGGGT
* *
1023982 TTTTTTAAGTGTGATATTCGGGTCGGGTCGGGTCGGGT
1 TTTTTTAAGTGTGATATTCGGGTCGAGTCAGGTCGGGT
1024020 CGGGGTTCAG
Statistics
Matches: 36, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
38 36 1.00
ACGTcount: A:0.13, C:0.11, G:0.37, T:0.39
Consensus pattern (38 bp):
TTTTTTAAGTGTGATATTCGGGTCGAGTCAGGTCGGGT
Found at i:1024009 original size:5 final size:5
Alignment explanation
Indices: 1023999--1024023 Score: 50
Period size: 5 Copynumber: 5.0 Consensus size: 5
1023989 AGTGTGATAT
1023999 TCGGG TCGGG TCGGG TCGGG TCGGG
1 TCGGG TCGGG TCGGG TCGGG TCGGG
1024024 GTTCAGGTTT
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
5 20 1.00
ACGTcount: A:0.00, C:0.20, G:0.60, T:0.20
Consensus pattern (5 bp):
TCGGG
Found at i:1024189 original size:37 final size:39
Alignment explanation
Indices: 1024143--1024221 Score: 126
Period size: 38 Copynumber: 2.1 Consensus size: 39
1024133 TGTTCGGGTC
1024143 GGTCGGG-TTTTTTAAGTGTGACATTCGGGTCGAG-TCG
1 GGTCGGGTTTTTTTAAGTGTGACATTCGGGTCGAGTTCG
* *
1024180 GGTCGGGTTTTTTTAAGTGTGATATTCGGGTCGGGTTCG
1 GGTCGGGTTTTTTTAAGTGTGACATTCGGGTCGAGTTCG
1024219 GGT
1 GGT
1024222 TTAGAGTGAA
Statistics
Matches: 38, Mismatches: 2, Indels: 2
0.90 0.05 0.05
Matches are distributed among these distances:
37 7 0.18
38 25 0.66
39 6 0.16
ACGTcount: A:0.11, C:0.11, G:0.39, T:0.38
Consensus pattern (39 bp):
GGTCGGGTTTTTTTAAGTGTGACATTCGGGTCGAGTTCG
Found at i:1024811 original size:16 final size:17
Alignment explanation
Indices: 1024790--1024835 Score: 58
Period size: 18 Copynumber: 2.7 Consensus size: 17
1024780 TATGGAATTG
1024790 GATTCCAATTCCT-ACA
1 GATTCCAATTCCTCACA
*
1024806 GATTCCAATTCATTCACA
1 GATTCCAATTC-CTCACA
*
1024824 TATTCCAATTCC
1 GATTCCAATTCC
1024836 CTAATAAACA
Statistics
Matches: 25, Mismatches: 3, Indels: 3
0.81 0.10 0.10
Matches are distributed among these distances:
16 11 0.44
17 1 0.04
18 13 0.52
ACGTcount: A:0.30, C:0.30, G:0.04, T:0.35
Consensus pattern (17 bp):
GATTCCAATTCCTCACA
Found at i:1025813 original size:16 final size:14
Alignment explanation
Indices: 1025784--1025810 Score: 54
Period size: 14 Copynumber: 1.9 Consensus size: 14
1025774 TGATATAAAA
1025784 AACTGTTTTTTATT
1 AACTGTTTTTTATT
1025798 AACTGTTTTTTAT
1 AACTGTTTTTTAT
1025811 ATTTTTATTT
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 13 1.00
ACGTcount: A:0.22, C:0.07, G:0.07, T:0.63
Consensus pattern (14 bp):
AACTGTTTTTTATT
Found at i:1027609 original size:31 final size:30
Alignment explanation
Indices: 1027550--1027611 Score: 88
Period size: 31 Copynumber: 2.0 Consensus size: 30
1027540 CCATCACCCG
* *
1027550 TGATCAATTTTTATAAATTAATAGTATTAA
1 TGATCAATTTTTATAAATCAATAATATTAA
*
1027580 TGATCAATTTGTTATAAATCGATAATATTAA
1 TGATCAATTT-TTATAAATCAATAATATTAA
1027611 T
1 T
1027612 AACCGAATTG
Statistics
Matches: 28, Mismatches: 3, Indels: 1
0.88 0.09 0.03
Matches are distributed among these distances:
30 10 0.36
31 18 0.64
ACGTcount: A:0.42, C:0.05, G:0.08, T:0.45
Consensus pattern (30 bp):
TGATCAATTTTTATAAATCAATAATATTAA
Found at i:1028505 original size:51 final size:51
Alignment explanation
Indices: 1028429--1028533 Score: 156
Period size: 51 Copynumber: 2.1 Consensus size: 51
1028419 GGTACAGCGT
* * *
1028429 GGTGTAGGGGTCGCGCCTTTGCTTTAATTCTGACACAATTATGCAAGGCAC
1 GGTGTAGGGGGCGCGCATTTGCTTTAAGTCTGACACAATTATGCAAGGCAC
* * *
1028480 GGTGTAGGGGGCGGGCATTTGCTTTAAGTCTGAGACAATTATGTAAGGCAC
1 GGTGTAGGGGGCGCGCATTTGCTTTAAGTCTGACACAATTATGCAAGGCAC
1028531 GGT
1 GGT
1028534 ACACGGGCCG
Statistics
Matches: 48, Mismatches: 6, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
51 48 1.00
ACGTcount: A:0.22, C:0.17, G:0.32, T:0.29
Consensus pattern (51 bp):
GGTGTAGGGGGCGCGCATTTGCTTTAAGTCTGACACAATTATGCAAGGCAC
Found at i:1034700 original size:21 final size:21
Alignment explanation
Indices: 1034675--1034733 Score: 82
Period size: 21 Copynumber: 2.7 Consensus size: 21
1034665 GCAAAAAAAT
*
1034675 TAATTAAATAAAATATTAATA
1 TAATTAAATAAAATACTAATA
1034696 TAATTAAATAAAATACTAATA
1 TAATTAAATAAAATACTAATA
*
1034717 AAATATAAAATAAAATA
1 TAAT-T-AAATAAAATA
1034734 AAATATACCT
Statistics
Matches: 34, Mismatches: 2, Indels: 2
0.89 0.05 0.05
Matches are distributed among these distances:
21 23 0.68
22 1 0.03
23 10 0.29
ACGTcount: A:0.66, C:0.02, G:0.00, T:0.32
Consensus pattern (21 bp):
TAATTAAATAAAATACTAATA
Found at i:1034715 original size:16 final size:15
Alignment explanation
Indices: 1034681--1034740 Score: 54
Period size: 16 Copynumber: 4.1 Consensus size: 15
1034671 AAATTAATTA
*
1034681 AATAAAATATTAATAT
1 AATAAAATA-AAATAT
*
1034697 AATTAAATAAAATACT
1 AATAAAATAAAATA-T
*
1034713 AATAAAAT---ATAA
1 AATAAAATAAAATAT
1034725 AATAAAATAAAATAT
1 AATAAAATAAAATAT
1034740 A
1 A
1034741 CCTTAAGTTG
Statistics
Matches: 35, Mismatches: 5, Indels: 9
0.71 0.10 0.18
Matches are distributed among these distances:
12 8 0.23
13 3 0.09
15 8 0.23
16 16 0.46
ACGTcount: A:0.68, C:0.02, G:0.00, T:0.30
Consensus pattern (15 bp):
AATAAAATAAAATAT
Found at i:1034735 original size:17 final size:18
Alignment explanation
Indices: 1034703--1034740 Score: 60
Period size: 17 Copynumber: 2.2 Consensus size: 18
1034693 ATATAATTAA
*
1034703 ATAAAATACTAATAAAAT
1 ATAAAATACAAATAAAAT
1034721 ATAAAATA-AAATAAAAT
1 ATAAAATACAAATAAAAT
1034738 ATA
1 ATA
1034741 CCTTAAGTTG
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
17 11 0.58
18 8 0.42
ACGTcount: A:0.71, C:0.03, G:0.00, T:0.26
Consensus pattern (18 bp):
ATAAAATACAAATAAAAT
Found at i:1037316 original size:20 final size:20
Alignment explanation
Indices: 1037276--1037316 Score: 55
Period size: 20 Copynumber: 2.0 Consensus size: 20
1037266 TATGTTCTTC
*
1037276 ATTTATATTCGTTTATGTTT
1 ATTTATATTCGTTTATATTT
* *
1037296 ATTTATGTTCGTTTTTATTT
1 ATTTATATTCGTTTATATTT
1037316 A
1 A
1037317 ACTCAATCTC
Statistics
Matches: 18, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
20 18 1.00
ACGTcount: A:0.20, C:0.05, G:0.10, T:0.66
Consensus pattern (20 bp):
ATTTATATTCGTTTATATTT
Found at i:1037941 original size:16 final size:16
Alignment explanation
Indices: 1037922--1037987 Score: 64
Period size: 16 Copynumber: 4.2 Consensus size: 16
1037912 CGAATTTCAG
1037922 TCAAACCGAAAGTAAC
1 TCAAACCGAAAGTAAC
*
1037938 TCAAACC-AACCG-AAC
1 TCAAACCGAA-AGTAAC
*
1037953 CCAAACCGAAAGTAAC
1 TCAAACCGAAAGTAAC
* * *
1037969 CCGAACCAAAAGTAAC
1 TCAAACCGAAAGTAAC
1037985 TCA
1 TCA
1037988 GATTAAAAAT
Statistics
Matches: 40, Mismatches: 7, Indels: 6
0.75 0.13 0.11
Matches are distributed among these distances:
15 12 0.30
16 28 0.70
ACGTcount: A:0.48, C:0.32, G:0.11, T:0.09
Consensus pattern (16 bp):
TCAAACCGAAAGTAAC
Found at i:1038025 original size:32 final size:32
Alignment explanation
Indices: 1037972--1038055 Score: 123
Period size: 32 Copynumber: 2.6 Consensus size: 32
1037962 AAGTAACCCG
* * * *
1037972 AACCAAAAGTAACTCAGATTAAAAATAATCTA
1 AACCGAAAGTAACCCAAATTAAAAATAATATA
1038004 AACCGAAAGTAACCCAAATTAAAAATAATATA
1 AACCGAAAGTAACCCAAATTAAAAATAATATA
*
1038036 AACCGAAAGTAACCCGAATT
1 AACCGAAAGTAACCCAAATT
1038056 TAATTTATCC
Statistics
Matches: 47, Mismatches: 5, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
32 47 1.00
ACGTcount: A:0.55, C:0.18, G:0.08, T:0.19
Consensus pattern (32 bp):
AACCGAAAGTAACCCAAATTAAAAATAATATA
Found at i:1038309 original size:60 final size:60
Alignment explanation
Indices: 1038221--1038381 Score: 155
Period size: 60 Copynumber: 2.7 Consensus size: 60
1038211 CCCTTATTTG
* * * * * *
1038221 AAATTAGTCCCTAAACTTTTAAACATTTCAATTTCATCCTTAAACTACAACTATT-ATTCT
1 AAATTAGTCCTTAAACTTTTGAATATTTCAATTTAATCCTCAAACTACAA-TATTCATCCT
* * * * **
1038281 AGATTAGTCCTTAAACTTTTGAATATTTCATTTTAATCCCCAAGCTATGATATTCATCCT
1 AAATTAGTCCTTAAACTTTTGAATATTTCAATTTAATCCTCAAACTACAATATTCATCCT
* *
1038341 AAATTGGT-CTTCAAACTTTTTGAATATTTCAATTTTATCCT
1 AAATTAGTCCTT-AAAC-TTTTGAATATTTCAATTTAATCCT
1038382 AAATTATTTG
Statistics
Matches: 81, Mismatches: 17, Indels: 5
0.79 0.17 0.05
Matches are distributed among these distances:
59 7 0.09
60 53 0.65
61 21 0.26
ACGTcount: A:0.32, C:0.19, G:0.06, T:0.43
Consensus pattern (60 bp):
AAATTAGTCCTTAAACTTTTGAATATTTCAATTTAATCCTCAAACTACAATATTCATCCT
Found at i:1039377 original size:20 final size:20
Alignment explanation
Indices: 1039352--1039458 Score: 126
Period size: 21 Copynumber: 5.1 Consensus size: 20
1039342 CCGTTAGACA
*
1039352 GGGGGGAATCGGTACCCCCT
1 GGGGGGAATCTGTACCCCCT
*
1039372 GGGGGGAAATCTGTTCCCCCT
1 GGGGGG-AATCTGTACCCCCT
1039393 GGGGGGAATCTGTACCCCCT
1 GGGGGGAATCTGTACCCCCT
*
1039413 GGGGGGAGAATTTGTA-CCCCT
1 -GGGGG-GAATCTGTACCCCCT
1039434 GGGGGGGGAAATCTGTACCCCCT
1 --GGGGGG-AATCTGTACCCCCT
1039457 GG
1 GG
1039459 ACAATCTGAA
Statistics
Matches: 76, Mismatches: 5, Indels: 11
0.83 0.05 0.12
Matches are distributed among these distances:
20 19 0.25
21 31 0.41
22 21 0.28
23 5 0.07
ACGTcount: A:0.16, C:0.26, G:0.38, T:0.20
Consensus pattern (20 bp):
GGGGGGAATCTGTACCCCCT
Found at i:1039382 original size:21 final size:21
Alignment explanation
Indices: 1039352--1039458 Score: 139
Period size: 20 Copynumber: 5.1 Consensus size: 21
1039342 CCGTTAGACA
*
1039352 GGGGGG-AATCGGTACCCCCT
1 GGGGGGAAATCTGTACCCCCT
*
1039372 GGGGGGAAATCTGTTCCCCCT
1 GGGGGGAAATCTGTACCCCCT
1039393 GGGGGG-AATCTGTACCCCCT
1 GGGGGGAAATCTGTACCCCCT
*
1039413 GGGGGGAGAATTTGTA-CCCCT
1 GGGGGGA-AATCTGTACCCCCT
1039434 GGGGGGGGAAATCTGTACCCCCT
1 --GGGGGGAAATCTGTACCCCCT
1039457 GG
1 GG
1039459 ACAATCTGAA
Statistics
Matches: 76, Mismatches: 5, Indels: 11
0.83 0.05 0.12
Matches are distributed among these distances:
20 25 0.33
21 25 0.33
22 14 0.18
23 12 0.16
ACGTcount: A:0.16, C:0.26, G:0.38, T:0.20
Consensus pattern (21 bp):
GGGGGGAAATCTGTACCCCCT
Found at i:1042210 original size:21 final size:21
Alignment explanation
Indices: 1042185--1042289 Score: 133
Period size: 21 Copynumber: 5.0 Consensus size: 21
1042175 CCGTTAGACA
*
1042185 GGGGGAATCGGTACCCCCTGG
1 GGGGGAATCTGTACCCCCTGG
*
1042206 GGGGGAATCTGTTCCCCCT-G
1 GGGGGAATCTGTACCCCCTGG
*
1042226 GGGGGAATCTGTACCCCCTAAG
1 GGGGGAATCTGTACCCCCT-GG
* *
1042248 GGGAGAATTTGTA-CCCCTAGG
1 GGGGGAATCTGTACCCCCT-GG
1042269 GGGGGAATCTGTACCCCCTGG
1 GGGGGAATCTGTACCCCCTGG
1042290 ACAATCTGAA
Statistics
Matches: 73, Mismatches: 8, Indels: 6
0.84 0.09 0.07
Matches are distributed among these distances:
20 19 0.26
21 37 0.51
22 17 0.23
ACGTcount: A:0.17, C:0.27, G:0.36, T:0.20
Consensus pattern (21 bp):
GGGGGAATCTGTACCCCCTGG
Found at i:1045058 original size:21 final size:22
Alignment explanation
Indices: 1045012--1045077 Score: 66
Period size: 21 Copynumber: 3.0 Consensus size: 22
1045002 ACCGTTAGAT
*
1045012 AGGGGGAATCGGTACCCCAT-G
1 AGGGGGAATCTGTACCCCATGG
*
1045033 AGGGGGAATCTGTACCCCCCTGG
1 AGGGGGAATCTGTA-CCCCATGG
*
1045056 -GGGGAGAATCTGTATCCC-TGG
1 AGGGG-GAATCTGTACCCCATGG
1045077 A
1 A
1045078 CAATCTGAAT
Statistics
Matches: 38, Mismatches: 3, Indels: 7
0.79 0.06 0.15
Matches are distributed among these distances:
21 16 0.42
22 12 0.32
23 10 0.26
ACGTcount: A:0.21, C:0.24, G:0.36, T:0.18
Consensus pattern (22 bp):
AGGGGGAATCTGTACCCCATGG
Found at i:1045064 original size:23 final size:21
Alignment explanation
Indices: 1045012--1045069 Score: 71
Period size: 21 Copynumber: 2.7 Consensus size: 21
1045002 ACCGTTAGAT
*
1045012 AGGGGGAATCGGTACCCCATG
1 AGGGGGAATCTGTACCCCATG
*
1045033 AGGGGGAATCTGTACCCCCCTG
1 AGGGGGAATCTGTA-CCCCATG
*
1045055 GGGGGAGAATCTGTA
1 AGGGG-GAATCTGTA
1045070 TCCCTGGACA
Statistics
Matches: 32, Mismatches: 3, Indels: 2
0.86 0.08 0.05
Matches are distributed among these distances:
21 13 0.41
22 10 0.31
23 9 0.28
ACGTcount: A:0.22, C:0.22, G:0.38, T:0.17
Consensus pattern (21 bp):
AGGGGGAATCTGTACCCCATG
Found at i:1047637 original size:16 final size:16
Alignment explanation
Indices: 1047618--1047684 Score: 93
Period size: 16 Copynumber: 4.3 Consensus size: 16
1047608 TTGATGTTTC
1047618 TTTATGTTCGTGTTCA
1 TTTATGTTCGTGTTCA
* *
1047634 TTTATGTTCATGTTCG
1 TTTATGTTCGTGTTCA
*
1047650 TTTATGTTCGTGTTCG
1 TTTATGTTCGTGTTCA
1047666 TTTATGTTCGT-TT-A
1 TTTATGTTCGTGTTCA
1047680 TTTAT
1 TTTAT
1047685 TAAATGAACG
Statistics
Matches: 47, Mismatches: 4, Indels: 2
0.89 0.08 0.04
Matches are distributed among these distances:
14 5 0.11
15 2 0.04
16 40 0.85
ACGTcount: A:0.12, C:0.10, G:0.18, T:0.60
Consensus pattern (16 bp):
TTTATGTTCGTGTTCA
Found at i:1047767 original size:16 final size:16
Alignment explanation
Indices: 1047746--1047778 Score: 66
Period size: 16 Copynumber: 2.1 Consensus size: 16
1047736 AAAAAAAATT
1047746 TGTTCGTTTATGTTCG
1 TGTTCGTTTATGTTCG
1047762 TGTTCGTTTATGTTCG
1 TGTTCGTTTATGTTCG
1047778 T
1 T
1047779 TTATTTATTA
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 17 1.00
ACGTcount: A:0.06, C:0.12, G:0.24, T:0.58
Consensus pattern (16 bp):
TGTTCGTTTATGTTCG
Found at i:1048741 original size:15 final size:12
Alignment explanation
Indices: 1048710--1048746 Score: 56
Period size: 12 Copynumber: 3.1 Consensus size: 12
1048700 CTTGACCATC
1048710 TCTTCTTCTTCA
1 TCTTCTTCTTCA
1048722 TCTTCTTCTTCA
1 TCTTCTTCTTCA
**
1048734 TCCACTTCTTCA
1 TCTTCTTCTTCA
1048746 T
1 T
1048747 TTGAATCTTC
Statistics
Matches: 23, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
12 23 1.00
ACGTcount: A:0.11, C:0.35, G:0.00, T:0.54
Consensus pattern (12 bp):
TCTTCTTCTTCA
Found at i:1048755 original size:12 final size:12
Alignment explanation
Indices: 1048740--1048770 Score: 62
Period size: 12 Copynumber: 2.6 Consensus size: 12
1048730 TTCATCCACT
1048740 TCTTCATTTGAA
1 TCTTCATTTGAA
1048752 TCTTCATTTGAA
1 TCTTCATTTGAA
1048764 TCTTCAT
1 TCTTCAT
1048771 AGCTCTCATT
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 19 1.00
ACGTcount: A:0.23, C:0.19, G:0.06, T:0.52
Consensus pattern (12 bp):
TCTTCATTTGAA
Found at i:1050996 original size:13 final size:14
Alignment explanation
Indices: 1050978--1051011 Score: 52
Period size: 13 Copynumber: 2.5 Consensus size: 14
1050968 TATATATATA
1050978 ATTTTAATTTT-TT
1 ATTTTAATTTTATT
1050991 ATTTTAATTTTATT
1 ATTTTAATTTTATT
*
1051005 TTTTTAA
1 ATTTTAA
1051012 AAAAATTACC
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
13 11 0.58
14 8 0.42
ACGTcount: A:0.26, C:0.00, G:0.00, T:0.74
Consensus pattern (14 bp):
ATTTTAATTTTATT
Found at i:1054907 original size:2 final size:2
Alignment explanation
Indices: 1054900--1054976 Score: 154
Period size: 2 Copynumber: 38.5 Consensus size: 2
1054890 ATAGAAAGAA
1054900 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1054942 AT AT AT AT 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 A
1054977 AAAAATACTG
Statistics
Matches: 75, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 75 1.00
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (2 bp):
AT
Found at i:1055840 original size:20 final size:20
Alignment explanation
Indices: 1055770--1055842 Score: 65
Period size: 20 Copynumber: 3.6 Consensus size: 20
1055760 AACACCCTGT
* *
1055770 CCGAAGGTCTTATGGATGGC
1 CCGAAGGACTTATAGATGGC
* ** *
1055790 CCGAAGGATTTATCATCTTGC
1 CCGAAGGACTTAT-AGATGGC
* *
1055811 TCGAAAGACTTATAGATGGC
1 CCGAAGGACTTATAGATGGC
1055831 CCGAAGGACTTA
1 CCGAAGGACTTA
1055843 CACATCATGC
Statistics
Matches: 38, Mismatches: 14, Indels: 2
0.70 0.26 0.04
Matches are distributed among these distances:
20 25 0.66
21 13 0.34
ACGTcount: A:0.27, C:0.21, G:0.26, T:0.26
Consensus pattern (20 bp):
CCGAAGGACTTATAGATGGC
Found at i:1055862 original size:22 final size:22
Alignment explanation
Indices: 1055832--1055907 Score: 79
Period size: 22 Copynumber: 3.5 Consensus size: 22
1055822 ATAGATGGCC
*
1055832 CGAAGGACTTACACATCATGCT
1 CGAAAGACTTACACATCATGCT
* *
1055854 CGAAAGACTT--AC-TGATGGCC
1 CGAAAGACTTACACATCAT-GCT
1055874 CG-AAGAACTTACACATCATGCT
1 CGAAAG-ACTTACACATCATGCT
1055896 CGAAAGACTTAC
1 CGAAAGACTTAC
1055908 CGATGGACCG
Statistics
Matches: 43, Mismatches: 5, Indels: 12
0.72 0.08 0.20
Matches are distributed among these distances:
19 6 0.14
20 10 0.23
22 21 0.49
23 6 0.14
ACGTcount: A:0.34, C:0.26, G:0.18, T:0.21
Consensus pattern (22 bp):
CGAAAGACTTACACATCATGCT
Found at i:1055864 original size:42 final size:41
Alignment explanation
Indices: 1055778--1055925 Score: 190
Period size: 42 Copynumber: 3.5 Consensus size: 41
1055768 GTCCGAAGGT
* * *
1055778 CTTATGGATGGCCCGAAGGATTTA-TCATCTTGCTCGAAAGA
1 CTTAT-GATGGCCCGAAGGACTTACACATCATGCTCGAAAGA
1055819 CTTATAGATGGCCCGAAGGACTTACACATCATGCTCGAAAGA
1 CTTAT-GATGGCCCGAAGGACTTACACATCATGCTCGAAAGA
*
1055861 CTTACTGATGGCCCGAAGAACTTACACATCATGCTCGAAAGA
1 CTTA-TGATGGCCCGAAGGACTTACACATCATGCTCGAAAGA
* * *
1055903 CTTACCGATGGACCGAATGACTT
1 CTTA-TGATGGCCCGAAGGACTT
1055926 CAGCTGATTC
Statistics
Matches: 96, Mismatches: 9, Indels: 3
0.89 0.08 0.03
Matches are distributed among these distances:
41 22 0.23
42 73 0.76
43 1 0.01
ACGTcount: A:0.30, C:0.24, G:0.22, T:0.24
Consensus pattern (41 bp):
CTTATGATGGCCCGAAGGACTTACACATCATGCTCGAAAGA
Found at i:1055998 original size:85 final size:85
Alignment explanation
Indices: 1055886--1056051 Score: 197
Period size: 85 Copynumber: 2.0 Consensus size: 85
1055876 AAGAACTTAC
* * * **
1055886 ACATCATGCTCGAAAGACTTACCGATGGACCGAATGACTTCAGCTGATTCAAAGTATATGAATTG
1 ACATCATGCTCGAAAGACTTACCGATGGACCGAAAGACTTAACCTGATTCAAAGTATATGAATCA
1055951 AGCAATAGGAAATGTTGAAA
66 AGCAATAGGAAATGTTGAAA
* * * ** * ** * *
1055971 ACATCCTGCTCGAAGGTCTTATGGATGGCCCGAAAGACTTAACCTGATTCGGAGTGTGTGAATCA
1 ACATCATGCTCGAAAGACTTACCGATGGACCGAAAGACTTAACCTGATTCAAAGTATATGAATCA
1056036 AGCAATAGGAAATGTT
66 AGCAATAGGAAATGTT
1056052 AACCCCTCTG
Statistics
Matches: 66, Mismatches: 15, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
85 66 1.00
ACGTcount: A:0.34, C:0.17, G:0.23, T:0.25
Consensus pattern (85 bp):
ACATCATGCTCGAAAGACTTACCGATGGACCGAAAGACTTAACCTGATTCAAAGTATATGAATCA
AGCAATAGGAAATGTTGAAA
Found at i:1056249 original size:146 final size:144
Alignment explanation
Indices: 1055959--1056301 Score: 443
Period size: 146 Copynumber: 2.4 Consensus size: 144
1055949 TGAGCAATAG
* * * * * * * *
1055959 GAAATGTTGAAAACATCCTGCTCGAAGGTCTTATGGATGGCCCGAAAGACTTAACCTGATTCGGA
1 GAAATGTTAAAAAAATCCTACCCAAAGGTCTTATGGATGGCCCGAAGGACTTAACCTAATTCGAA
*
1056024 GTGTGTGAATCAAGCAATAGGAAATGTTAACCCCTCTGGTGGGGCGTTGTTGATACGAAGTGTCG
66 GTGTGTGAATCAAGCAATAGGAAATGTTAACCCCTCTGGTGGGGCGTTGCTGATACGAAGTGTCG
*
1056089 TGAATCGAGCAAAA
131 TGAATCGAGAAAAA
* * * **
1056103 GAAATGTTAAAAAAATCTTACCCAAAGGTCTTATGAATGGCCTGAAGGACTTAAGTTAATTCGAA
1 GAAATGTTAAAAAAATCCTACCCAAAGGTCTTATGGATGGCCCGAAGGACTTAACCTAATTCGAA
* * *
1056168 GTGTTGTGAATCGAGCAATATGAAATGTTAACCCCCTCTGGTGGGGCGTTGCTGATTCGAAGTGT
66 GTG-TGTGAATCAAGCAATAGGAAATGTTAA-CCCCTCTGGTGGGGCGTTGCTGATACGAAGTGT
*
1056233 TGTGAATCGAGAAAAA
129 CGTGAATCGAGAAAAA
* * * ** *
1056249 GAAATGTTGAAAACATCCTGCCTGAATGTCTTATGGATGGCCCGAAGGACTTA
1 GAAATGTTAAAAAAATCCTACCCAAAGGTCTTATGGATGGCCCGAAGGACTTA
1056302 TTATCTTGTT
Statistics
Matches: 169, Mismatches: 28, Indels: 2
0.85 0.14 0.01
Matches are distributed among these distances:
144 55 0.33
145 25 0.15
146 89 0.53
ACGTcount: A:0.31, C:0.16, G:0.26, T:0.27
Consensus pattern (144 bp):
GAAATGTTAAAAAAATCCTACCCAAAGGTCTTATGGATGGCCCGAAGGACTTAACCTAATTCGAA
GTGTGTGAATCAAGCAATAGGAAATGTTAACCCCTCTGGTGGGGCGTTGCTGATACGAAGTGTCG
TGAATCGAGAAAAA
Found at i:1056433 original size:42 final size:42
Alignment explanation
Indices: 1056284--1056426 Score: 146
Period size: 42 Copynumber: 3.4 Consensus size: 42
1056274 ATGTCTTATG
** * * *
1056284 GATGGCCCGAAGGACTT-ATTATCTTGTTTGAAAGACTTA-T
1 GATGGCCCGAAGGACTTAAGCATCATGCTCGAAAGACTTACT
* ** * *
1056324 AGATGACCCGAATAATTTAAGCATCACGCTCGAAAGACTTACT
1 -GATGGCCCGAAGGACTTAAGCATCATGCTCGAAAGACTTACT
** *
1056367 GATGGCCTAAAAGACTTAAGCATCATGCTCGAAAGACTTACT
1 GATGGCCCGAAGGACTTAAGCATCATGCTCGAAAGACTTACT
1056409 GATGGCCCGAAGGACTTA
1 GATGGCCCGAAGGACTTA
1056427 CTCATCAAGA
Statistics
Matches: 80, Mismatches: 20, Indels: 3
0.78 0.19 0.03
Matches are distributed among these distances:
41 13 0.16
42 66 0.82
43 1 0.01
ACGTcount: A:0.33, C:0.20, G:0.21, T:0.26
Consensus pattern (42 bp):
GATGGCCCGAAGGACTTAAGCATCATGCTCGAAAGACTTACT
Found at i:1056606 original size:52 final size:52
Alignment explanation
Indices: 1056470--1056722 Score: 229
Period size: 52 Copynumber: 4.7 Consensus size: 52
1056460 TTCTTAGTTG
* *
1056470 TCAAGGAACCCCTAAAAATTAGGCTTAGTTTCCTTTTAAAAACTCATTGAAAATCATCA
1 TCAAGAAACCCCTAAAAATTAGGCTTAGTTT-C---TAAAAACTCATTTAAAA--A-CA
* * *
1056529 TTAAGAAACCCCTGAAAATCAGGCTTAGTTTCTAAAAACTCATTTAAAAACA
1 TCAAGAAACCCCTAAAAATTAGGCTTAGTTTCTAAAAACTCATTTAAAAACA
* * * * * *
1056581 TCAAGAAATCCCTAAAAATTAGGCTTAATTTCTATGAAATTCATTTGAAAATA
1 TCAAGAAACCCCTAAAAATTAGGCTTAGTTTCTA-AAAACTCATTTAAAAACA
* ** ** * *
1056634 TTAAGAAACCCCT-AAAATTAGGCTTAGCATCTTTCAAATTCATTTGAAAACA
1 TCAAGAAACCCCTAAAAATTAGGCTTAGTTTC-TAAAAACTCATTTAAAAACA
* * *
1056686 TCTAGAAACCCCTGAAAATCAGGCTTAGTTTCTAAAA
1 TCAAGAAACCCCTAAAAATTAGGCTTAGTTTCTAAAA
1056723 TTCTTTTGTT
Statistics
Matches: 162, Mismatches: 29, Indels: 13
0.79 0.14 0.06
Matches are distributed among these distances:
52 76 0.47
53 42 0.26
55 16 0.10
58 1 0.01
59 27 0.17
ACGTcount: A:0.41, C:0.19, G:0.10, T:0.30
Consensus pattern (52 bp):
TCAAGAAACCCCTAAAAATTAGGCTTAGTTTCTAAAAACTCATTTAAAAACA
Found at i:1056648 original size:53 final size:53
Alignment explanation
Indices: 1056527--1056719 Score: 230
Period size: 52 Copynumber: 3.7 Consensus size: 53
1056517 TGAAAATCAT
* *
1056527 CATTAAGAAACCCCTGAAAATCAGGCTTAGTTTCTA-AAAACTCATTTAAAAA
1 CATTAAGAAACCCCTGAAAATCAGGCTTAGTTTCTATAAAATTCATTTGAAAA
* * * * * *
1056579 CATCAAGAAATCCCTAAAAATTAGGCTTAATTTCTATGAAATTCATTTGAAAA
1 CATTAAGAAACCCCTGAAAATCAGGCTTAGTTTCTATAAAATTCATTTGAAAA
* * ** * *
1056632 TATTAAGAAACCCCT-AAAATTAGGCTTAGCATCTTTCAAATTCATTTGAAAA
1 CATTAAGAAACCCCTGAAAATCAGGCTTAGTTTCTATAAAATTCATTTGAAAA
1056684 CATCT-AGAAACCCCTGAAAATCAGGCTTAGTTTCTA
1 CAT-TAAGAAACCCCTGAAAATCAGGCTTAGTTTCTA
1056720 AAATTCTTTT
Statistics
Matches: 117, Mismatches: 21, Indels: 5
0.82 0.15 0.03
Matches are distributed among these distances:
52 75 0.64
53 42 0.36
ACGTcount: A:0.41, C:0.19, G:0.10, T:0.30
Consensus pattern (53 bp):
CATTAAGAAACCCCTGAAAATCAGGCTTAGTTTCTATAAAATTCATTTGAAAA
Found at i:1056684 original size:105 final size:105
Alignment explanation
Indices: 1056528--1056719 Score: 260
Period size: 105 Copynumber: 1.8 Consensus size: 105
1056518 GAAAATCATC
** *
1056528 ATTAAGAAACCCCTGAAAATCAGGCTTAGTTTCTAAAAACTCATTTAAAAACATCAAGAAATCCC
1 ATTAAGAAACCCCTGAAAATCAGGCTTAGCATCTAAAAACTCATTTAAAAACATCAAGAAACCCC
*
1056593 TAAAAATTAGGCTTAATTTCTATGAAATTCATTTGAAAAT
66 TAAAAATCAGGCTTAATTTCTATGAAATTCATTTGAAAAT
* ** * * *
1056633 ATTAAGAAACCCCT-AAAATTAGGCTTAGCATCTTTCAAATTCATTTGAAAACATCTAGAAACCC
1 ATTAAGAAACCCCTGAAAATCAGGCTTAGCATC-TAAAAACTCATTTAAAAACATCAAGAAACCC
* *
1056697 CTGAAAATCAGGCTTAGTTTCTA
65 CTAAAAATCAGGCTTAATTTCTA
1056720 AAATTCTTTT
Statistics
Matches: 74, Mismatches: 12, Indels: 2
0.84 0.14 0.02
Matches are distributed among these distances:
104 15 0.20
105 59 0.80
ACGTcount: A:0.41, C:0.18, G:0.10, T:0.30
Consensus pattern (105 bp):
ATTAAGAAACCCCTGAAAATCAGGCTTAGCATCTAAAAACTCATTTAAAAACATCAAGAAACCCC
TAAAAATCAGGCTTAATTTCTATGAAATTCATTTGAAAAT
Found at i:1057086 original size:130 final size:129
Alignment explanation
Indices: 1056848--1057096 Score: 338
Period size: 130 Copynumber: 1.9 Consensus size: 129
1056838 TAATTTTTTT
* * * *
1056848 AAGGGAAACTGTCTCCAGAGAGACAAAATTCGTTTTAAGGGAAATGATGTCAAAGATTGGTTTCA
1 AAGGGAAACTGTCTCAAGAGAGACAAAATTCGTTTCAAGGGAAACGATCTCAAAGATTGGTTTCA
* * * *
1056913 AGTGAAACTGTCTTAAGAGAGACAAATTTTGTTTCAAGGGAAACATAT-TCAAAAATTTTGGTTC
66 AGAGAAACTGTCTCAAGAGAGACAAAATTTGTTTCAAGAGAAACA-ATCTCAAAAATTTTGGTTC
* * * * * *
1056977 AAGGGAAACTGTCTCAAGTGCGACAAAATTCGTTTCAATGGAAACGTTCTCAAAGTTTATGTTTC
1 AAGGGAAACTGTCTCAAGAGAGACAAAATTCGTTTCAAGGGAAACGATCTCAAAGATT-GGTTTC
*
1057042 AAGAGAAACTGTCTCAAGGGAGACAAAATTTGTTTCAAGAGAAACAATCTCAAAA
65 AAGAGAAACTGTCTCAAGAGAGACAAAATTTGTTTCAAGAGAAACAATCTCAAAA
1057097 TTTATCAATT
Statistics
Matches: 103, Mismatches: 15, Indels: 3
0.85 0.12 0.02
Matches are distributed among these distances:
129 51 0.50
130 52 0.50
ACGTcount: A:0.38, C:0.14, G:0.20, T:0.28
Consensus pattern (129 bp):
AAGGGAAACTGTCTCAAGAGAGACAAAATTCGTTTCAAGGGAAACGATCTCAAAGATTGGTTTCA
AGAGAAACTGTCTCAAGAGAGACAAAATTTGTTTCAAGAGAAACAATCTCAAAAATTTTGGTTC
Found at i:1057101 original size:65 final size:64
Alignment explanation
Indices: 1056839--1057099 Score: 260
Period size: 65 Copynumber: 4.1 Consensus size: 64
1056829 CGAGTGAGAT
* * * ** *
1056839 AATTTT-TTT-AAGGGAAACTGTCTCCAGAGAGACAAAATTCGTTTTAAGGGAAATGATGTCAA
1 AATTTTGTTTCAAGAGAAACTGTCTCAAGAGAGACAAAATTCGTTTCAAGGGAAACAATCTCAA
* * * * *
1056901 AGA-TTGGTTTCAAGTGAAACTGTCTTAAGAGAGACAAATTTTGTTTCAAGGGAAACATAT-TCA
1 A-ATTTTGTTTCAAGAGAAACTGTCTCAAGAGAGACAAAATTCGTTTCAAGGGAAACA-ATCTC-
1056964 AA
63 AA
* * * * * **
1056966 AATTTTGGTTCAAGGGAAACTGTCTCAAGTGCGACAAAATTCGTTTCAATGGAAACGTTCTCAA
1 AATTTTGTTTCAAGAGAAACTGTCTCAAGAGAGACAAAATTCGTTTCAAGGGAAACAATCTCAA
* * * *
1057030 AGTTTATGTTTCAAGAGAAACTGTCTCAAGGGAGACAAAATTTGTTTCAAGAGAAACAATCTCAA
1 AATTT-TGTTTCAAGAGAAACTGTCTCAAGAGAGACAAAATTCGTTTCAAGGGAAACAATCTCAA
1057095 AATTT
1 AATTT
1057100 ATCAATTTTA
Statistics
Matches: 160, Mismatches: 31, Indels: 13
0.78 0.15 0.06
Matches are distributed among these distances:
62 3 0.02
63 4 0.03
64 48 0.30
65 105 0.66
ACGTcount: A:0.37, C:0.13, G:0.20, T:0.30
Consensus pattern (64 bp):
AATTTTGTTTCAAGAGAAACTGTCTCAAGAGAGACAAAATTCGTTTCAAGGGAAACAATCTCAA
Found at i:1057319 original size:36 final size:36
Alignment explanation
Indices: 1057258--1057327 Score: 97
Period size: 36 Copynumber: 1.9 Consensus size: 36
1057248 GAAAAAAAAT
*
1057258 GTCTCAAGTGAGACAAAAATTGTTTCGAAAGAAAGC
1 GTCTCAAGCGAGACAAAAATTGTTTCGAAAGAAAGC
* *
1057294 GTCTCAAGCGAGA-TAAAATTGGTTTCGAGAGAAA
1 GTCTCAAGCGAGACAAAAATT-GTTTCGAAAGAAA
1057328 CAATCTCAAA
Statistics
Matches: 30, Mismatches: 3, Indels: 2
0.86 0.09 0.06
Matches are distributed among these distances:
35 6 0.20
36 24 0.80
ACGTcount: A:0.40, C:0.13, G:0.24, T:0.23
Consensus pattern (36 bp):
GTCTCAAGCGAGACAAAAATTGTTTCGAAAGAAAGC
Found at i:1057335 original size:36 final size:36
Alignment explanation
Indices: 1057259--1057336 Score: 88
Period size: 36 Copynumber: 2.2 Consensus size: 36
1057249 AAAAAAAATG
* *
1057259 TCTCAAGTGAGACAAAAATTGTTTCGAAAGAAAGCG
1 TCTCAAGCGAGACAAAAATTGTTTCGAAAGAAAGCA
* *
1057295 TCTCAAGCGAGA-TAAAATTGGTTTCGAGAGAAA-CAA
1 TCTCAAGCGAGACAAAAATT-GTTTCGAAAGAAAGC-A
1057331 TCTCAA
1 TCTCAA
1057337 AGGCGATGGA
Statistics
Matches: 36, Mismatches: 4, Indels: 4
0.82 0.09 0.09
Matches are distributed among these distances:
35 7 0.19
36 29 0.81
ACGTcount: A:0.41, C:0.15, G:0.21, T:0.23
Consensus pattern (36 bp):
TCTCAAGCGAGACAAAAATTGTTTCGAAAGAAAGCA
Found at i:1058516 original size:14 final size:14
Alignment explanation
Indices: 1058497--1058549 Score: 74
Period size: 14 Copynumber: 3.9 Consensus size: 14
1058487 TTTTTCTTTG
1058497 TTTTTCTTTGCTAT
1 TTTTTCTTTGCTAT
*
1058511 TTTTTCTTTGCTTT
1 TTTTTCTTTGCTAT
1058525 TTTTTCTTTG--AT
1 TTTTTCTTTGCTAT
1058537 CTTTTTCTTTGCT
1 -TTTTTCTTTGCT
1058550 TTTATCCTCG
Statistics
Matches: 34, Mismatches: 2, Indels: 5
0.83 0.05 0.12
Matches are distributed among these distances:
12 1 0.03
13 10 0.29
14 23 0.68
ACGTcount: A:0.04, C:0.15, G:0.08, T:0.74
Consensus pattern (14 bp):
TTTTTCTTTGCTAT
Found at i:1058527 original size:27 final size:25
Alignment explanation
Indices: 1058486--1058552 Score: 77
Period size: 24 Copynumber: 2.6 Consensus size: 25
1058476 CTTGTCCTCT
1058486 TTTTTTCTTTG---TTTTTCTTTGCTA
1 TTTTTTCTTTGCTTTTTTTCTTTG--A
1058510 TTTTTTCTTTGCTTTTTTTTCTTTGA
1 TTTTTTCTTTGC-TTTTTTTCTTTGA
1058536 TCTTTTTCTTTGCTTTT
1 T-TTTTTCTTTGCTTTT
1058553 ATCCTCGCCT
Statistics
Matches: 38, Mismatches: 0, Indels: 8
0.83 0.00 0.17
Matches are distributed among these distances:
24 11 0.29
26 6 0.16
27 11 0.29
28 10 0.26
ACGTcount: A:0.03, C:0.13, G:0.07, T:0.76
Consensus pattern (25 bp):
TTTTTTCTTTGCTTTTTTTCTTTGA
Found at i:1058541 original size:28 final size:27
Alignment explanation
Indices: 1058485--1058552 Score: 86
Period size: 27 Copynumber: 2.5 Consensus size: 27
1058475 TCTTGTCCTC
*
1058485 TTTT-TTT-CTTTGTTTTTCTTTGCTATT
1 TTTTCTTTGCTTT-TTTTTCTTTGATA-T
*
1058512 TTTTCTTTGCTTTTTTTTCTTTGATCT
1 TTTTCTTTGCTTTTTTTTCTTTGATAT
1058539 TTTTCTTTGCTTTT
1 TTTTCTTTGCTTTT
1058553 ATCCTCGCCT
Statistics
Matches: 37, Mismatches: 2, Indels: 4
0.86 0.05 0.09
Matches are distributed among these distances:
27 19 0.51
28 14 0.38
29 4 0.11
ACGTcount: A:0.03, C:0.13, G:0.07, T:0.76
Consensus pattern (27 bp):
TTTTCTTTGCTTTTTTTTCTTTGATAT
Found at i:1059816 original size:14 final size:14
Alignment explanation
Indices: 1059799--1059848 Score: 57
Period size: 14 Copynumber: 3.5 Consensus size: 14
1059789 TATAGATGTT
1059799 AATGCAAAGATGCA
1 AATGCAAAGATGCA
*
1059813 AATGCAAAGATTCAA
1 AATGCAAAGATGC-A
*
1059828 GAATGCAAA-ATGTA
1 -AATGCAAAGATGCA
1059842 AATGCAA
1 AATGCAA
1059849 CAAAGGAATT
Statistics
Matches: 31, Mismatches: 3, Indels: 5
0.79 0.08 0.13
Matches are distributed among these distances:
13 7 0.23
14 13 0.42
15 3 0.10
16 8 0.26
ACGTcount: A:0.52, C:0.12, G:0.18, T:0.18
Consensus pattern (14 bp):
AATGCAAAGATGCA
Found at i:1062928 original size:11 final size:11
Alignment explanation
Indices: 1062914--1062940 Score: 54
Period size: 11 Copynumber: 2.5 Consensus size: 11
1062904 AAATGATGAC
1062914 AAAATTGAAAT
1 AAAATTGAAAT
1062925 AAAATTGAAAT
1 AAAATTGAAAT
1062936 AAAAT
1 AAAAT
1062941 GCAATAGGAT
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 16 1.00
ACGTcount: A:0.67, C:0.00, G:0.07, T:0.26
Consensus pattern (11 bp):
AAAATTGAAAT
Found at i:1066151 original size:35 final size:35
Alignment explanation
Indices: 1066112--1066270 Score: 132
Period size: 35 Copynumber: 4.6 Consensus size: 35
1066102 AAGGTGAATA
* *
1066112 AAGTAGAACGGAAAGAGGCATCACACTCTT-GATTC
1 AAGTAGAACGGAAAGAAGCATCACA-TTTTCGATTC
* *
1066147 AAGTAGAACGGGAAGAAGAAT-A-A-TTTCGATTC
1 AAGTAGAACGGAAAGAAGCATCACATTTTCGATTC
*** *
1066179 AAGTAGAATAAAAAGAAGCATCACATTTTCTATTC
1 AAGTAGAACGGAAAGAAGCATCACATTTTCGATTC
* * * *
1066214 AAATAGAAC-AAAAGGAAGCGTCGCACTTTT-GATTC
1 AAGTAGAACGGAAA-GAAGCATCACA-TTTTCGATTC
*
1066249 AAGTAGAACGGAAGGAAGCATC
1 AAGTAGAACGGAAAGAAGCATC
1066271 GTACTGTAAG
Statistics
Matches: 98, Mismatches: 19, Indels: 14
0.75 0.15 0.11
Matches are distributed among these distances:
31 2 0.02
32 21 0.21
33 2 0.02
34 6 0.06
35 61 0.62
36 6 0.06
ACGTcount: A:0.42, C:0.15, G:0.21, T:0.21
Consensus pattern (35 bp):
AAGTAGAACGGAAAGAAGCATCACATTTTCGATTC
Found at i:1067148 original size:18 final size:17
Alignment explanation
Indices: 1067094--1067142 Score: 53
Period size: 19 Copynumber: 2.7 Consensus size: 17
1067084 TTGGACCCTT
* *
1067094 AGTGCATCGGTGCACTAA
1 AGTGCATCGATGCA-TCA
1067112 GAGTGCATCGATGCATCA
1 -AGTGCATCGATGCATCA
1067130 AGTGCATTCGATG
1 AGTGCA-TCGATG
1067143 TTTCAAAATA
Statistics
Matches: 27, Mismatches: 2, Indels: 3
0.84 0.06 0.09
Matches are distributed among these distances:
17 6 0.22
18 8 0.30
19 13 0.48
ACGTcount: A:0.27, C:0.20, G:0.29, T:0.24
Consensus pattern (17 bp):
AGTGCATCGATGCATCA
Found at i:1067165 original size:64 final size:63
Alignment explanation
Indices: 1067094--1067236 Score: 166
Period size: 64 Copynumber: 2.2 Consensus size: 63
1067084 TTGGACCCTT
*
1067094 AGTGCATCGGTGCA-CTAAGAGTGCATCGATGCATCAAGTGCATTCGATG-TTTCA-AAATAGCC
1 AGTGCATCGGTGCAGCT--G-GTGCATCGATGCATCAAATGCATTCGATGTTTTCATAAA-AGCC
1067156 AG
62 AG
* * **
1067158 AGTGCATCGATGCATGGCTGGTGCATCGATGCATCAAATGCATTCGATGTTTTCATAAAATCCTT
1 AGTGCATCGGTGCA--GCTGGTGCATCGATGCATCAAATGCATTCGATGTTTTCATAAAAGCCAG
1067223 AGTGCATCGGTGCA
1 AGTGCATCGGTGCA
1067237 TCACTCTAAA
Statistics
Matches: 68, Mismatches: 6, Indels: 9
0.82 0.07 0.11
Matches are distributed among these distances:
64 41 0.60
65 22 0.32
66 3 0.04
67 2 0.03
ACGTcount: A:0.27, C:0.20, G:0.24, T:0.28
Consensus pattern (63 bp):
AGTGCATCGGTGCAGCTGGTGCATCGATGCATCAAATGCATTCGATGTTTTCATAAAAGCCAG
Found at i:1069393 original size:13 final size:13
Alignment explanation
Indices: 1069365--1069403 Score: 53
Period size: 13 Copynumber: 3.1 Consensus size: 13
1069355 TGGGCAATGT
*
1069365 TTTGAAAA-ACTA
1 TTTGAAAATAATA
1069377 TTTGAAAATAATA
1 TTTGAAAATAATA
*
1069390 TTTGTAAATAATA
1 TTTGAAAATAATA
1069403 T
1 T
1069404 GTATAGTTTT
Statistics
Matches: 24, Mismatches: 2, Indels: 1
0.89 0.07 0.04
Matches are distributed among these distances:
12 8 0.33
13 16 0.67
ACGTcount: A:0.49, C:0.03, G:0.08, T:0.41
Consensus pattern (13 bp):
TTTGAAAATAATA
Found at i:1073677 original size:21 final size:22
Alignment explanation
Indices: 1073643--1073686 Score: 54
Period size: 22 Copynumber: 2.0 Consensus size: 22
1073633 TATGTTATGC
**
1073643 AAATCAAT-ATTTTTCTTTTCA
1 AAATCAATAATTTTGATTTTCA
*
1073664 AAATCATTAATTTTGATTTTCA
1 AAATCAATAATTTTGATTTTCA
1073686 A
1 A
1073687 TTTTTGATCT
Statistics
Matches: 19, Mismatches: 3, Indels: 1
0.83 0.13 0.04
Matches are distributed among these distances:
21 7 0.37
22 12 0.63
ACGTcount: A:0.36, C:0.11, G:0.02, T:0.50
Consensus pattern (22 bp):
AAATCAATAATTTTGATTTTCA
Found at i:1073780 original size:22 final size:21
Alignment explanation
Indices: 1073738--1073777 Score: 62
Period size: 21 Copynumber: 1.9 Consensus size: 21
1073728 AATACTATTT
1073738 TCATTTTTCAATTTTGAAATA
1 TCATTTTTCAATTTTGAAATA
**
1073759 TCATTTTTGTATTTTGAAA
1 TCATTTTTCAATTTTGAAA
1073778 ATAGAGTCTT
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
21 17 1.00
ACGTcount: A:0.30, C:0.07, G:0.07, T:0.55
Consensus pattern (21 bp):
TCATTTTTCAATTTTGAAATA
Found at i:1075221 original size:65 final size:63
Alignment explanation
Indices: 1075067--1075232 Score: 165
Period size: 65 Copynumber: 2.6 Consensus size: 63
1075057 AAATAGCCAG
* * * *
1075067 AGTGCATCGATGCATGGCTGGTGCATCGATGCATCAAATGCATTTGATGTTTTCATAAAATCCTC
1 AGTGCATCGATGCATGGTTGGTGCATCGATGCATCAAATACATTCGA-GTATTCATAAAAT-CTC
* ** * **
1075132 AGTGCATCGGTGCATGGTAAGTGCATCGATGCATGAAATACATTCGA-TATTCAATTTAAT-TC
1 AGTGCATCGATGCATGGTTGGTGCATCGATGCATCAAATACATTCGAGTATTC-ATAAAATCTC
*
1075194 ATGGTGCATCGATGCATGGATTGGTGCATCGGTGCATCA
1 A--GTGCATCGATGCATGG-TTGGTGCATCGATGCATCA
1075233 CTCTGAAAAA
Statistics
Matches: 82, Mismatches: 15, Indels: 8
0.78 0.14 0.08
Matches are distributed among these distances:
62 3 0.04
63 4 0.05
64 20 0.24
65 55 0.67
ACGTcount: A:0.27, C:0.18, G:0.24, T:0.31
Consensus pattern (63 bp):
AGTGCATCGATGCATGGTTGGTGCATCGATGCATCAAATACATTCGAGTATTCATAAAATCTC
Found at i:1080831 original size:20 final size:19
Alignment explanation
Indices: 1080792--1080833 Score: 57
Period size: 20 Copynumber: 2.2 Consensus size: 19
1080782 TTTCTTCGAT
1080792 ATTAAAAAATAAATAAATA
1 ATTAAAAAATAAATAAATA
* *
1080811 ATTAAAACAATTAATATATA
1 ATTAAAA-AATAAATAAATA
1080831 ATT
1 ATT
1080834 TATAAAATAG
Statistics
Matches: 20, Mismatches: 2, Indels: 1
0.87 0.09 0.04
Matches are distributed among these distances:
19 7 0.35
20 13 0.65
ACGTcount: A:0.64, C:0.02, G:0.00, T:0.33
Consensus pattern (19 bp):
ATTAAAAAATAAATAAATA
Found at i:1080944 original size:120 final size:120
Alignment explanation
Indices: 1080705--1080935 Score: 290
Period size: 120 Copynumber: 1.9 Consensus size: 120
1080695 TATATTAATT
* * * * *
1080705 TATATATATTTATAAATAAAATATTTATTTATTTAGAAATATCAGAAAAGGACTTCTAGGTGCCT
1 TATATATATTTATAAATAAAATATTTATTTATTTAAAAATATCAAAAAAGGACATCCAGGTGACT
* *
1080770 TAAGACAGCTCTTTTCTTCGATATTAAAAAATAAATAAATAATTAAAACAATTAA
66 TAAGACAGCTCCTTTCTTCAATATTAAAAAATAAATAAATAATTAAAACAATTAA
** *
1080825 TATATA-ATTTATAAAATAGTATATTTATTTATTTAAAAATATCAAAAAATGGACATCCAGTTGA
1 TATATATATTTAT-AAATAAAATATTTATTTATTTAAAAATATCAAAAAA-GGACATCCAGGTGA
* * * *
1080889 TTTAAGACTG-TCCTTTCTT-AATATTGAAAAATAAATAACT-ATTAAAA
64 CTTAAGACAGCTCCTTTCTTCAATATTAAAAAATAAATAAATAATTAAAA
1080936 TAGGATTAAA
Statistics
Matches: 95, Mismatches: 14, Indels: 6
0.83 0.12 0.05
Matches are distributed among these distances:
118 7 0.07
119 24 0.25
120 46 0.48
121 18 0.19
ACGTcount: A:0.46, C:0.09, G:0.08, T:0.38
Consensus pattern (120 bp):
TATATATATTTATAAATAAAATATTTATTTATTTAAAAATATCAAAAAAGGACATCCAGGTGACT
TAAGACAGCTCCTTTCTTCAATATTAAAAAATAAATAAATAATTAAAACAATTAA
Found at i:1082022 original size:25 final size:24
Alignment explanation
Indices: 1081980--1082037 Score: 64
Period size: 24 Copynumber: 2.3 Consensus size: 24
1081970 TCTTCCTTCA
* *
1081980 TTTTTTCCTTCTCTTGTCTCTGTTTT
1 TTTTTTGC-TCTCTTGTCCCT-TTTT
1082006 TTTTGTTGCTCTC-TGTCCCTTTTT
1 TTTT-TTGCTCTCTTGTCCCTTTTT
1082030 TTTTTTGC
1 TTTTTTGC
1082038 AAGATCCGGT
Statistics
Matches: 29, Mismatches: 2, Indels: 5
0.81 0.06 0.14
Matches are distributed among these distances:
23 4 0.14
24 8 0.28
25 6 0.21
26 8 0.28
27 3 0.10
ACGTcount: A:0.00, C:0.22, G:0.10, T:0.67
Consensus pattern (24 bp):
TTTTTTGCTCTCTTGTCCCTTTTT
Found at i:1082469 original size:2 final size:2
Alignment explanation
Indices: 1082462--1082522 Score: 80
Period size: 2 Copynumber: 33.5 Consensus size: 2
1082452 TAATTTGTAC
1082462 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA -A TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
1082503 -A TA -A TA -A TA -A TA TA T- TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA T
1082523 TAATAATTAT
Statistics
Matches: 53, Mismatches: 0, Indels: 12
0.82 0.00 0.18
Matches are distributed among these distances:
1 6 0.11
2 47 0.89
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (2 bp):
TA
Found at i:1082540 original size:16 final size:17
Alignment explanation
Indices: 1082493--1082540 Score: 55
Period size: 16 Copynumber: 2.8 Consensus size: 17
1082483 ATATATATAT
*
1082493 ATATATAATAATAATAATA
1 ATATATTATAAT--TAATA
1082512 ATATATTAT-ATTAATA
1 ATATATTATAATTAATA
1082528 AT-TATTATAATTA
1 ATATATTATAATTA
1082541 TTATTATGAA
Statistics
Matches: 27, Mismatches: 1, Indels: 5
0.82 0.03 0.15
Matches are distributed among these distances:
15 6 0.22
16 11 0.41
18 2 0.07
19 8 0.30
ACGTcount: A:0.54, C:0.00, G:0.00, T:0.46
Consensus pattern (17 bp):
ATATATTATAATTAATA
Found at i:1083035 original size:73 final size:73
Alignment explanation
Indices: 1082915--1083264 Score: 646
Period size: 73 Copynumber: 4.8 Consensus size: 73
1082905 AACTCGAAAT
* * *
1082915 AACTGTCTCAAGCGAGACAAATCTTCGTTTTAAGAAAAACAATCTCAAGTGAGATAAATTTTTGT
1 AACTGTCTCAAGCGAGACAAAT-TTTGTTTTAAGAAAAACAATCTCAAGTGAGATAAAGTTCTGT
*
1082980 TTCAAGTGA
65 TTCGAGTGA
*
1082989 AACTGTCTCAAGCGAGACAAAATTTGTTTTAAGAAAAACAATCTCAAGTGAGATAAAGTTCTGTT
1 AACTGTCTCAAGCGAGACAAATTTTGTTTTAAGAAAAACAATCTCAAGTGAGATAAAGTTCTGTT
1083054 TCGAGTGA
66 TCGAGTGA
1083062 AACTGTCTCAAGCGAGACAAATTTTGTTTTAAGAAAAACAATCTCAAGTGAGATAAAGTTCTGTT
1 AACTGTCTCAAGCGAGACAAATTTTGTTTTAAGAAAAACAATCTCAAGTGAGATAAAGTTCTGTT
1083127 TCGAGTGA
66 TCGAGTGA
1083135 AACTGTCTCAAGCGAGACAAATTTTGTTTTAAGAAAAACAATCTCAAGTGAGATAAAGTTCTGTT
1 AACTGTCTCAAGCGAGACAAATTTTGTTTTAAGAAAAACAATCTCAAGTGAGATAAAGTTCTGTT
1083200 TCGAGTGA
66 TCGAGTGA
1083208 AACTGTCTCAAGCGAGACAAATTTTGTTTTAAGAAAAACAATCTCAAGTGAGATAAA
1 AACTGTCTCAAGCGAGACAAATTTTGTTTTAAGAAAAACAATCTCAAGTGAGATAAA
1083265 TTGTTATTTG
Statistics
Matches: 270, Mismatches: 6, Indels: 1
0.97 0.02 0.00
Matches are distributed among these distances:
73 249 0.92
74 21 0.08
ACGTcount: A:0.39, C:0.14, G:0.18, T:0.29
Consensus pattern (73 bp):
AACTGTCTCAAGCGAGACAAATTTTGTTTTAAGAAAAACAATCTCAAGTGAGATAAAGTTCTGTT
TCGAGTGA
Found at i:1083593 original size:36 final size:36
Alignment explanation
Indices: 1083479--1083679 Score: 204
Period size: 37 Copynumber: 5.5 Consensus size: 36
1083469 GAAATAACTG
*
1083479 TCTCAAGTGAGACAAATCTTTGTTTTAGGAAAAACAA
1 TCTCAAGTGAGACAAAT-TTTGTTTTAAGAAAAACAA
* * ** **
1083516 TCTCAAGTGAGATAAATTTTTGTTTCAAGTGAAACTT
1 TCTCAAGTGAGACAAA-TTTTGTTTTAAGAAAAACAA
* *
1083553 TCTCAAGCGAGACAAAATTTGTTTTAAGAAAAACAA
1 TCTCAAGTGAGACAAATTTTGTTTTAAGAAAAACAA
* * ** ** **
1083589 TCTCAAGTGAGATAAAGTTCTGTTTCGAGTGAAACTG
1 TCTCAAGTGAGACAAA-TTTTGTTTTAAGAAAAACAA
*
1083626 TCTCAAGCGAGACAAATTTTGTTTTAAGAAAAACAA
1 TCTCAAGTGAGACAAATTTTGTTTTAAGAAAAACAA
*
1083662 TCTCAAGTGAGATAAATT
1 TCTCAAGTGAGACAAATT
1083680 GCTATTTGAA
Statistics
Matches: 126, Mismatches: 36, Indels: 5
0.75 0.22 0.03
Matches are distributed among these distances:
36 57 0.45
37 68 0.54
38 1 0.01
ACGTcount: A:0.39, C:0.13, G:0.17, T:0.31
Consensus pattern (36 bp):
TCTCAAGTGAGACAAATTTTGTTTTAAGAAAAACAA
Found at i:1083599 original size:73 final size:73
Alignment explanation
Indices: 1083474--1083679 Score: 331
Period size: 73 Copynumber: 2.8 Consensus size: 73
1083464 AACTCGAAAT
* * * *
1083474 AACTGTCTCAAGTGAGACAAATCTTTGTTTTAGGAAAAACAATCTCAAGTGAGATAAATTTTTGT
1 AACTGTCTCAAGCGAGACAAA-ATTTGTTTTAAGAAAAACAATCTCAAGTGAGATAAATTTCTGT
1083539 TTCAAGTGA
65 TTCAAGTGA
* *
1083548 AACTTTCTCAAGCGAGACAAAATTTGTTTTAAGAAAAACAATCTCAAGTGAGATAAAGTTCTGTT
1 AACTGTCTCAAGCGAGACAAAATTTGTTTTAAGAAAAACAATCTCAAGTGAGATAAATTTCTGTT
*
1083613 TCGAGTGA
66 TCAAGTGA
*
1083621 AACTGTCTCAAGCGAGACAAATTTTGTTTTAAGAAAAACAATCTCAAGTGAGATAAATT
1 AACTGTCTCAAGCGAGACAAAATTTGTTTTAAGAAAAACAATCTCAAGTGAGATAAATT
1083680 GCTATTTGAA
Statistics
Matches: 122, Mismatches: 10, Indels: 1
0.92 0.08 0.01
Matches are distributed among these distances:
73 103 0.84
74 19 0.16
ACGTcount: A:0.39, C:0.13, G:0.17, T:0.31
Consensus pattern (73 bp):
AACTGTCTCAAGCGAGACAAAATTTGTTTTAAGAAAAACAATCTCAAGTGAGATAAATTTCTGTT
TCAAGTGA
Found at i:1083851 original size:413 final size:412
Alignment explanation
Indices: 1083062--1083867 Score: 1459
Period size: 413 Copynumber: 2.0 Consensus size: 412
1083052 TTTCGAGTGA
1083062 AACTGTCTCAAGCGAGACAAATTTTGTTTTAAGAAAAACAATCTCAAGTGAGATAAAGTTCTGTT
1 AACTGTCTCAAGCGAGACAAATTTTGTTTTAAGAAAAACAATCTCAAGTGAGATAAAGTTCTGTT
* *
1083127 TCGAGTGAAACTGTCTCAAGCGAGACAAATTTTGTTTTAAGAAAAACAATCTCAAGTGAGATAAA
66 TCAAGTGAAACTGTCTCAAGCGAGACAAAATTTGTTTTAAGAAAAACAATCTCAAGTGAGATAAA
1083192 GTTCTGTTTCGAGTGAAACTGTCTCAAGCGAGACAAATTTTGTTTTAAGAAAAACAATCTCAAGT
131 GTTCTGTTTCGAGTGAAACTGTCTCAAGCGAGACAAATTTTGTTTTAAGAAAAACAATCTCAAGT
*
1083257 GAGATAAATTGTTATTTGAAAACATCCTGCACTGTAGGTCTTATGAATGTGGGAAATAGTTTACT
196 GAGATAAATTGCTATTTGAAAACATCCTGCACTGTAGGTCTTATGAATGTGGGAAATAGTTTACT
*
1083322 AAATAAGAAACTATGGAAATCGTTTTCTTACTATTCAACAATTTCATTTTTAGAAAAGATTGAAT
261 AAATAAGAAACTATGGAAATCGTTTTCTTACTATTCAACAATTTCATTTTCAGAAAAGATTGAAT
* * *
1083387 GAGAAACTATGGAAAATCGTTTTCTCATTCTTTTTCAAAATAACTTGTTGATTGGGTAGCATGCC
326 GAGAAACTATGGAAAATCGTTTTCTCATTATTTTTCAAAATAACATGTTGATTGGGTAACATGCC
1083452 CCATTTCAAAATAACTCGAAAT
391 CCATTTCAAAATAACTCGAAAT
* * * *
1083474 AACTGTCTCAAGTGAGACAAATCTTTGTTTTAGGAAAAACAATCTCAAGTGAGATAAATTTTTGT
1 AACTGTCTCAAGCGAGACAAAT-TTTGTTTTAAGAAAAACAATCTCAAGTGAGATAAAGTTCTGT
*
1083539 TTCAAGTGAAACTTTCTCAAGCGAGACAAAATTTGTTTTAAGAAAAACAATCTCAAGTGAGATAA
65 TTCAAGTGAAACTGTCTCAAGCGAGACAAAATTTGTTTTAAGAAAAACAATCTCAAGTGAGATAA
1083604 AGTTCTGTTTCGAGTGAAACTGTCTCAAGCGAGACAAATTTTGTTTTAAGAAAAACAATCTCAAG
130 AGTTCTGTTTCGAGTGAAACTGTCTCAAGCGAGACAAATTTTGTTTTAAGAAAAACAATCTCAAG
*
1083669 TGAGATAAATTGCTATTTGAAAACATCCTGCACTGTAGGTCTTATGGATGTGGGAAATAGTTTAC
195 TGAGATAAATTGCTATTTGAAAACATCCTGCACTGTAGGTCTTATGAATGTGGGAAATAGTTTAC
* * *
1083734 TAAGTAAGATACTATGGAAATCGTTTTCTTACTTTTCAACAATTTCATTTTCAGAAAAGATTGAA
260 TAAATAAGAAACTATGGAAATCGTTTTCTTACTATTCAACAATTTCATTTTCAGAAAAGATTGAA
1083799 TGAGAAACTATGGAAAATCGTTTTCTCATTATTTTTCAAAATAACATGTTGATTGGGTAACATGC
325 TGAGAAACTATGGAAAATCGTTTTCTCATTATTTTTCAAAATAACATGTTGATTGGGTAACATGC
1083864 CCCA
390 CCCA
1083868 ATCTCAAGAT
Statistics
Matches: 377, Mismatches: 16, Indels: 1
0.96 0.04 0.00
Matches are distributed among these distances:
412 21 0.06
413 356 0.94
ACGTcount: A:0.36, C:0.14, G:0.17, T:0.33
Consensus pattern (412 bp):
AACTGTCTCAAGCGAGACAAATTTTGTTTTAAGAAAAACAATCTCAAGTGAGATAAAGTTCTGTT
TCAAGTGAAACTGTCTCAAGCGAGACAAAATTTGTTTTAAGAAAAACAATCTCAAGTGAGATAAA
GTTCTGTTTCGAGTGAAACTGTCTCAAGCGAGACAAATTTTGTTTTAAGAAAAACAATCTCAAGT
GAGATAAATTGCTATTTGAAAACATCCTGCACTGTAGGTCTTATGAATGTGGGAAATAGTTTACT
AAATAAGAAACTATGGAAATCGTTTTCTTACTATTCAACAATTTCATTTTCAGAAAAGATTGAAT
GAGAAACTATGGAAAATCGTTTTCTCATTATTTTTCAAAATAACATGTTGATTGGGTAACATGCC
CCATTTCAAAATAACTCGAAAT
Found at i:1083997 original size:167 final size:167
Alignment explanation
Indices: 1083721--1084050 Score: 538
Period size: 167 Copynumber: 2.0 Consensus size: 167
1083711 TATGGATGTG
* * * * *
1083721 GGAAATAGTTTACTAAGTAAGATACTATGGAAATCGTTTTCTTACTTTTCAACAATTTCATTTTC
1 GGAAATAGTTTACTAAGTAAAAAACTAAGAAAATCGTTTTCTTACTTTTCAACAATATCATTTTC
**
1083786 AGAAAAGATTGAATGAGAAACTATGGAAAATCGTTTTCTCATTATTTTTCAAAATAACATGTTGA
66 AGAAAAGATAAAATGAGAAACTATGGAAAATCGTTTTCTCATTATTTTTCAAAATAACATGTTGA
* *
1083851 TTGGGTAACATGCCCCAATCTCAAGATAATGCTGTTT
131 TTGGGTAACATGACCCAATCTCAAGACAATGCTGTTT
1083888 GGAAATAGTTTACTAAGTAAAAAAAACTAAGAAAATCGTTTTCTTACTTTTCAACAATATCATTT
1 GGAAATAGTTTACTAAGT--AAAAAACTAAGAAAATCGTTTTCTTACTTTTCAACAATATCATTT
*
1083953 T-AGAAAAGATAAAATGAGAAACTATGG-AAATCGTTTTCTCATTATTTTTCAAAATATCATGTT
64 TCAGAAAAGATAAAATGAGAAACTATGGAAAATCGTTTTCTCATTATTTTTCAAAATAACATGTT
1084016 GATTGGGTAACATGACCCAATCTCAAGACAATGCT
129 GATTGGGTAACATGACCCAATCTCAAGACAATGCT
1084051 CATTCTTGTG
Statistics
Matches: 151, Mismatches: 10, Indels: 4
0.92 0.06 0.02
Matches are distributed among these distances:
167 86 0.57
168 24 0.16
169 41 0.27
ACGTcount: A:0.38, C:0.14, G:0.14, T:0.35
Consensus pattern (167 bp):
GGAAATAGTTTACTAAGTAAAAAACTAAGAAAATCGTTTTCTTACTTTTCAACAATATCATTTTC
AGAAAAGATAAAATGAGAAACTATGGAAAATCGTTTTCTCATTATTTTTCAAAATAACATGTTGA
TTGGGTAACATGACCCAATCTCAAGACAATGCTGTTT
Found at i:1084588 original size:22 final size:22
Alignment explanation
Indices: 1084563--1084617 Score: 101
Period size: 22 Copynumber: 2.5 Consensus size: 22
1084553 AATAAAGCTT
1084563 TCATCTTTGAAAAGAGAATCTA
1 TCATCTTTGAAAAGAGAATCTA
*
1084585 TCATCTTTAAAAAGAGAATCTA
1 TCATCTTTGAAAAGAGAATCTA
1084607 TCATCTTTGAA
1 TCATCTTTGAA
1084618 GAGTGTAGAT
Statistics
Matches: 31, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
22 31 1.00
ACGTcount: A:0.40, C:0.15, G:0.11, T:0.35
Consensus pattern (22 bp):
TCATCTTTGAAAAGAGAATCTA
Found at i:1088979 original size:13 final size:13
Alignment explanation
Indices: 1088947--1088981 Score: 52
Period size: 13 Copynumber: 2.7 Consensus size: 13
1088937 AATTTCTCCC
1088947 TTTTTTTTCTTTT
1 TTTTTTTTCTTTT
**
1088960 TCATTTTTCTTTT
1 TTTTTTTTCTTTT
1088973 TTTTTTTTC
1 TTTTTTTTC
1088982 AAGTATAATA
Statistics
Matches: 18, Mismatches: 4, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
13 18 1.00
ACGTcount: A:0.03, C:0.11, G:0.00, T:0.86
Consensus pattern (13 bp):
TTTTTTTTCTTTT
Found at i:1094888 original size:20 final size:19
Alignment explanation
Indices: 1094849--1094890 Score: 57
Period size: 20 Copynumber: 2.2 Consensus size: 19
1094839 TTTCTTCGAT
1094849 ATTAAAAAATAAATAAATA
1 ATTAAAAAATAAATAAATA
* *
1094868 ATTAAAACAATTAATATATA
1 ATTAAAA-AATAAATAAATA
1094888 ATT
1 ATT
1094891 TATAAAATAG
Statistics
Matches: 20, Mismatches: 2, Indels: 1
0.87 0.09 0.04
Matches are distributed among these distances:
19 7 0.35
20 13 0.65
ACGTcount: A:0.64, C:0.02, G:0.00, T:0.33
Consensus pattern (19 bp):
ATTAAAAAATAAATAAATA
Found at i:1095001 original size:120 final size:120
Alignment explanation
Indices: 1094762--1094992 Score: 308
Period size: 120 Copynumber: 1.9 Consensus size: 120
1094752 TATATTAATT
* * *
1094762 TATATATATTTATAAATAAAATATTTATTTATTTAGAAATATCAGAAAATGACTTCTAGGTGCCT
1 TATATATATTTATAAATAAAATATTTATTTATTTAAAAATATCAGAAAATGACATCCAGGTGCCT
* *
1094827 TAAGACAGCTCTTTTCTTCGATATTAAAAAATAAATAAATAATTAAAACAATTAA
66 TAAGACAGCTCATTTCTTCAATATTAAAAAATAAATAAATAATTAAAACAATTAA
** * *
1094882 TATATA-ATTTATAAAATAGGATATTTATTTATTTAAAAATATCAGAAAATGGACATCCAGTTGT
1 TATATATATTTAT-AAATAAAATATTTATTTATTTAAAAATATCAGAAAAT-GACATCCAGGTGC
* * *
1094946 TTTAAGACTGC-CATTTCTT-AATATTGAAAAATAAATAAAT-ATTAAAA
64 CTTAAGACAGCTCATTTCTTCAATATTAAAAAATAAATAAATAATTAAAA
1094993 TAGGATTAAA
Statistics
Matches: 97, Mismatches: 12, Indels: 6
0.84 0.10 0.05
Matches are distributed among these distances:
118 7 0.07
119 25 0.26
120 47 0.48
121 18 0.19
ACGTcount: A:0.46, C:0.08, G:0.08, T:0.38
Consensus pattern (120 bp):
TATATATATTTATAAATAAAATATTTATTTATTTAAAAATATCAGAAAATGACATCCAGGTGCCT
TAAGACAGCTCATTTCTTCAATATTAAAAAATAAATAAATAATTAAAACAATTAA
Found at i:1096517 original size:2 final size:2
Alignment explanation
Indices: 1096510--1096535 Score: 52
Period size: 2 Copynumber: 13.0 Consensus size: 2
1096500 GTAATTTGTA
1096510 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
1096536 TTAATAAATA
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 24 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:1096550 original size:3 final size:3
Alignment explanation
Indices: 1096537--1096584 Score: 51
Period size: 3 Copynumber: 15.3 Consensus size: 3
1096527 TATATATATT
* * *
1096537 TAA TAAA TAA TAA TAA TAA TAA TATA TTA TAT TAA TAA TAA TTA TAA
1 TAA T-AA TAA TAA TAA TAA TAA TA-A TAA TAA TAA TAA TAA TAA TAA
1096584 T
1 T
1096585 TATTATTATG
Statistics
Matches: 37, Mismatches: 6, Indels: 4
0.79 0.13 0.09
Matches are distributed among these distances:
3 32 0.86
4 5 0.14
ACGTcount: A:0.58, C:0.00, G:0.00, T:0.42
Consensus pattern (3 bp):
TAA
Found at i:1096558 original size:16 final size:18
Alignment explanation
Indices: 1096508--1096582 Score: 58
Period size: 17 Copynumber: 4.5 Consensus size: 18
1096498 ATGTAATTTG
1096508 TAATATATAT-AT-AT-A
1 TAATATATATAATAATAA
*
1096523 T-ATATATAT-ATATTTAA
1 TAATATATATAATA-ATAA
1096540 TAA-ATA-ATAATAATAA
1 TAATATATATAATAATAA
*
1096556 TAATATATTATATTAATAA
1 TAATATA-TATAATAATAA
1096575 TAAT-TATA
1 TAATATATA
1096583 ATTATTATTA
Statistics
Matches: 49, Mismatches: 3, Indels: 14
0.74 0.05 0.21
Matches are distributed among these distances:
14 10 0.20
15 1 0.02
16 9 0.18
17 13 0.27
18 3 0.06
19 13 0.27
ACGTcount: A:0.55, C:0.00, G:0.00, T:0.45
Consensus pattern (18 bp):
TAATATATATAATAATAA
Found at i:1096562 original size:28 final size:28
Alignment explanation
Indices: 1096530--1096593 Score: 78
Period size: 28 Copynumber: 2.3 Consensus size: 28
1096520 ATATATATAT
1096530 ATATATT-TAATAAATAATAATAATAATA
1 ATATATTAT-ATAAATAATAATAATAATA
* * *
1096558 ATATATTATATTAATAATAATTATAATT
1 ATATATTATATAAATAATAATAATAATA
1096586 AT-TATTAT
1 ATATATTAT
1096594 GAAAAAAATT
Statistics
Matches: 32, Mismatches: 3, Indels: 3
0.84 0.08 0.08
Matches are distributed among these distances:
27 6 0.19
28 25 0.78
29 1 0.03
ACGTcount: A:0.53, C:0.00, G:0.00, T:0.47
Consensus pattern (28 bp):
ATATATTATATAAATAATAATAATAATA
Found at i:1096575 original size:22 final size:22
Alignment explanation
Indices: 1096547--1096592 Score: 67
Period size: 22 Copynumber: 2.1 Consensus size: 22
1096537 TAATAAATAA
1096547 TAATAATAATAATATATTA-TAT
1 TAATAATAATAATA-ATTATTAT
*
1096569 TAATAATAATTATAATTATTAT
1 TAATAATAATAATAATTATTAT
1096591 TA
1 TA
1096593 TGAAAAAAAT
Statistics
Matches: 22, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
21 4 0.18
22 18 0.82
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (22 bp):
TAATAATAATAATAATTATTAT
Found at i:1098615 original size:10 final size:10
Alignment explanation
Indices: 1098600--1098625 Score: 52
Period size: 10 Copynumber: 2.6 Consensus size: 10
1098590 CGACCTCCAT
1098600 GCCCATGCAC
1 GCCCATGCAC
1098610 GCCCATGCAC
1 GCCCATGCAC
1098620 GCCCAT
1 GCCCAT
1098626 CTCGCCAAAG
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
10 16 1.00
ACGTcount: A:0.19, C:0.50, G:0.19, T:0.12
Consensus pattern (10 bp):
GCCCATGCAC
Found at i:1098663 original size:33 final size:33
Alignment explanation
Indices: 1098614--1098679 Score: 114
Period size: 33 Copynumber: 2.0 Consensus size: 33
1098604 ATGCACGCCC
*
1098614 ATGCACGCCCATCTCGCCAAAGGTCACCATGCA
1 ATGCACGCCCAGCTCGCCAAAGGTCACCATGCA
*
1098647 ATGCACGTCCAGCTCGCCAAAGGTCACCATGCA
1 ATGCACGCCCAGCTCGCCAAAGGTCACCATGCA
1098680 GTCCATGCTT
Statistics
Matches: 31, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
33 31 1.00
ACGTcount: A:0.27, C:0.38, G:0.20, T:0.15
Consensus pattern (33 bp):
ATGCACGCCCAGCTCGCCAAAGGTCACCATGCA
Found at i:1098890 original size:12 final size:11
Alignment explanation
Indices: 1098870--1098905 Score: 54
Period size: 11 Copynumber: 3.2 Consensus size: 11
1098860 GAAATCAACT
1098870 GCATTATTGCA
1 GCATTATTGCA
*
1098881 GCACTTATTGCT
1 GCA-TTATTGCA
1098893 GCATTATTGCA
1 GCATTATTGCA
1098904 GC
1 GC
1098906 CCGTGAACGT
Statistics
Matches: 22, Mismatches: 2, Indels: 2
0.85 0.08 0.08
Matches are distributed among these distances:
11 12 0.55
12 10 0.45
ACGTcount: A:0.22, C:0.22, G:0.19, T:0.36
Consensus pattern (11 bp):
GCATTATTGCA
Done.