Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: VEPZ01003805.1 Hibiscus syriacus cultivar Beakdansim tig00008145_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: 2300233
ACGTcount: A:0.33, C:0.17, G:0.17, T:0.33
File 3 of 11
Found at i:544443 original size:39 final size:37
Alignment explanation
Indices: 544168--544531 Score: 336
Period size: 38 Copynumber: 9.9 Consensus size: 37
544158 TGACAAACGG
*
544168 TTTTTGAAAATAAGTATATAATATATAATTTTTAAAAACA
1 TTTTTGAAAAT-A-TATATAATATATAGTTTTT-AAAACA
*
544208 --TTTGAAAAATGTATATAATATATAGTTTTTAAAACA
1 TTTTTG-AAAATATATATAATATATAGTTTTTAAAACA
* *
544244 CTTTTGAAAA-CTATATAATATATAGTTTTTAAAACA
1 TTTTTGAAAATATATATAATATATAGTTTTTAAAACA
* *
544280 TTTTAGAAAAAATATATAATATATATAGTTTTTAAAATCA
1 TTTTTGAAAATATATAT-A-ATATATAGTTTTTAAAA-CA
*
544320 -TTTTGAAAACT-TATATAATATATTGTTTTTGAAAACA
1 TTTTTGAAAA-TATATATAATATATAGTTTTT-AAAACA
544357 TTTTTGAAAACT-TATATAATATATAGTTTTTGAAAACA
1 TTTTTGAAAA-TATATATAATATATAGTTTTT-AAAACA
*
544395 TTTTTGAAAACTTATATATAATATATAATTTTTAAAACA
1 TTTTTGAAAA--TATATATAATATATAGTTTTTAAAACA
544434 TTTTTG---A-A-A-AT--TATATAGTTTTTAAGAACA
1 TTTTTGAAAATATATATAATATATAGTTTTTAA-AACA
* * * *
544464 TTTTTGAAAAT-TATAT-A-GT-T--TTCTAAAAATA
1 TTTTTGAAAATATATATAATATATAGTTTTTAAAACA
544495 TTTTTGAAAATTTATATATAATATATAGTTTTTAAAA
1 TTTTTGAAAA--TATATATAATATATAGTTTTTAAAA
544532 GAAACATTTT
Statistics
Matches: 276, Mismatches: 20, Indels: 57
0.78 0.06 0.16
Matches are distributed among these distances:
29 13 0.05
30 10 0.04
31 15 0.05
32 6 0.02
33 3 0.01
34 7 0.03
35 4 0.01
36 41 0.15
37 42 0.15
38 60 0.22
39 55 0.20
40 20 0.07
ACGTcount: A:0.45, C:0.04, G:0.06, T:0.45
Consensus pattern (37 bp):
TTTTTGAAAATATATATAATATATAGTTTTTAAAACA
Found at i:544501 original size:31 final size:30
Alignment explanation
Indices: 544416--544512 Score: 142
Period size: 30 Copynumber: 3.2 Consensus size: 30
544406 TTATATATAA
*
544416 TATATAATTTTT-AAAACATTTTTGAAAAT
1 TATATAGTTTTTAAAAACATTTTTGAAAAT
*
544445 TATATAGTTTTTAAGAACATTTTTGAAAAT
1 TATATAGTTTTTAAAAACATTTTTGAAAAT
*
544475 TATATAGTTTTCTAAAAATATTTTTGAAAATT
1 TATATAGTTTT-TAAAAACATTTTTGAAAA-T
544507 TATATA
1 TATATA
544513 TAATATATAG
Statistics
Matches: 61, Mismatches: 4, Indels: 3
0.90 0.06 0.04
Matches are distributed among these distances:
29 11 0.18
30 27 0.44
31 16 0.26
32 7 0.11
ACGTcount: A:0.42, C:0.03, G:0.06, T:0.48
Consensus pattern (30 bp):
TATATAGTTTTTAAAAACATTTTTGAAAAT
Found at i:544595 original size:3 final size:3
Alignment explanation
Indices: 544587--544625 Score: 60
Period size: 3 Copynumber: 12.7 Consensus size: 3
544577 CTTTTTATAT
*
544587 TTA TTA TTA TTA TTA TTA TTA TTTA TTA GTA TTA TTA TT
1 TTA TTA TTA TTA TTA TTA TTA -TTA TTA TTA TTA TTA TT
544626 TTTTATTTTT
Statistics
Matches: 33, Mismatches: 2, Indels: 2
0.89 0.05 0.05
Matches are distributed among these distances:
3 30 0.91
4 3 0.09
ACGTcount: A:0.31, C:0.00, G:0.03, T:0.67
Consensus pattern (3 bp):
TTA
Found at i:544606 original size:19 final size:19
Alignment explanation
Indices: 544590--544632 Score: 68
Period size: 19 Copynumber: 2.3 Consensus size: 19
544580 TTTATATTTA
*
544590 TTATTATTATTATTATTAT
1 TTATTAGTATTATTATTAT
*
544609 TTATTAGTATTATTATTTT
1 TTATTAGTATTATTATTAT
544628 TTATT
1 TTATT
544633 TTTCCGTTTT
Statistics
Matches: 22, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
19 22 1.00
ACGTcount: A:0.28, C:0.00, G:0.02, T:0.70
Consensus pattern (19 bp):
TTATTAGTATTATTATTAT
Found at i:544621 original size:22 final size:22
Alignment explanation
Indices: 544584--544625 Score: 75
Period size: 22 Copynumber: 1.9 Consensus size: 22
544574 TTACTTTTTA
*
544584 TATTTATTATTATTATTATTAT
1 TATTTATTAGTATTATTATTAT
544606 TATTTATTAGTATTATTATT
1 TATTTATTAGTATTATTATT
544626 TTTTATTTTT
Statistics
Matches: 19, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
22 19 1.00
ACGTcount: A:0.31, C:0.00, G:0.02, T:0.67
Consensus pattern (22 bp):
TATTTATTAGTATTATTATTAT
Found at i:545795 original size:4 final size:4
Alignment explanation
Indices: 545786--545827 Score: 57
Period size: 4 Copynumber: 10.0 Consensus size: 4
545776 TTTAATTTTG
*
545786 ATTT ATTT ATTTT ATTT GAATT ATTT ATTT ATTT ATTT ATTT
1 ATTT ATTT A-TTT ATTT -ATTT ATTT ATTT ATTT ATTT ATTT
545828 TAACTAACCT
Statistics
Matches: 34, Mismatches: 2, Indels: 4
0.85 0.05 0.10
Matches are distributed among these distances:
4 27 0.79
5 7 0.21
ACGTcount: A:0.26, C:0.00, G:0.02, T:0.71
Consensus pattern (4 bp):
ATTT
Found at i:545809 original size:18 final size:17
Alignment explanation
Indices: 545782--545819 Score: 58
Period size: 18 Copynumber: 2.2 Consensus size: 17
545772 TTGATTTAAT
*
545782 TTTGATTTATTTATTTTA
1 TTTGAATTATTTA-TTTA
545800 TTTGAATTATTTATTTA
1 TTTGAATTATTTATTTA
545817 TTT
1 TTT
545820 ATTTATTTTA
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
17 7 0.37
18 12 0.63
ACGTcount: A:0.24, C:0.00, G:0.05, T:0.71
Consensus pattern (17 bp):
TTTGAATTATTTATTTA
Found at i:545819 original size:26 final size:24
Alignment explanation
Indices: 545770--545827 Score: 73
Period size: 25 Copynumber: 2.3 Consensus size: 24
545760 TTTTCCACGG
545770 TTTTGATTTAATTTTGATTTATTTA
1 TTTT-ATTTAATTTTGATTTATTTA
*
545795 TTTTATTTGAATTATTTATTTATTTA
1 TTTTATTT-AATT-TTGATTTATTTA
545821 -TTTATTT
1 TTTTATTT
545828 TAACTAACCT
Statistics
Matches: 30, Mismatches: 1, Indels: 4
0.86 0.03 0.11
Matches are distributed among these distances:
24 4 0.13
25 15 0.50
26 11 0.37
ACGTcount: A:0.24, C:0.00, G:0.05, T:0.71
Consensus pattern (24 bp):
TTTTATTTAATTTTGATTTATTTA
Found at i:545855 original size:54 final size:54
Alignment explanation
Indices: 545787--545898 Score: 133
Period size: 54 Copynumber: 2.1 Consensus size: 54
545777 TTAATTTTGA
545787 TTTATTTATTTTATTTGA-ATTATT-T-ATTTATTTATTTATTTTAACTAACCTTTT
1 TTTATTTATTTTATTTGATATTATTATCATTTATTTATTT-TTTT-ACT-ACCTTTT
* * *
545841 TTTA-TTATTATTATTTTATTTTATTATCATTTATTTATTTTTTTACTATCTTTT
1 TTTATTTATT-TTATTTGATATTATTATCATTTATTTATTTTTTTACTACCTTTT
545895 TTTA
1 TTTA
545899 CTAACTTTTG
Statistics
Matches: 51, Mismatches: 3, Indels: 8
0.82 0.05 0.13
Matches are distributed among these distances:
53 5 0.10
54 21 0.41
55 8 0.16
56 5 0.10
57 12 0.24
ACGTcount: A:0.24, C:0.05, G:0.01, T:0.70
Consensus pattern (54 bp):
TTTATTTATTTTATTTGATATTATTATCATTTATTTATTTTTTTACTACCTTTT
Found at i:545884 original size:22 final size:22
Alignment explanation
Indices: 545837--545898 Score: 60
Period size: 19 Copynumber: 3.0 Consensus size: 22
545827 TTAACTAACC
*
545837 TTTTTTTATTATTA-TTA-TT-
1 TTTTTTTATTATCATTTATTTA
*
545856 TTATTTTATTATCATTTATTTA
1 TTTTTTTATTATCATTTATTTA
* *
545878 TTTTTTTACTATC-TTTTTTTA
1 TTTTTTTATTATCATTTATTTA
545899 CTAACTTTTG
Statistics
Matches: 35, Mismatches: 5, Indels: 4
0.80 0.11 0.09
Matches are distributed among these distances:
19 12 0.34
20 3 0.09
21 9 0.26
22 11 0.31
ACGTcount: A:0.21, C:0.05, G:0.00, T:0.74
Consensus pattern (22 bp):
TTTTTTTATTATCATTTATTTA
Found at i:545896 original size:13 final size:13
Alignment explanation
Indices: 545878--545912 Score: 52
Period size: 13 Copynumber: 2.6 Consensus size: 13
545868 CATTTATTTA
*
545878 TTTTTTTACTATC
1 TTTTTTTACTAAC
545891 TTTTTTTACTAAC
1 TTTTTTTACTAAC
545904 TTTTGTTTA
1 TTTT-TTTA
545913 TTTTGTCATC
Statistics
Matches: 20, Mismatches: 1, Indels: 1
0.91 0.05 0.05
Matches are distributed among these distances:
13 16 0.80
14 4 0.20
ACGTcount: A:0.17, C:0.11, G:0.03, T:0.69
Consensus pattern (13 bp):
TTTTTTTACTAAC
Found at i:545960 original size:2 final size:2
Alignment explanation
Indices: 545953--546003 Score: 102
Period size: 2 Copynumber: 25.5 Consensus size: 2
545943 TTTATATTTG
545953 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
545995 TA TA TA TA T
1 TA TA TA TA T
546004 TGTTTCCCTT
Statistics
Matches: 49, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 49 1.00
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (2 bp):
TA
Found at i:547775 original size:11 final size:11
Alignment explanation
Indices: 547759--547821 Score: 51
Period size: 11 Copynumber: 5.9 Consensus size: 11
547749 AAAATTACAT
547759 TATTAAAAATA
1 TATTAAAAATA
547770 TATTAAAAATA
1 TATTAAAAATA
* ***
547781 AATTATTGAT-
1 TATTAAAAATA
*
547791 GATTATAAAAT-
1 TATTA-AAAATA
547802 T-TTAAAAATA
1 TATTAAAAATA
547812 TATTAAAAAT
1 TATTAAAAAT
547822 TCTATAGTAC
Statistics
Matches: 40, Mismatches: 9, Indels: 6
0.73 0.16 0.11
Matches are distributed among these distances:
9 5 0.12
10 8 0.20
11 27 0.68
ACGTcount: A:0.57, C:0.00, G:0.03, T:0.40
Consensus pattern (11 bp):
TATTAAAAATA
Found at i:548638 original size:7 final size:7
Alignment explanation
Indices: 548626--548710 Score: 84
Period size: 7 Copynumber: 12.3 Consensus size: 7
548616 AATTATGTGA
548626 TAGGGTT
1 TAGGGTT
548633 TAGGGTT
1 TAGGGTT
*
548640 TAAGGTT
1 TAGGGTT
*
548647 TAAGGTT
1 TAGGGTT
548654 TAAGGG-T
1 T-AGGGTT
548661 TAGGGTT
1 TAGGGTT
*
548668 TA-GGTC
1 TAGGGTT
*
548674 TAGAGTT
1 TAGGGTT
548681 TAGGGTT
1 TAGGGTT
* *
548688 TATGATT
1 TAGGGTT
*
548695 TAGAGTT
1 TAGGGTT
548702 TAGGGTT
1 TAGGGTT
548709 TA
1 TA
548711 TGATTTAGAG
Statistics
Matches: 63, Mismatches: 12, Indels: 6
0.78 0.15 0.07
Matches are distributed among these distances:
6 9 0.14
7 51 0.81
8 3 0.05
ACGTcount: A:0.22, C:0.01, G:0.34, T:0.42
Consensus pattern (7 bp):
TAGGGTT
Found at i:548653 original size:21 final size:21
Alignment explanation
Indices: 548629--548723 Score: 95
Period size: 21 Copynumber: 4.6 Consensus size: 21
548619 TATGTGATAG
* *
548629 GGTTTAGGGTTTAAGGTTTAA
1 GGTTTAGAGTTTAGGGTTTAA
*
548650 GGTTTA-AGGGTTAGGGTTT-A
1 GGTTTAGA-GTTTAGGGTTTAA
* *
548670 GGTCTAGAGTTTAGGGTTTAT
1 GGTTTAGAGTTTAGGGTTTAA
* *
548691 GATTTAGAGTTTAGGGTTTAT
1 GGTTTAGAGTTTAGGGTTTAA
*
548712 GATTTAGAGTTT
1 GGTTTAGAGTTT
548724 GAACAACATT
Statistics
Matches: 63, Mismatches: 8, Indels: 6
0.82 0.10 0.08
Matches are distributed among these distances:
20 16 0.25
21 47 0.75
ACGTcount: A:0.22, C:0.01, G:0.33, T:0.44
Consensus pattern (21 bp):
GGTTTAGAGTTTAGGGTTTAA
Found at i:549558 original size:15 final size:15
Alignment explanation
Indices: 549517--549560 Score: 61
Period size: 15 Copynumber: 2.9 Consensus size: 15
549507 TAGAATCCCT
* *
549517 GTGGTTGAGCCAGTG
1 GTGGTTGACCCGGTG
549532 GTGGTTGACCCGGTG
1 GTGGTTGACCCGGTG
*
549547 GTGGTTGTCCCGGT
1 GTGGTTGACCCGGT
549561 TGGTATGGTG
Statistics
Matches: 26, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
15 26 1.00
ACGTcount: A:0.07, C:0.18, G:0.45, T:0.30
Consensus pattern (15 bp):
GTGGTTGACCCGGTG
Found at i:550126 original size:11 final size:11
Alignment explanation
Indices: 550097--550170 Score: 53
Period size: 11 Copynumber: 6.6 Consensus size: 11
550087 ATGAGCTCAA
* *
550097 AATCGAGCTTG
1 AATCGAGTTTC
*
550108 AAGCGAGTTTC
1 AATCGAGTTTC
*
550119 AATTGAGTTTC
1 AATCGAGTTTC
*
550130 AATCGAG-CTC
1 AATCGAGTTTC
550140 AGAATCGAGTTTC
1 --AATCGAGTTTC
*
550153 AATTGAGCTTT-
1 AATCGAG-TTTC
550164 AATCGAG
1 AATCGAG
550171 CTCTTAATTT
Statistics
Matches: 49, Mismatches: 10, Indels: 8
0.73 0.15 0.12
Matches are distributed among these distances:
10 2 0.04
11 35 0.71
12 10 0.20
13 2 0.04
ACGTcount: A:0.30, C:0.16, G:0.23, T:0.31
Consensus pattern (11 bp):
AATCGAGTTTC
Found at i:550153 original size:34 final size:34
Alignment explanation
Indices: 550097--550173 Score: 113
Period size: 34 Copynumber: 2.3 Consensus size: 34
550087 ATGAGCTCAA
*
550097 AATCGAGCT-TGAAGCGAGTTTCAATTGAG-TTT
1 AATCGAGCTCAGAAGCGAGTTTCAATTGAGCTTT
*
550129 CAATCGAGCTCAGAATCGAGTTTCAATTGAGCTTT
1 -AATCGAGCTCAGAAGCGAGTTTCAATTGAGCTTT
550164 AATCGAGCTC
1 AATCGAGCTC
550174 TTAATTTTTT
Statistics
Matches: 40, Mismatches: 2, Indels: 3
0.89 0.04 0.07
Matches are distributed among these distances:
33 9 0.22
34 28 0.70
35 3 0.08
ACGTcount: A:0.29, C:0.18, G:0.22, T:0.31
Consensus pattern (34 bp):
AATCGAGCTCAGAAGCGAGTTTCAATTGAGCTTT
Found at i:559966 original size:3 final size:3
Alignment explanation
Indices: 559954--560026 Score: 139
Period size: 3 Copynumber: 24.7 Consensus size: 3
559944 AATCCCGATG
559954 TTA TTA -TA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA
560001 TTA TTA TTA TTA TTA TTA TTA TTA TT
1 TTA TTA TTA TTA TTA TTA TTA TTA TT
560027 TCAGGCTTTA
Statistics
Matches: 69, Mismatches: 0, Indels: 2
0.97 0.00 0.03
Matches are distributed among these distances:
2 2 0.03
3 67 0.97
ACGTcount: A:0.33, C:0.00, G:0.00, T:0.67
Consensus pattern (3 bp):
TTA
Found at i:565623 original size:5 final size:5
Alignment explanation
Indices: 565613--565667 Score: 53
Period size: 5 Copynumber: 10.8 Consensus size: 5
565603 GAACTTCTCT
565613 TTTTC TTTTC TTTTC TTCTT- TTCTTC TTTTC TTCTT- TTTGTC TTTTC
1 TTTTC TTTTC TTTTC TT-TTC TT-TTC TTTTC TT-TTC TTT-TC TTTTC
565660 -TTTC TTTT
1 TTTTC TTTT
565668 TGCACTCCAA
Statistics
Matches: 44, Mismatches: 0, Indels: 12
0.79 0.00 0.21
Matches are distributed among these distances:
4 5 0.11
5 30 0.68
6 9 0.20
ACGTcount: A:0.00, C:0.20, G:0.02, T:0.78
Consensus pattern (5 bp):
TTTTC
Found at i:565631 original size:8 final size:8
Alignment explanation
Indices: 565620--565667 Score: 71
Period size: 8 Copynumber: 5.9 Consensus size: 8
565610 TCTTTTTCTT
565620 TTCTTTTC
1 TTCTTTTC
565628 TTCTTTTC
1 TTCTTTTC
565636 TTCTTTTC
1 TTCTTTTC
565644 TTCTTTT-
1 TTCTTTTC
565651 TGTCTTTTC
1 T-TCTTTTC
565660 TTTCTTTT
1 -TTCTTTT
565668 TGCACTCCAA
Statistics
Matches: 37, Mismatches: 0, Indels: 5
0.88 0.00 0.12
Matches are distributed among these distances:
7 1 0.03
8 29 0.78
9 6 0.16
10 1 0.03
ACGTcount: A:0.00, C:0.21, G:0.02, T:0.77
Consensus pattern (8 bp):
TTCTTTTC
Found at i:568498 original size:131 final size:131
Alignment explanation
Indices: 568317--568654 Score: 462
Period size: 131 Copynumber: 2.6 Consensus size: 131
568307 TATATATTCG
* * * * *
568317 TTTCGGTTGGAGTAATAAATAACTTCTTTAAGGCATGAGTGGTCATTTATTCTCGATTGGAAATA
1 TTTCGATTGGAGTAATAAATGACTACTTTAAGGTATGAGAGGTCATTTATTCTCGATTGGAAATA
* * * * * *
568382 ATTTGATATTACCGTTTTCTCTCGAATTAATATTG-ATTTTGAATATGGAATAAAGATATCTCTT
66 ATTAGATATTACCGTTTTCACTCGAATCAATATTGAATTTT-AAGACGAAATAAAGATATCTCTT
568446 CA
130 CA
* *
568448 TTTCGATTGGAGTAATAAATGACTACTTTAAGGTATGAGCGGTCATTTATTCTCGATTGGAAATT
1 TTTCGATTGGAGTAATAAATGACTACTTTAAGGTATGAGAGGTCATTTATTCTCGATTGGAAATA
* * ** *
568513 ATTAGATATTATCGTTTTCACTCGAATCGATATTGAATTTTAAGACGAAATAATTATATCTTTTC
66 ATTAGATATTACCGTTTTCACTCGAATCAATATTGAATTTTAAGACGAAATAAAGATATCTCTTC
568578 A
131 A
* ** *
568579 TTTCGATTGGAGTAATAAATGATTGTTTTAAGGTATGAGAGATCATTTATTCTCGATTGGAAATA
1 TTTCGATTGGAGTAATAAATGACTACTTTAAGGTATGAGAGGTCATTTATTCTCGATTGGAAATA
568644 ATTAGATATTA
66 ATTAGATATTA
568655 TTATTTTCTC
Statistics
Matches: 183, Mismatches: 23, Indels: 2
0.88 0.11 0.01
Matches are distributed among these distances:
131 178 0.97
132 5 0.03
ACGTcount: A:0.32, C:0.10, G:0.17, T:0.41
Consensus pattern (131 bp):
TTTCGATTGGAGTAATAAATGACTACTTTAAGGTATGAGAGGTCATTTATTCTCGATTGGAAATA
ATTAGATATTACCGTTTTCACTCGAATCAATATTGAATTTTAAGACGAAATAAAGATATCTCTTC
A
Found at i:576350 original size:21 final size:20
Alignment explanation
Indices: 576326--576396 Score: 52
Period size: 21 Copynumber: 3.3 Consensus size: 20
576316 TACGCAGTCC
576326 TTCGAGACATATATATGGTCA
1 TTCG-GACATATATATGGTCA
* * *
576347 TTCGGAACAATTCTACATGGTCT
1 TTCGG-AC-A-TATATATGGTCA
* *
576370 TTCGGGACATATATGTGGTCC
1 TTC-GGACATATATATGGTCA
576391 TTCGGA
1 TTCGGA
576397 ACAATTCTAT
Statistics
Matches: 39, Mismatches: 7, Indels: 9
0.71 0.13 0.16
Matches are distributed among these distances:
20 4 0.10
21 17 0.44
22 2 0.05
23 14 0.36
24 2 0.05
ACGTcount: A:0.25, C:0.18, G:0.23, T:0.34
Consensus pattern (20 bp):
TTCGGACATATATATGGTCA
Found at i:576366 original size:23 final size:23
Alignment explanation
Indices: 576337--576410 Score: 80
Period size: 23 Copynumber: 3.3 Consensus size: 23
576327 TCGAGACATA
576337 TATATGGTCATTCGGAACAATTC
1 TATATGGTCATTCGGAACAATTC
* * * *
576360 TACATGGTCTTTCGGGAC-A-TA
1 TATATGGTCATTCGGAACAATTC
* *
576381 TATGTGGTCCTTCGGAACAATTC
1 TATATGGTCATTCGGAACAATTC
576404 TATATGG
1 TATATGG
576411 CACTCAGTGC
Statistics
Matches: 39, Mismatches: 10, Indels: 4
0.74 0.19 0.08
Matches are distributed among these distances:
21 15 0.38
22 2 0.05
23 22 0.56
ACGTcount: A:0.26, C:0.18, G:0.22, T:0.35
Consensus pattern (23 bp):
TATATGGTCATTCGGAACAATTC
Found at i:576380 original size:44 final size:44
Alignment explanation
Indices: 576326--576410 Score: 134
Period size: 44 Copynumber: 1.9 Consensus size: 44
576316 TACGCAGTCC
576326 TTCGAGACATATATATGGTCATTCGGAACAATTCTACATGGTCT
1 TTCGAGACATATATATGGTCATTCGGAACAATTCTACATGGTCT
* * * *
576370 TTCGGGACATATATGTGGTCCTTCGGAACAATTCTATATGG
1 TTCGAGACATATATATGGTCATTCGGAACAATTCTACATGG
576411 CACTCAGTGC
Statistics
Matches: 37, Mismatches: 4, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
44 37 1.00
ACGTcount: A:0.27, C:0.18, G:0.21, T:0.34
Consensus pattern (44 bp):
TTCGAGACATATATATGGTCATTCGGAACAATTCTACATGGTCT
Found at i:576659 original size:18 final size:18
Alignment explanation
Indices: 576616--576652 Score: 65
Period size: 18 Copynumber: 2.1 Consensus size: 18
576606 TAAAAGGATT
576616 TAATGATAAAAATATTGA
1 TAATGATAAAAATATTGA
*
576634 TAATGATAAGAATATTGA
1 TAATGATAAAAATATTGA
576652 T
1 T
576653 GTTGATATAT
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
18 18 1.00
ACGTcount: A:0.51, C:0.00, G:0.14, T:0.35
Consensus pattern (18 bp):
TAATGATAAAAATATTGA
Found at i:583065 original size:44 final size:44
Alignment explanation
Indices: 583002--583091 Score: 137
Period size: 44 Copynumber: 2.0 Consensus size: 44
582992 GAGTCGAGGG
*
583002 TTCTACGCGGTCCTTCGAGACATATATATGGTCC-TTCGGGACAA
1 TTCTACGCGGTCCATCGAGACATATATATGG-CCATTCGGGACAA
* *
583046 TTCTATGCGGTCCATCGAGACATATATGTGGCCATTCGGGACAA
1 TTCTACGCGGTCCATCGAGACATATATATGGCCATTCGGGACAA
583090 TT
1 TT
583092 ATATATGGAA
Statistics
Matches: 42, Mismatches: 3, Indels: 2
0.89 0.06 0.04
Matches are distributed among these distances:
43 2 0.05
44 40 0.95
ACGTcount: A:0.23, C:0.23, G:0.23, T:0.30
Consensus pattern (44 bp):
TTCTACGCGGTCCATCGAGACATATATATGGCCATTCGGGACAA
Found at i:583094 original size:23 final size:24
Alignment explanation
Indices: 583008--583095 Score: 68
Period size: 21 Copynumber: 4.0 Consensus size: 24
582998 AGGGTTCTAC
*
583008 GCGGTCC-TTCGAGAC-ATATATAT
1 GCGGTCCATTCGGGACAAT-TATAT
*
583031 --GGTCC-TTCGGGACAATTCTAT
1 GCGGTCCATTCGGGACAATTATAT
*
583052 GCGGTCCA-TCGAGAC-A-TATAT
1 GCGGTCCATTCGGGACAATTATAT
*
583073 GTGG-CCATTCGGGACAATTATAT
1 GCGGTCCATTCGGGACAATTATAT
583096 ATGGAACTCA
Statistics
Matches: 52, Mismatches: 6, Indels: 14
0.72 0.08 0.19
Matches are distributed among these distances:
20 3 0.06
21 29 0.56
22 4 0.08
23 16 0.31
ACGTcount: A:0.25, C:0.22, G:0.24, T:0.30
Consensus pattern (24 bp):
GCGGTCCATTCGGGACAATTATAT
Found at i:586677 original size:16 final size:16
Alignment explanation
Indices: 586648--586689 Score: 50
Period size: 16 Copynumber: 2.7 Consensus size: 16
586638 CGATATCCTG
*
586648 TTTTC-TTTTTATTTT
1 TTTTCATTTTAATTTT
586663 TTTTCATTTTAATTTT
1 TTTTCATTTTAATTTT
* *
586679 ATATCATTTTA
1 TTTTCATTTTA
586690 CTAACTCAAA
Statistics
Matches: 23, Mismatches: 3, Indels: 1
0.85 0.11 0.04
Matches are distributed among these distances:
15 5 0.22
16 18 0.78
ACGTcount: A:0.19, C:0.07, G:0.00, T:0.74
Consensus pattern (16 bp):
TTTTCATTTTAATTTT
Found at i:588054 original size:242 final size:240
Alignment explanation
Indices: 587606--588058 Score: 708
Period size: 242 Copynumber: 1.9 Consensus size: 240
587596 ACTTATGTTA
* * *
587606 TTTTTTAAAATAACGATATATAAAAGATGATATTATTGATAATTTAATTTAAAAATCTAAAAATT
1 TTTTTTAAAAGAACAATATATAAAAGATAATATTATTGATAATTTAATTTAAAAATCTAAAAATT
* ** *
587671 TGATATATTATTTTTTTTATTTGCTTACAAACTTTTCAAGTCTGATATCAAGTAGCTAATTTTAC
66 TAATATATTATTTTTTCAATTTGCTTACAAACTTTTCAAGTCTGATATCAAGTAGCTAATTTGAC
* * *
587736 TCATTAAGAATTCGAGCTTGAGTCGAATCGATTTGATTTAAGAGTTGATCAAATTTTGTCTGAGC
131 TCATTAAGAATTCGAGCTTGAGTCGAAACGATTCGATTTAAGAGTTGATCAAATTTTGACTGAGC
*
587801 CGATCTCGAGTAACTTGCAATATGTCTCATCTCATTATGTTGTAT
196 CGATATCGAGTAACTTGCAATATGTCTCATCTCATTATGTTGTAT
* * *
587846 TTTTTTAAAAGAACAATATATAAATGTTAATATTATTGATAATTTAATTTAAAAATCTAAAAGTT
1 TTTTTTAAAAGAACAATATATAAAAGATAATATTATTGATAATTTAATTTAAAAATCTAAAAATT
** *
587911 TAATATATTATTTTTTCCAATTTGCTTACATGCTTTTCAAGTTTGATATCAAGTAGCTAATTTAG
66 TAATATATTATTTTTT-CAATTTGCTTACAAACTTTTCAAGTCTGATATCAAGTAGCTAATTT-G
* **
587976 ACTCATTAAGAATTCGAGCTTGAGTCGAAACTATTCGATTTAAGAGTTGATTGAATTTTGACTGA
129 ACTCATTAAGAATTCGAGCTTGAGTCGAAACGATTCGATTTAAGAGTTGATCAAATTTTGACTGA
588041 GCCGATATCGAGTAACTT
194 GCCGATATCGAGTAACTT
588059 ATTATCTATT
Statistics
Matches: 191, Mismatches: 20, Indels: 2
0.90 0.09 0.01
Matches are distributed among these distances:
240 74 0.39
241 41 0.21
242 76 0.40
ACGTcount: A:0.35, C:0.11, G:0.13, T:0.42
Consensus pattern (240 bp):
TTTTTTAAAAGAACAATATATAAAAGATAATATTATTGATAATTTAATTTAAAAATCTAAAAATT
TAATATATTATTTTTTCAATTTGCTTACAAACTTTTCAAGTCTGATATCAAGTAGCTAATTTGAC
TCATTAAGAATTCGAGCTTGAGTCGAAACGATTCGATTTAAGAGTTGATCAAATTTTGACTGAGC
CGATATCGAGTAACTTGCAATATGTCTCATCTCATTATGTTGTAT
Found at i:589471 original size:27 final size:23
Alignment explanation
Indices: 589433--589495 Score: 72
Period size: 27 Copynumber: 2.6 Consensus size: 23
589423 GATAATGGCT
589433 CTGAATCATTCAGAATGTACTTCTGTG
1 CTGAATCATTCAGAAT-TA-TT-T-TG
*
589460 CTGAATCATTCAGCATTATTTTG
1 CTGAATCATTCAGAATTATTTTG
*
589483 CTGAATCAGTCAG
1 CTGAATCATTCAG
589496 CACTGAATCA
Statistics
Matches: 34, Mismatches: 2, Indels: 4
0.85 0.05 0.10
Matches are distributed among these distances:
23 14 0.41
24 1 0.03
25 2 0.06
26 2 0.06
27 15 0.44
ACGTcount: A:0.27, C:0.19, G:0.17, T:0.37
Consensus pattern (23 bp):
CTGAATCATTCAGAATTATTTTG
Found at i:589488 original size:23 final size:27
Alignment explanation
Indices: 589433--589497 Score: 84
Period size: 23 Copynumber: 2.6 Consensus size: 27
589423 GATAATGGCT
*
589433 CTGAATCATTCAGAATGTACTTCTGTG
1 CTGAATCATTCAGCATGTACTTCTGTG
589460 CTGAATCATTCAGCAT-TA-TT-T-TG
1 CTGAATCATTCAGCATGTACTTCTGTG
*
589483 CTGAATCAGTCAGCA
1 CTGAATCATTCAGCA
589498 CTGAATCATT
Statistics
Matches: 36, Mismatches: 2, Indels: 4
0.86 0.05 0.10
Matches are distributed among these distances:
23 16 0.44
24 1 0.03
25 2 0.06
26 2 0.06
27 15 0.42
ACGTcount: A:0.28, C:0.20, G:0.17, T:0.35
Consensus pattern (27 bp):
CTGAATCATTCAGCATGTACTTCTGTG
Found at i:593087 original size:45 final size:45
Alignment explanation
Indices: 593002--593087 Score: 127
Period size: 45 Copynumber: 1.9 Consensus size: 45
592992 ATTCAAAATG
* *
593002 CCATAAGCTTGTAAGCATATTTTACCAAAATACTTACCATTTGTA
1 CCATAAGCTCGTAAGCATATTTTACCAAAACACTTACCATTTGTA
* * *
593047 CCATAAGCTCGTAAGCTTATTTTACCAATACACTTGCCATT
1 CCATAAGCTCGTAAGCATATTTTACCAAAACACTTACCATT
593088 ATTCCATAAC
Statistics
Matches: 36, Mismatches: 5, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
45 36 1.00
ACGTcount: A:0.33, C:0.23, G:0.09, T:0.35
Consensus pattern (45 bp):
CCATAAGCTCGTAAGCATATTTTACCAAAACACTTACCATTTGTA
Found at i:598694 original size:64 final size:65
Alignment explanation
Indices: 598554--598705 Score: 186
Period size: 64 Copynumber: 2.4 Consensus size: 65
598544 TGCATTGATA
*
598554 CATAAGGAGTGCATCGATGCA-CTCATTTAAATTAATGAACATCGAATACCATTAATACATCGAT
1 CATAAGGAGTGCATCGATGCACCTCATTTAAAATAA-GAACATCGAATACCATTAATACATCGAT
598618 G
65 G
* ** * *
598619 CATAAGGAGTGCATCGATGCACCTGA-TTAAAATACA-AACATCGAATAGGATTTATGCATCGAT
1 CATAAGGAGTGCATCGATGCACCTCATTTAAAATA-AGAACATCGAATACCATTAATACATCGAT
598682 G
65 G
*
598683 CAT-GGGTAGTGCATCGATGCACC
1 CATAAGG-AGTGCATCGATGCACC
598706 CGTCAAGGGA
Statistics
Matches: 77, Mismatches: 7, Indels: 7
0.85 0.08 0.08
Matches are distributed among these distances:
63 2 0.03
64 43 0.56
65 28 0.36
66 4 0.05
ACGTcount: A:0.36, C:0.19, G:0.20, T:0.26
Consensus pattern (65 bp):
CATAAGGAGTGCATCGATGCACCTCATTTAAAATAAGAACATCGAATACCATTAATACATCGATG
Found at i:599294 original size:22 final size:22
Alignment explanation
Indices: 599269--599348 Score: 133
Period size: 22 Copynumber: 3.6 Consensus size: 22
599259 CGGGACATAG
*
599269 TGGTCCTTAGGGACGTATCCAA
1 TGGTCCTTCGGGACGTATCCAA
*
599291 TGGTCCTTCGGGACGTATCCAG
1 TGGTCCTTCGGGACGTATCCAA
599313 TGGTCCTTCGGGACGTATCCAA
1 TGGTCCTTCGGGACGTATCCAA
*
599335 TGGTCCTTTGGGAC
1 TGGTCCTTCGGGAC
599349 ATAGTGGTCC
Statistics
Matches: 54, Mismatches: 4, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
22 54 1.00
ACGTcount: A:0.16, C:0.25, G:0.30, T:0.29
Consensus pattern (22 bp):
TGGTCCTTCGGGACGTATCCAA
Found at i:599358 original size:18 final size:18
Alignment explanation
Indices: 599335--599375 Score: 82
Period size: 18 Copynumber: 2.3 Consensus size: 18
599325 ACGTATCCAA
599335 TGGTCCTTTGGGACATAG
1 TGGTCCTTTGGGACATAG
599353 TGGTCCTTTGGGACATAG
1 TGGTCCTTTGGGACATAG
599371 TGGTC
1 TGGTC
599376 ATTCAGGACA
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
18 23 1.00
ACGTcount: A:0.15, C:0.17, G:0.34, T:0.34
Consensus pattern (18 bp):
TGGTCCTTTGGGACATAG
Found at i:599384 original size:18 final size:18
Alignment explanation
Indices: 599345--599385 Score: 55
Period size: 18 Copynumber: 2.3 Consensus size: 18
599335 TGGTCCTTTG
* **
599345 GGACATAGTGGTCCTTTG
1 GGACATAGTGGTCATTCA
599363 GGACATAGTGGTCATTCA
1 GGACATAGTGGTCATTCA
599381 GGACA
1 GGACA
599386 AATACTGAAC
Statistics
Matches: 20, Mismatches: 3, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
18 20 1.00
ACGTcount: A:0.24, C:0.17, G:0.32, T:0.27
Consensus pattern (18 bp):
GGACATAGTGGTCATTCA
Found at i:611768 original size:15 final size:15
Alignment explanation
Indices: 611749--611804 Score: 85
Period size: 15 Copynumber: 3.7 Consensus size: 15
611739 TTCATGGGGT
* *
611749 AAGAAGACAACGTCT
1 AAGAAGAAAACGTCA
611764 AAGAAGAAAACGTCA
1 AAGAAGAAAACGTCA
611779 AAGAAGAAAACGTCA
1 AAGAAGAAAACGTCA
611794 AAGAATGAAAA
1 AAGAA-GAAAA
611805 AGAAAGCATC
Statistics
Matches: 38, Mismatches: 2, Indels: 1
0.93 0.05 0.02
Matches are distributed among these distances:
15 33 0.87
16 5 0.13
ACGTcount: A:0.59, C:0.12, G:0.20, T:0.09
Consensus pattern (15 bp):
AAGAAGAAAACGTCA
Found at i:615695 original size:50 final size:50
Alignment explanation
Indices: 615635--615787 Score: 141
Period size: 50 Copynumber: 3.3 Consensus size: 50
615625 AGAACTTGTT
*
615635 GAAAAAGAAGAGGAGAAAGGAGAAGGGATACCGAAGACGGAAAAGAGAAA
1 GAAAAGGAAGAGGAGAAAGGAGAAGGGATACCGAAGACGGAAAAGAGAAA
*
615685 GAAAAGGAAGAGG-GTAAAGGAGAAGGGATA-C-----C-GTAAAG-G--A
1 GAAAAGGAAGAGGAG-AAAGGAGAAGGGATACCGAAGACGGAAAAGAGAAA
* * * *
615725 -AAAAGGAAGAGGAGAAAGAAGAAGGGACACCGAAGAGGGAAAGAAAGAAA
1 GAAAAGGAAGAGGAGAAAGGAGAAGGGATACCGAAGACGGAAA-AGAGAAA
*
615775 GAAAAGGAGGAGG
1 GAAAAGGAAGAGG
615788 GAACACCGCA
Statistics
Matches: 81, Mismatches: 8, Indels: 27
0.70 0.07 0.23
Matches are distributed among these distances:
39 25 0.31
40 3 0.04
42 1 0.01
43 5 0.06
44 1 0.01
46 3 0.04
47 1 0.01
48 1 0.01
49 2 0.02
50 28 0.35
51 11 0.14
ACGTcount: A:0.54, C:0.05, G:0.39, T:0.03
Consensus pattern (50 bp):
GAAAAGGAAGAGGAGAAAGGAGAAGGGATACCGAAGACGGAAAAGAGAAA
Found at i:616315 original size:12 final size:12
Alignment explanation
Indices: 616295--616325 Score: 53
Period size: 12 Copynumber: 2.6 Consensus size: 12
616285 TAATCCCGTG
*
616295 TTTGTTTTTTCA
1 TTTGATTTTTCA
616307 TTTGATTTTTCA
1 TTTGATTTTTCA
616319 TTTGATT
1 TTTGATT
616326 ATCAATATAT
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
12 18 1.00
ACGTcount: A:0.13, C:0.06, G:0.10, T:0.71
Consensus pattern (12 bp):
TTTGATTTTTCA
Found at i:617825 original size:6 final size:6
Alignment explanation
Indices: 617814--618017 Score: 176
Period size: 6 Copynumber: 34.2 Consensus size: 6
617804 TCAATCTACA
* * *
617814 ATATAT ATATAT ATATAT ATATAT ATATTT ATATTT ATATAT TTATAT
1 ATATAT ATATAT ATATAT ATATAT ATATAT ATATAT ATATAT ATATAT
* * * * * * * * *
617862 TTATAT TTATAT TTATAT TTATAT TTATTT ATATTT ATATTT ATATTT
1 ATATAT ATATAT ATATAT ATATAT ATATAT ATATAT ATATAT ATATAT
* * * * * * *
617910 ATATTT ATATTT ATATTT ATATTT ATATTT ATATTT ATAT-T ATATTT
1 ATATAT ATATAT ATATAT ATATAT ATATAT ATATAT ATATAT ATATAT
* * * * * *
617957 ATTTAT ATTTAT ATTTAT ATTTAT ATATAT ATATTT ATTTAT ATATAT
1 ATATAT ATATAT ATATAT ATATAT ATATAT ATATAT ATATAT ATATAT
618005 ATATAT ATATAT A
1 ATATAT ATATAT A
618018 ATTTCCGAAA
Statistics
Matches: 185, Mismatches: 12, Indels: 2
0.93 0.06 0.01
Matches are distributed among these distances:
5 5 0.03
6 180 0.97
ACGTcount: A:0.38, C:0.00, G:0.00, T:0.62
Consensus pattern (6 bp):
ATATAT
Found at i:617837 original size:18 final size:18
Alignment explanation
Indices: 617814--618017 Score: 220
Period size: 18 Copynumber: 11.6 Consensus size: 18
617804 TCAATCTACA
*
617814 ATATATATATATATATAT
1 ATATATTTATATATATAT
* * *
617832 ATATATATATTTATATTT
1 ATATATTTATATATATAT
*
617850 ATATATTTATATTTATAT
1 ATATATTTATATATATAT
*
617868 TTATATTTATAT-T-TAT
1 ATATATTTATATATATAT
* *
617884 ATTTATTTATATTTATAT
1 ATATATTTATATATATAT
* *
617902 TTATATTTATATTTATAT
1 ATATATTTATATATATAT
* *
617920 TTATATTTATATTTATAT
1 ATATATTTATATATATAT
*
617938 TTATATTTATAT-TATAT
1 ATATATTTATATATATAT
*
617955 -T-TATTTATATTTATAT
1 ATATATTTATATATATAT
*
617971 TTATATTTATATATATAT
1 ATATATTTATATATATAT
*
617989 ATTTATTTATATATATAT
1 ATATATTTATATATATAT
*
618007 ATATATATATA
1 ATATATTTATA
618018 ATTTCCGAAA
Statistics
Matches: 165, Mismatches: 16, Indels: 10
0.86 0.08 0.05
Matches are distributed among these distances:
15 9 0.05
16 19 0.12
17 8 0.05
18 129 0.78
ACGTcount: A:0.38, C:0.00, G:0.00, T:0.62
Consensus pattern (18 bp):
ATATATTTATATATATAT
Found at i:618136 original size:15 final size:15
Alignment explanation
Indices: 618113--618153 Score: 55
Period size: 15 Copynumber: 2.7 Consensus size: 15
618103 TGTGTGTCAT
*
618113 AAATTTATGACACAC
1 AAATTTATGACAAAC
* *
618128 AAATGTATGTCAAAC
1 AAATTTATGACAAAC
618143 AAATTTATGAC
1 AAATTTATGAC
618154 GGGGGCTTCA
Statistics
Matches: 21, Mismatches: 5, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
15 21 1.00
ACGTcount: A:0.46, C:0.15, G:0.10, T:0.29
Consensus pattern (15 bp):
AAATTTATGACAAAC
Found at i:618162 original size:85 final size:85
Alignment explanation
Indices: 618073--618371 Score: 449
Period size: 85 Copynumber: 3.5 Consensus size: 85
618063 AATGATGTGT
* * *
618073 GCTTCAATGACACGCAATGTAAGTCATATATGTGTGTCATAAATTTATGACACACAAATGTATGT
1 GCTTCAATGACGCGCAATGTAAGTCATACATGCGTGTCATAAATTTATGACACACAAATGTATGT
*
618138 CAAACAAATTTATGACGGGG
66 CAAACTAATTTATGACGGGG
* *
618158 GCTTCAATGACGCGCAATGTAAGTCATACATGCGTGTCATAAATTTATGACGCACAAATGTGTGT
1 GCTTCAATGACGCGCAATGTAAGTCATACATGCGTGTCATAAATTTATGACACACAAATGTATGT
*
618223 C-ATCTTAATTTATGACGGGG
66 CAAAC-TAATTTATGACGGGG
*
618243 GCTTTAATGACGCGCAATGTAAGTCATACATGCGTGTCATAAATTTATGACACACAAATG-AGTG
1 GCTTCAATGACGCGCAATGTAAGTCATACATGCGTGTCATAAATTTATGACACACAAATGTA-TG
* * * *
618307 TCATATTAATTTATGACAGAG
65 TCAAACTAATTTATGACGGGG
*
618328 GCTTCAATGACGCGCAATGTAAGTCATACATGCGCGTCATAAAT
1 GCTTCAATGACGCGCAATGTAAGTCATACATGCGTGTCATAAAT
618372 GCGTGTCATA
Statistics
Matches: 194, Mismatches: 17, Indels: 6
0.89 0.08 0.03
Matches are distributed among these distances:
84 2 0.01
85 192 0.99
ACGTcount: A:0.33, C:0.17, G:0.20, T:0.29
Consensus pattern (85 bp):
GCTTCAATGACGCGCAATGTAAGTCATACATGCGTGTCATAAATTTATGACACACAAATGTATGT
CAAACTAATTTATGACGGGG
Found at i:618368 original size:13 final size:13
Alignment explanation
Indices: 618350--618394 Score: 54
Period size: 13 Copynumber: 3.5 Consensus size: 13
618340 CGCAATGTAA
*
618350 GTCATACATGCGC
1 GTCATAAATGCGC
*
618363 GTCATAAATGCGT
1 GTCATAAATGCGC
**
618376 GTCATAAATAAGC
1 GTCATAAATGCGC
618389 GTCATA
1 GTCATA
618395 TATTTATGAC
Statistics
Matches: 27, Mismatches: 5, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
13 27 1.00
ACGTcount: A:0.33, C:0.20, G:0.20, T:0.27
Consensus pattern (13 bp):
GTCATAAATGCGC
Found at i:628876 original size:121 final size:120
Alignment explanation
Indices: 628674--628899 Score: 285
Period size: 121 Copynumber: 1.9 Consensus size: 120
628664 TATATTAATT
* * * *
628674 TATATATATTTATAAATAAAATATTTATTTATTTAGAAATATCAGAAAATGACTTCTAGGTGCCT
1 TATATATATTTATAAATAAAATATTTATCTATTTAAAAATATCAGAAAATGACATCCAGGTGCCT
* *
628739 TAAGACAACTCTTTTCTTCGATATTAAAAAATAAATAAATAATTAAACAATAATAA
66 TAAGACAACTCCTTTCTT-AATATTAAAAAATAAATAAATAATTAAACAATAATAA
** * *
628795 TATATA-ATTTATAAAATAGGATATTTATCTATTTAAAAATATCAGAAAATAGACATCCAGTTGT
1 TATATATATTTAT-AAATAAAATATTTATCTATTTAAAAATATCAGAAAAT-GACATCCAGGTGC
* ** *
628859 TTTAAGACTGC-CCTTTCTTAATATTGAAAAATAAATAAATA
64 CTTAAGACAACTCCTTTCTTAATATTAAAAAATAAATAAATA
628900 TATATTAAAA
Statistics
Matches: 89, Mismatches: 14, Indels: 5
0.82 0.13 0.05
Matches are distributed among these distances:
120 26 0.29
121 46 0.52
122 17 0.19
ACGTcount: A:0.46, C:0.09, G:0.08, T:0.37
Consensus pattern (120 bp):
TATATATATTTATAAATAAAATATTTATCTATTTAAAAATATCAGAAAATGACATCCAGGTGCCT
TAAGACAACTCCTTTCTTAATATTAAAAAATAAATAAATAATTAAACAATAATAA
Found at i:628992 original size:18 final size:16
Alignment explanation
Indices: 628961--628995 Score: 54
Period size: 16 Copynumber: 2.2 Consensus size: 16
628951 GAATAAACAA
628961 ATATTATTTATTATAT
1 ATATTATTTATTATAT
628977 ATATATATTTATT-TAT
1 ATAT-TATTTATTATAT
628993 ATA
1 ATA
628996 AATAATAAAA
Statistics
Matches: 18, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
16 10 0.56
17 8 0.44
ACGTcount: A:0.40, C:0.00, G:0.00, T:0.60
Consensus pattern (16 bp):
ATATTATTTATTATAT
Found at i:630287 original size:6 final size:6
Alignment explanation
Indices: 630278--630317 Score: 53
Period size: 6 Copynumber: 6.7 Consensus size: 6
630268 ACATTCACAT
* * *
630278 ATTTAC ATTTGC ATTTAC ATTTGC ATTTAC ATTTGC ATTT
1 ATTTAC ATTTAC ATTTAC ATTTAC ATTTAC ATTTAC ATTT
630318 TTTTTACGTT
Statistics
Matches: 29, Mismatches: 5, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
6 29 1.00
ACGTcount: A:0.25, C:0.15, G:0.07, T:0.53
Consensus pattern (6 bp):
ATTTAC
Found at i:630295 original size:12 final size:12
Alignment explanation
Indices: 630278--630317 Score: 80
Period size: 12 Copynumber: 3.3 Consensus size: 12
630268 ACATTCACAT
630278 ATTTACATTTGC
1 ATTTACATTTGC
630290 ATTTACATTTGC
1 ATTTACATTTGC
630302 ATTTACATTTGC
1 ATTTACATTTGC
630314 ATTT
1 ATTT
630318 TTTTTACGTT
Statistics
Matches: 28, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 28 1.00
ACGTcount: A:0.25, C:0.15, G:0.07, T:0.53
Consensus pattern (12 bp):
ATTTACATTTGC
Found at i:634636 original size:114 final size:114
Alignment explanation
Indices: 634435--634660 Score: 380
Period size: 114 Copynumber: 2.0 Consensus size: 114
634425 GTGCCACGTT
*
634435 CTCATAGTAGAAATAAGGAGACCCAATAGCATCTTCTGGAAGTGTTCTTTGAGTTATCTGATCTG
1 CTCATAGTAGAAATAAGGAGACCCAATAGCATCTTCTGGAAGTGTTCTTTGAGTTATCTGATATG
* * * *
634500 ATTTAGTATGAACCCCAAAACCAATCATTGGATTTGAAAGATGAATTTG
66 ATTCAGTAGGAACCCCAAAACCAATCATTGGAATTGAAAGATAAATTTG
634549 CTCATAGTAGAAATAAGGAGACCCAATAGCATCTTCTGGAAGTGTTCTTTGAGTTATCTGATATG
1 CTCATAGTAGAAATAAGGAGACCCAATAGCATCTTCTGGAAGTGTTCTTTGAGTTATCTGATATG
* * *
634614 GTTCGGTAGGAACCCCAGAACCAATCATTGGAATTGAAAGATAAATT
66 ATTCAGTAGGAACCCCAAAACCAATCATTGGAATTGAAAGATAAATT
634661 GCATGATCAT
Statistics
Matches: 104, Mismatches: 8, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
114 104 1.00
ACGTcount: A:0.34, C:0.16, G:0.20, T:0.30
Consensus pattern (114 bp):
CTCATAGTAGAAATAAGGAGACCCAATAGCATCTTCTGGAAGTGTTCTTTGAGTTATCTGATATG
ATTCAGTAGGAACCCCAAAACCAATCATTGGAATTGAAAGATAAATTTG
Found at i:636464 original size:39 final size:39
Alignment explanation
Indices: 636384--636464 Score: 108
Period size: 39 Copynumber: 2.1 Consensus size: 39
636374 TGCTCATTAT
* * * *
636384 AGAAGAAAACGTGATCAGTATTACATTTGCCTTTGCCCG
1 AGAAGAAAACGTGATCAGTATCACACTTGCCCTTACCCG
* *
636423 AGAAGAAAACGTGATCGGTATCACACTTGCCCTTACTCG
1 AGAAGAAAACGTGATCAGTATCACACTTGCCCTTACCCG
636462 AGA
1 AGA
636465 TAAAATCAAT
Statistics
Matches: 36, Mismatches: 6, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
39 36 1.00
ACGTcount: A:0.32, C:0.22, G:0.21, T:0.25
Consensus pattern (39 bp):
AGAAGAAAACGTGATCAGTATCACACTTGCCCTTACCCG
Found at i:636729 original size:54 final size:54
Alignment explanation
Indices: 636643--636754 Score: 188
Period size: 54 Copynumber: 2.1 Consensus size: 54
636633 CAATGATTGA
* * *
636643 GAACATCTGAGCAGAAGCCACAGGAAATGATGAATGTGTTGTCAAATGTTCTAC
1 GAACATCTGAGCAGAAGCCACAGGAAAGGATGAATGCGCTGTCAAATGTTCTAC
*
636697 GAACATCTGAGCAGAAGCCACAGGAAAGGATGAATGCGCTGTCAAATGTTTTAC
1 GAACATCTGAGCAGAAGCCACAGGAAAGGATGAATGCGCTGTCAAATGTTCTAC
636751 GAAC
1 GAAC
636755 CTATTATTCT
Statistics
Matches: 54, Mismatches: 4, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
54 54 1.00
ACGTcount: A:0.36, C:0.18, G:0.25, T:0.21
Consensus pattern (54 bp):
GAACATCTGAGCAGAAGCCACAGGAAAGGATGAATGCGCTGTCAAATGTTCTAC
Found at i:637158 original size:22 final size:22
Alignment explanation
Indices: 637121--637175 Score: 65
Period size: 22 Copynumber: 2.5 Consensus size: 22
637111 ATCTACACTC
* *
637121 TTCAAAGATGATAGATTCCCTT
1 TTCAAAAATGACAGATTCCCTT
* *
637143 TTTAAAAATGACAGATTCTCTT
1 TTCAAAAATGACAGATTCCCTT
*
637165 TTCAAAGATGA
1 TTCAAAAATGA
637176 AAGCTTTATC
Statistics
Matches: 27, Mismatches: 6, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
22 27 1.00
ACGTcount: A:0.36, C:0.15, G:0.13, T:0.36
Consensus pattern (22 bp):
TTCAAAAATGACAGATTCCCTT
Found at i:638147 original size:76 final size:77
Alignment explanation
Indices: 638030--638245 Score: 355
Period size: 76 Copynumber: 2.8 Consensus size: 77
638020 CAAGTCTTGC
* * *
638030 AGTGCATGATGTTTCCAAAAAGCCTTCAGGAGCTTTTTGATGTTTTCATAGCCTTAGGGTCATTT
1 AGTGCATGATGTTTCCAAAAAGCCTTCGGGAGCTTTTTGATGTTTTCAAAGCCTTAGGGTCATCT
638095 GTAAGTCCT-AT
66 GTAAGTCCTGAT
*
638106 AGTGCATGATGTTTCCAAAAATCCTTCGGGAGCTTTTTGATGTTTTCAAAGCCTTAGGGTCATCT
1 AGTGCATGATGTTTCCAAAAAGCCTTCGGGAGCTTTTTGATGTTTTCAAAGCCTTAGGGTCATCT
*
638171 GTAAGTCCTGCT
66 GTAAGTCCTGAT
* *
638183 -GTGCATGATGTTTCCAAAAAGCCTTCGGGAGCTTTTTGATGTTTTCAAAACCTTCGGGTCATC
1 AGTGCATGATGTTTCCAAAAAGCCTTCGGGAGCTTTTTGATGTTTTCAAAGCCTTAGGGTCATC
638246 AGCATTACCA
Statistics
Matches: 131, Mismatches: 8, Indels: 2
0.93 0.06 0.01
Matches are distributed among these distances:
76 130 0.99
77 1 0.01
ACGTcount: A:0.23, C:0.19, G:0.22, T:0.37
Consensus pattern (77 bp):
AGTGCATGATGTTTCCAAAAAGCCTTCGGGAGCTTTTTGATGTTTTCAAAGCCTTAGGGTCATCT
GTAAGTCCTGAT
Found at i:638391 original size:113 final size:113
Alignment explanation
Indices: 638261--638617 Score: 678
Period size: 113 Copynumber: 3.2 Consensus size: 113
638251 TACCAGGTAG
638261 AGTTCATAATGAGAAGAACTCATCTGAAGAATGAAGAAGAAGTTCATAATGAAAAGAGCTTATTC
1 AGTTCATAATGAGAAGAACTCATCTGAAGAATGAAGAAGAAGTTCATAATGAAAAGAGCTTATTC
638326 AACCTTTTGCTCAAATCCATCACTTGATGGATCAACTTTTCCAGAGAA
66 AACCTTTTGCTCAAATCCATCACTTGATGGATCAACTTTTCCAGAGAA
* *
638374 AGTTCATAATGAGAAGAACTCATCTGAAGAAGGAAGAAGAAGTTCATAATGAAAAGAACTTATTC
1 AGTTCATAATGAGAAGAACTCATCTGAAGAATGAAGAAGAAGTTCATAATGAAAAGAGCTTATTC
638439 AACCTTTTGCTCAAATCCATCACTTGATGGATCAACTTTTCCAGAGAA
66 AACCTTTTGCTCAAATCCATCACTTGATGGATCAACTTTTCCAGAGAA
*
638487 AGTTCATAATGAGAAGAACTCATCTGAAGAATGAAGAAGAAGTTCATAATGAGAAGAGCTTATTC
1 AGTTCATAATGAGAAGAACTCATCTGAAGAATGAAGAAGAAGTTCATAATGAAAAGAGCTTATTC
*
638552 AACCTTTTGCTCAAAACCATCACTTGATGGATCAACTTTTCCAGAGAA
66 AACCTTTTGCTCAAATCCATCACTTGATGGATCAACTTTTCCAGAGAA
638600 AGTTCATAATGAGAAGAA
1 AGTTCATAATGAGAAGAA
638618 GAAGTTCATA
Statistics
Matches: 238, Mismatches: 6, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
113 238 1.00
ACGTcount: A:0.40, C:0.16, G:0.17, T:0.27
Consensus pattern (113 bp):
AGTTCATAATGAGAAGAACTCATCTGAAGAATGAAGAAGAAGTTCATAATGAAAAGAGCTTATTC
AACCTTTTGCTCAAATCCATCACTTGATGGATCAACTTTTCCAGAGAA
Found at i:638624 original size:20 final size:20
Alignment explanation
Indices: 638599--638636 Score: 76
Period size: 20 Copynumber: 1.9 Consensus size: 20
638589 TTTCCAGAGA
638599 AAGTTCATAATGAGAAGAAG
1 AAGTTCATAATGAGAAGAAG
638619 AAGTTCATAATGAGAAGA
1 AAGTTCATAATGAGAAGA
638637 GCTTATTCAA
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
20 18 1.00
ACGTcount: A:0.50, C:0.05, G:0.24, T:0.21
Consensus pattern (20 bp):
AAGTTCATAATGAGAAGAAG
Found at i:638648 original size:206 final size:206
Alignment explanation
Indices: 638406--639049 Score: 982
Period size: 206 Copynumber: 3.0 Consensus size: 206
638396 TCTGAAGAAG
638406 GAAGAAGAAGTTCATAATGAAAAGAACTTATTCAACCTTTTGCTCAAATCCATCACTTGATGGAT
1 GAAGAAGAAGTTCATAATGAAAAGAACTTATTCAACCTTTTGCTCAAATCCATCACTTGATGGAT
*
638471 CAACTTTTCCAGAGAAAGTTCATAATGAGAAGAACTCATCTGAAGAATGAAGAAGAAGTTCATAA
66 CAACTTTTCCAGAGAAAGTTCATAATGAGAAGAACTCATCTGAAGAAGGAAGAAGAAGTTCATAA
638536 TGAGAAGAGCTTATTCAACCTTTTGCTCAAAACCATCACTTGATGGATCAACTTTTCCAGAGAAA
131 TGAGAAGAGCTTATTCAACCTTTTGCTCAAAACCATCACTTGATGGATCAACTTTTCCAGAGAAA
638601 GTTCATAATGA
196 GTTCATAATGA
* *
638612 GAAGAAGAAGTTCATAATGAGAAGAGCTTATTCAACCTTTTGCTCAAATCCATCACTTGATGGAT
1 GAAGAAGAAGTTCATAATGAAAAGAACTTATTCAACCTTTTGCTCAAATCCATCACTTGATGGAT
638677 CAACTTTTCCAGAGAAAGTTCATAATGAGAAGAACTCATCTGAAGAAGGAAGAAGAAGTTCATAA
66 CAACTTTTCCAGAGAAAGTTCATAATGAGAAGAACTCATCTGAAGAAGGAAGAAGAAGTTCATAA
*
638742 TGAGAAGAGCTTATTCAACCTTTTGCTCAAATCCATCACTTGATGGATCAACTTTTCCAGAGAAA
131 TGAGAAGAGCTTATTCAACCTTTTGCTCAAAACCATCACTTGATGGATCAACTTTTCCAGAGAAA
638807 GTTCATAATGAGAAGAACTCATCTGAAGAA
196 GTTC---AT-------A---A--T---G-A
* * *
638837 GGAAGAAGAAGTTCATAATGAGAAGAGCATATTCAACCTTTTGCTCAAATCCATCACTTGATGGA
1 -GAAGAAGAAGTTCATAATGAAAAGAACTTATTCAACCTTTTGCTCAAATCCATCACTTGATGGA
* *
638902 TCAACTTTTCCAGAGAAAGTTCATAATCAGAAGAACTTATCTGAAGAAGGAAGAAGAAGTTCATA
65 TCAACTTTTCCAGAGAAAGTTCATAATGAGAAGAACTCATCTGAAGAAGGAAGAAGAAGTTCATA
* * * * *
638967 ATGAGAAGTGCTTGTTCAACCTTTTGCTCAAATCCATCACTCGATGGATCAGCTTTTCCAGAGAA
130 ATGAGAAGAGCTTATTCAACCTTTTGCTCAAAACCATCACTTGATGGATCAACTTTTCCAGAGAA
639032 AGTTCATAATGA
195 AGTTCATAATGA
639044 GAAGAA
1 GAAGAA
639050 CTTATATGAA
Statistics
Matches: 407, Mismatches: 11, Indels: 40
0.89 0.02 0.09
Matches are distributed among these distances:
206 201 0.49
207 1 0.00
208 1 0.00
209 2 0.00
211 1 0.00
213 1 0.00
216 2 0.00
219 1 0.00
221 1 0.00
223 2 0.00
224 1 0.00
225 1 0.00
226 192 0.47
ACGTcount: A:0.38, C:0.17, G:0.18, T:0.27
Consensus pattern (206 bp):
GAAGAAGAAGTTCATAATGAAAAGAACTTATTCAACCTTTTGCTCAAATCCATCACTTGATGGAT
CAACTTTTCCAGAGAAAGTTCATAATGAGAAGAACTCATCTGAAGAAGGAAGAAGAAGTTCATAA
TGAGAAGAGCTTATTCAACCTTTTGCTCAAAACCATCACTTGATGGATCAACTTTTCCAGAGAAA
GTTCATAATGA
Found at i:638678 original size:93 final size:93
Alignment explanation
Indices: 638519--638710 Score: 375
Period size: 93 Copynumber: 2.1 Consensus size: 93
638509 TCTGAAGAAT
638519 GAAGAAGAAGTTCATAATGAGAAGAGCTTATTCAACCTTTTGCTCAAAACCATCACTTGATGGAT
1 GAAGAAGAAGTTCATAATGAGAAGAGCTTATTCAACCTTTTGCTCAAAACCATCACTTGATGGAT
638584 CAACTTTTCCAGAGAAAGTTCATAATGA
66 CAACTTTTCCAGAGAAAGTTCATAATGA
*
638612 GAAGAAGAAGTTCATAATGAGAAGAGCTTATTCAACCTTTTGCTCAAATCCATCACTTGATGGAT
1 GAAGAAGAAGTTCATAATGAGAAGAGCTTATTCAACCTTTTGCTCAAAACCATCACTTGATGGAT
638677 CAACTTTTCCAGAGAAAGTTCATAATGA
66 CAACTTTTCCAGAGAAAGTTCATAATGA
638705 GAAGAA
1 GAAGAA
638711 CTCATCTGAA
Statistics
Matches: 98, Mismatches: 1, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
93 98 1.00
ACGTcount: A:0.38, C:0.17, G:0.18, T:0.28
Consensus pattern (93 bp):
GAAGAAGAAGTTCATAATGAGAAGAGCTTATTCAACCTTTTGCTCAAAACCATCACTTGATGGAT
CAACTTTTCCAGAGAAAGTTCATAATGA
Found at i:638729 original size:113 final size:113
Alignment explanation
Indices: 638612--639087 Score: 864
Period size: 113 Copynumber: 4.2 Consensus size: 113
638602 TTCATAATGA
638612 GAAGAAGAAGTTCATAATGAGAAGAGCTTATTCAACCTTTTGCTCAAATCCATCACTTGATGGAT
1 GAAGAAGAAGTTCATAATGAGAAGAGCTTATTCAACCTTTTGCTCAAATCCATCACTTGATGGAT
638677 CAACTTTTCCAGAGAAAGTTCATAATGAGAAGAACTCATCTGAAGAAG
66 CAACTTTTCCAGAGAAAGTTCATAATGAGAAGAACTCATCTGAAGAAG
638725 GAAGAAGAAGTTCATAATGAGAAGAGCTTATTCAACCTTTTGCTCAAATCCATCACTTGATGGAT
1 GAAGAAGAAGTTCATAATGAGAAGAGCTTATTCAACCTTTTGCTCAAATCCATCACTTGATGGAT
638790 CAACTTTTCCAGAGAAAGTTCATAATGAGAAGAACTCATCTGAAGAAG
66 CAACTTTTCCAGAGAAAGTTCATAATGAGAAGAACTCATCTGAAGAAG
*
638838 GAAGAAGAAGTTCATAATGAGAAGAGCATATTCAACCTTTTGCTCAAATCCATCACTTGATGGAT
1 GAAGAAGAAGTTCATAATGAGAAGAGCTTATTCAACCTTTTGCTCAAATCCATCACTTGATGGAT
* *
638903 CAACTTTTCCAGAGAAAGTTCATAATCAGAAGAACTTATCTGAAGAAG
66 CAACTTTTCCAGAGAAAGTTCATAATGAGAAGAACTCATCTGAAGAAG
* * *
638951 GAAGAAGAAGTTCATAATGAGAAGTGCTTGTTCAACCTTTTGCTCAAATCCATCACTCGATGGAT
1 GAAGAAGAAGTTCATAATGAGAAGAGCTTATTCAACCTTTTGCTCAAATCCATCACTTGATGGAT
* * *
639016 CAGCTTTTCCAGAGAAAGTTCATAATGAGAAGAACTTATATGAAGAA-
66 CAACTTTTCCAGAGAAAGTTCATAATGAGAAGAACTCATCTGAAGAAG
639063 GAAGAAGAAGTTCATAATGAGAAGA
1 GAAGAAGAAGTTCATAATGAGAAGA
639088 ACTCATATGA
Statistics
Matches: 352, Mismatches: 11, Indels: 1
0.97 0.03 0.00
Matches are distributed among these distances:
112 24 0.07
113 328 0.93
ACGTcount: A:0.39, C:0.16, G:0.19, T:0.26
Consensus pattern (113 bp):
GAAGAAGAAGTTCATAATGAGAAGAGCTTATTCAACCTTTTGCTCAAATCCATCACTTGATGGAT
CAACTTTTCCAGAGAAAGTTCATAATGAGAAGAACTCATCTGAAGAAG
Found at i:638872 original size:319 final size:326
Alignment explanation
Indices: 638288--639090 Score: 1316
Period size: 319 Copynumber: 2.4 Consensus size: 326
638278 ACTCATCTGA
* *
638288 AGAATGAAGAAGAAGTTCATAATGAAAAGAGCTTATTCAACCTTTTGCTCAAATCCATCACTTGA
1 AGAAGGAAGAAGAAGTTCATAATGAGAAGAGCTTATTCAACCTTTTGCTCAAATCCATCACTTGA
638353 TGGATCAACTTTTCCAGAGAAAGTTCATAATGAGAAGAACTCATCTGAAGAAGGAAGAAGAAGTT
66 TGGATCAACTTTTCCAGAGAAAGTTCATAATGAGAAGAACTCATCTGAAGAAGGAAGAAGAAGTT
*
638418 CATAATGAAAAGAACTTATTCAACCTTTTGCTCAAATCCATCACTTGATGGATCAACTTTTCCAG
131 CATAATGAGAAGAACTTATTCAACCTTTTGCTCAAATCCATCACTTGATGGATCAACTTTTCCAG
* *
638483 AGAAAGTTCATAATGAGAAGAACTCATCTGAAGAATGAAGAAGAAGTTCATAATGAGAAGAGCTT
196 AGAAAGTTCATAATGAGAAGAACTCATCTGAAGAAGGAAGAAGAAGTTCATAATGAGAAGAGCAT
638548 ATTCAACCTTTTGCTCAAAACCATCACTTGATGGATCAACTTTTCCAGAGAAAGTTC-AT-A-A-
261 ATTCAACCTTTTGCTCAAAACCATCACTTGATGGATCAACTTTTCCAGAGAAAGTTCAATAATAC
638609 T
326 T
638610 -G-A-GAAGAAGAAGTTCATAATGAGAAGAGCTTATTCAACCTTTTGCTCAAATCCATCACTTGA
1 AGAAGGAAGAAGAAGTTCATAATGAGAAGAGCTTATTCAACCTTTTGCTCAAATCCATCACTTGA
638672 TGGATCAACTTTTCCAGAGAAAGTTCATAATGAGAAGAACTCATCTGAAGAAGGAAGAAGAAGTT
66 TGGATCAACTTTTCCAGAGAAAGTTCATAATGAGAAGAACTCATCTGAAGAAGGAAGAAGAAGTT
*
638737 CATAATGAGAAGAGCTTATTCAACCTTTTGCTCAAATCCATCACTTGATGGATCAACTTTTCCAG
131 CATAATGAGAAGAACTTATTCAACCTTTTGCTCAAATCCATCACTTGATGGATCAACTTTTCCAG
638802 AGAAAGTTCATAATGAGAAGAACTCATCTGAAGAAGGAAGAAGAAGTTCATAATGAGAAGAGCAT
196 AGAAAGTTCATAATGAGAAGAACTCATCTGAAGAAGGAAGAAGAAGTTCATAATGAGAAGAGCAT
*
638867 ATTCAACCTTTTGCTCAAATCCATCACTTGATGGATCAACTTTTCCAGAGAAAGTTCATAATCAG
261 ATTCAACCTTTTGCTCAAAACCATCACTTGATGGATCAACTTTTCCAGAGAAAGTTC--AAT---
638932 AAGAACTTATCT
321 ---AA--TA-CT
* * *
638944 GAAGAAGGAAGAAGAAGTTCATAATGAGAAGTGCTTGTTCAACCTTTTGCTCAAATCCATCACTC
1 --AGAAGGAAGAAGAAGTTCATAATGAGAAGAGCTTATTCAACCTTTTGCTCAAATCCATCACTT
* * *
639009 GATGGATCAGCTTTTCCAGAGAAAGTTCATAATGAGAAGAACTTATATGAAGAA-GAAGAAGAAG
64 GATGGATCAACTTTTCCAGAGAAAGTTCATAATGAGAAGAACTCATCTGAAGAAGGAAGAAGAAG
639073 TTCATAATGAGAAGAACT
129 TTCATAATGAGAAGAACT
639091 CATATGAAGA
Statistics
Matches: 448, Mismatches: 13, Indels: 24
0.92 0.03 0.05
Matches are distributed among these distances:
319 306 0.68
320 1 0.00
321 1 0.00
322 2 0.00
329 1 0.00
332 1 0.00
334 1 0.00
337 1 0.00
338 28 0.06
339 106 0.24
ACGTcount: A:0.39, C:0.16, G:0.18, T:0.27
Consensus pattern (326 bp):
AGAAGGAAGAAGAAGTTCATAATGAGAAGAGCTTATTCAACCTTTTGCTCAAATCCATCACTTGA
TGGATCAACTTTTCCAGAGAAAGTTCATAATGAGAAGAACTCATCTGAAGAAGGAAGAAGAAGTT
CATAATGAGAAGAACTTATTCAACCTTTTGCTCAAATCCATCACTTGATGGATCAACTTTTCCAG
AGAAAGTTCATAATGAGAAGAACTCATCTGAAGAAGGAAGAAGAAGTTCATAATGAGAAGAGCAT
ATTCAACCTTTTGCTCAAAACCATCACTTGATGGATCAACTTTTCCAGAGAAAGTTCAATAATAC
T
Found at i:639085 original size:39 final size:39
Alignment explanation
Indices: 639031--639110 Score: 135
Period size: 39 Copynumber: 2.1 Consensus size: 39
639021 TTTCCAGAGA
*
639031 AAGTTCATAATGAGAAGAACTTATATGAAGAA-GAAGAAG
1 AAGTTCATAATGAGAAGAACTCATATGAAGAATG-AGAAG
639070 AAGTTCATAATGAGAAGAACTCATATGAAGAATGAGAAG
1 AAGTTCATAATGAGAAGAACTCATATGAAGAATGAGAAG
639109 AA
1 AA
639111 CTTGTTCAAC
Statistics
Matches: 39, Mismatches: 1, Indels: 2
0.93 0.02 0.05
Matches are distributed among these distances:
39 38 0.97
40 1 0.03
ACGTcount: A:0.51, C:0.06, G:0.23, T:0.20
Consensus pattern (39 bp):
AAGTTCATAATGAGAAGAACTCATATGAAGAATGAGAAG
Found at i:639088 original size:23 final size:22
Alignment explanation
Indices: 639043--639088 Score: 58
Period size: 22 Copynumber: 2.0 Consensus size: 22
639033 GTTCATAATG
639043 AGAAGAACTTATATGAAGAAGA
1 AGAAGAACTTATATGAAGAAGA
*
639065 AGAAGAAGTTCATAATG-AGAAGA
1 AGAAGAACTT-AT-ATGAAGAAGA
639088 A
1 A
639089 CTCATATGAA
Statistics
Matches: 21, Mismatches: 1, Indels: 3
0.84 0.04 0.12
Matches are distributed among these distances:
22 9 0.43
23 9 0.43
24 3 0.14
ACGTcount: A:0.54, C:0.04, G:0.24, T:0.17
Consensus pattern (22 bp):
AGAAGAACTTATATGAAGAAGA
Found at i:639302 original size:25 final size:26
Alignment explanation
Indices: 639254--639317 Score: 71
Period size: 25 Copynumber: 2.5 Consensus size: 26
639244 TTCATTTGTT
** *
639254 TTAT-TTATTATTATTATTTTAAT-A
1 TTATATTATTATTATTAAATAAATAA
639278 TTATATTATTATTATTAAATAAATAA
1 TTATATTATTATTATTAAATAAATAA
639304 TT-TATTATTTATTA
1 TTATATTA-TTATTA
639318 CAGGACCAAT
Statistics
Matches: 34, Mismatches: 3, Indels: 4
0.83 0.07 0.10
Matches are distributed among these distances:
24 4 0.12
25 21 0.62
26 9 0.26
ACGTcount: A:0.39, C:0.00, G:0.00, T:0.61
Consensus pattern (26 bp):
TTATATTATTATTATTAAATAAATAA
Found at i:639312 original size:3 final size:3
Alignment explanation
Indices: 639258--639294 Score: 51
Period size: 3 Copynumber: 13.0 Consensus size: 3
639248 TTTGTTTTAT
*
639258 TTA TTA TTA TTA TT- TTA ATA TTA -TA TTA TTA TTA TTA
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA
639295 AATAAATAAT
Statistics
Matches: 30, Mismatches: 2, Indels: 4
0.83 0.06 0.11
Matches are distributed among these distances:
2 4 0.13
3 26 0.87
ACGTcount: A:0.35, C:0.00, G:0.00, T:0.65
Consensus pattern (3 bp):
TTA
Found at i:640533 original size:20 final size:21
Alignment explanation
Indices: 640503--640542 Score: 64
Period size: 20 Copynumber: 2.0 Consensus size: 21
640493 CTAGTTTTAT
640503 AAATTTACATTTTAATCATTA
1 AAATTTACATTTTAATCATTA
*
640524 AAATTT-CATTTTTATCATT
1 AAATTTACATTTTAATCATT
640543 TTTTTTAATA
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
20 12 0.67
21 6 0.33
ACGTcount: A:0.38, C:0.10, G:0.00, T:0.53
Consensus pattern (21 bp):
AAATTTACATTTTAATCATTA
Found at i:640614 original size:3 final size:3
Alignment explanation
Indices: 640601--640640 Score: 55
Period size: 3 Copynumber: 13.3 Consensus size: 3
640591 TTATTTGCAA
*
640601 TAT TAT T-T TAT TAT TAT TAT TATT TAT TAT TTT TAT TAT T
1 TAT TAT TAT TAT TAT TAT TAT TA-T TAT TAT TAT TAT TAT T
640641 TATATAAATA
Statistics
Matches: 33, Mismatches: 2, Indels: 4
0.85 0.05 0.10
Matches are distributed among these distances:
2 2 0.06
3 28 0.85
4 3 0.09
ACGTcount: A:0.28, C:0.00, G:0.00, T:0.72
Consensus pattern (3 bp):
TAT
Found at i:640628 original size:16 final size:16
Alignment explanation
Indices: 640601--640643 Score: 68
Period size: 16 Copynumber: 2.6 Consensus size: 16
640591 TTATTTGCAA
640601 TATTATTTTATTATTAT
1 TATTA-TTTATTATTAT
*
640618 TATTATTTATTATTTT
1 TATTATTTATTATTAT
640634 TATTATTTAT
1 TATTATTTAT
640644 ATAAATAAAT
Statistics
Matches: 25, Mismatches: 1, Indels: 1
0.93 0.04 0.04
Matches are distributed among these distances:
16 20 0.80
17 5 0.20
ACGTcount: A:0.28, C:0.00, G:0.00, T:0.72
Consensus pattern (16 bp):
TATTATTTATTATTAT
Found at i:640844 original size:19 final size:19
Alignment explanation
Indices: 640822--640866 Score: 56
Period size: 19 Copynumber: 2.4 Consensus size: 19
640812 ATAAATATCC
640822 TATTTTATAAATTATATA-T
1 TATTTT-TAAATTATATATT
* *
640841 TATTTTTTAATTATTTATT
1 TATTTTTAAATTATATATT
640860 TATTTTT
1 TATTTTT
640867 TAATATCGAA
Statistics
Matches: 23, Mismatches: 2, Indels: 2
0.85 0.07 0.07
Matches are distributed among these distances:
18 9 0.39
19 14 0.61
ACGTcount: A:0.31, C:0.00, G:0.00, T:0.69
Consensus pattern (19 bp):
TATTTTTAAATTATATATT
Found at i:640854 original size:18 final size:19
Alignment explanation
Indices: 640831--640870 Score: 64
Period size: 19 Copynumber: 2.2 Consensus size: 19
640821 CTATTTTATA
640831 AATTATATA-TTATTTTTT
1 AATTATATATTTATTTTTT
*
640849 AATTATTTATTTATTTTTT
1 AATTATATATTTATTTTTT
640868 AAT
1 AAT
640871 ATCGAAGAAA
Statistics
Matches: 20, Mismatches: 1, Indels: 1
0.91 0.05 0.05
Matches are distributed among these distances:
18 8 0.40
19 12 0.60
ACGTcount: A:0.33, C:0.00, G:0.00, T:0.68
Consensus pattern (19 bp):
AATTATATATTTATTTTTT
Found at i:640866 original size:117 final size:118
Alignment explanation
Indices: 640735--640957 Score: 299
Period size: 118 Copynumber: 1.9 Consensus size: 118
640725 TTTTAATATA
* * * *
640735 TATTTATTTATTTTTCAATAT-TAAG-AAAGGGCAGTCTTAAAACAACTGGATGTCCATTTTCTG
1 TATTTATTTATTTTTCAATATCGAAGAAAAGAGCAGTCTTAAAACAACTAGAAGTCC-TTTTCTG
*
640798 ATATTTTTAAATAAATAAATATCCTATTTTATAAAT-TATATATTATTTTTTAAT
65 ATATTTCTAAATAAATAAATATCCTA-TTTATAAATATATATATTATTTTTTAAT
* * ** *
640852 TATTTATTTATTTTTTAATATCGAAGAAAAGAGCTGTCTTAAGGCACCTAGAAGTCCTTTTCTGA
1 TATTTATTTATTTTTCAATATCGAAGAAAAGAGCAGTCTTAAAACAACTAGAAGTCCTTTTCTGA
**
640917 TATTTCTAAATAAATAAATATTTTATTTATAAATATATATA
66 TATTTCTAAATAAATAAATATCCTATTTATAAATATATATA
640958 AATTAATATA
Statistics
Matches: 91, Mismatches: 12, Indels: 5
0.84 0.11 0.05
Matches are distributed among these distances:
117 29 0.32
118 39 0.43
119 23 0.25
ACGTcount: A:0.37, C:0.09, G:0.09, T:0.45
Consensus pattern (118 bp):
TATTTATTTATTTTTCAATATCGAAGAAAAGAGCAGTCTTAAAACAACTAGAAGTCCTTTTCTGA
TATTTCTAAATAAATAAATATCCTATTTATAAATATATATATTATTTTTTAAT
Found at i:645126 original size:24 final size:24
Alignment explanation
Indices: 645082--645127 Score: 58
Period size: 24 Copynumber: 1.9 Consensus size: 24
645072 TTTTTTTAAA
* *
645082 AAATAATAATTTTAAGTATTTTTT
1 AAATAAAAATTTTAAGAATTTTTT
645106 AAATAAAAATTTTGAA-AATTTT
1 AAATAAAAATTTT-AAGAATTTT
645128 ATAAGCATGA
Statistics
Matches: 19, Mismatches: 2, Indels: 2
0.83 0.09 0.09
Matches are distributed among these distances:
24 17 0.89
25 2 0.11
ACGTcount: A:0.48, C:0.00, G:0.04, T:0.48
Consensus pattern (24 bp):
AAATAAAAATTTTAAGAATTTTTT
Found at i:646888 original size:33 final size:34
Alignment explanation
Indices: 646829--646894 Score: 116
Period size: 33 Copynumber: 2.0 Consensus size: 34
646819 CCCATATGCA
*
646829 AAGTTGGCCACCTACCAAAGATGAATTTTCCAAT
1 AAGTTGGCCACCAACCAAAGATGAATTTTCCAAT
646863 AAGTTGGCCACCAACC-AAGATGAATTTTCCAA
1 AAGTTGGCCACCAACCAAAGATGAATTTTCCAA
646895 CTTGCCAAAG
Statistics
Matches: 31, Mismatches: 1, Indels: 1
0.94 0.03 0.03
Matches are distributed among these distances:
33 16 0.52
34 15 0.48
ACGTcount: A:0.36, C:0.24, G:0.15, T:0.24
Consensus pattern (34 bp):
AAGTTGGCCACCAACCAAAGATGAATTTTCCAAT
Found at i:650777 original size:34 final size:34
Alignment explanation
Indices: 650732--650830 Score: 139
Period size: 33 Copynumber: 3.0 Consensus size: 34
650722 CTCATGTGCA
* *
650732 AAGTTGGCCACCTACCAAAGATGAATTTTCCAAT
1 AAGTTGACCACCAACCAAAGATGAATTTTCCAAT
*
650766 AAGTTGACCACCAACCAAA-ATGAAATTTCCAAT
1 AAGTTGACCACCAACCAAAGATGAATTTTCCAAT
* *
650799 AAGTTAACCACCAACC-AAGATAAATTTTCCAA
1 AAGTTGACCACCAACCAAAGATGAATTTTCCAA
650831 ATTGTCAAAT
Statistics
Matches: 58, Mismatches: 6, Indels: 3
0.87 0.09 0.04
Matches are distributed among these distances:
32 2 0.03
33 39 0.67
34 17 0.29
ACGTcount: A:0.42, C:0.24, G:0.10, T:0.23
Consensus pattern (34 bp):
AAGTTGACCACCAACCAAAGATGAATTTTCCAAT
Found at i:651620 original size:12 final size:13
Alignment explanation
Indices: 651593--651650 Score: 50
Period size: 13 Copynumber: 4.6 Consensus size: 13
651583 TTGATGTAAC
*
651593 TTTTGAAAGTGAT
1 TTTTTAAAGTGAT
651606 TTTTTAAAGTG-T
1 TTTTTAAAGTGAT
*
651618 TTTATAAA-TGAAT
1 TTTTTAAAGTG-AT
*
651631 TTTTAAAAGTG-T
1 TTTTTAAAGTGAT
*
651643 TATTTAAA
1 TTTTTAAA
651651 ATTATAATTT
Statistics
Matches: 36, Mismatches: 6, Indels: 7
0.73 0.12 0.14
Matches are distributed among these distances:
11 2 0.06
12 15 0.42
13 17 0.47
14 2 0.06
ACGTcount: A:0.36, C:0.00, G:0.14, T:0.50
Consensus pattern (13 bp):
TTTTTAAAGTGAT
Found at i:651855 original size:21 final size:21
Alignment explanation
Indices: 651829--651871 Score: 61
Period size: 21 Copynumber: 2.0 Consensus size: 21
651819 TAACTATAAT
651829 AAAATATAA-ATAATATAAATA
1 AAAATATAATATAATA-AAATA
651850 AAAATATAATTATAATAAAATA
1 AAAATATAA-TATAATAAAATA
651872 TATATTTTTA
Statistics
Matches: 20, Mismatches: 0, Indels: 3
0.87 0.00 0.13
Matches are distributed among these distances:
21 9 0.45
22 5 0.25
23 6 0.30
ACGTcount: A:0.70, C:0.00, G:0.00, T:0.30
Consensus pattern (21 bp):
AAAATATAATATAATAAAATA
Found at i:651881 original size:61 final size:61
Alignment explanation
Indices: 651767--651882 Score: 137
Period size: 61 Copynumber: 1.9 Consensus size: 61
651757 CATATCAATT
* * * * * *
651767 TAAACTATAAAAATTTAAAAAAATTATTATTATATATGAATTATATCAATTTTAACTATAA
1 TAAAATATAAAAATATAAAAAAAATATAATTATATATAAAATATATCAATTTTAACTATAA
*
651828 TAAAATATAAATAATATAAATAAAAATATAATTATA-ATAAAATATAT-ATTTTTAA
1 TAAAATATAAA-AATATAAA-AAAAATATAATTATATATAAAATATATCAATTTTAA
651883 TAACTTTCTA
Statistics
Matches: 46, Mismatches: 7, Indels: 4
0.81 0.12 0.07
Matches are distributed among these distances:
61 17 0.37
62 16 0.35
63 13 0.28
ACGTcount: A:0.57, C:0.03, G:0.01, T:0.40
Consensus pattern (61 bp):
TAAAATATAAAAATATAAAAAAAATATAATTATATATAAAATATATCAATTTTAACTATAA
Found at i:652442 original size:21 final size:20
Alignment explanation
Indices: 652416--652454 Score: 60
Period size: 21 Copynumber: 1.9 Consensus size: 20
652406 TATATTTATT
652416 TTATCAGTTTACGTATAATTA
1 TTATCAGTTTACGT-TAATTA
*
652437 TTATCATTTTACGTTAAT
1 TTATCAGTTTACGTTAAT
652455 ACCTATATTA
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
20 4 0.24
21 13 0.76
ACGTcount: A:0.31, C:0.10, G:0.08, T:0.51
Consensus pattern (20 bp):
TTATCAGTTTACGTTAATTA
Found at i:659590 original size:39 final size:37
Alignment explanation
Indices: 659503--659610 Score: 155
Period size: 39 Copynumber: 2.9 Consensus size: 37
659493 TATATATATG
* *
659503 TATATATTATATAATTTTGAAAACATTTTG-AAAATA
1 TATATATTATATAGTTTTTAAAACATTTTGAAAAATA
*
659539 TATATAATATATAGTTTTTAAAACATTTTTGAAAACATA
1 TATATATTATATAGTTTTTAAAACA-TTTTGAAAA-ATA
*
659578 TATATATTATATAGTTTTTAAAATATTTTGAAA
1 TATATATTATATAGTTTTTAAAACATTTTGAAA
659611 CTAAGTGGGC
Statistics
Matches: 64, Mismatches: 5, Indels: 4
0.88 0.07 0.05
Matches are distributed among these distances:
36 22 0.34
37 5 0.08
38 11 0.17
39 26 0.41
ACGTcount: A:0.45, C:0.03, G:0.06, T:0.46
Consensus pattern (37 bp):
TATATATTATATAGTTTTTAAAACATTTTGAAAAATA
Found at i:660666 original size:5 final size:5
Alignment explanation
Indices: 660642--660731 Score: 58
Period size: 5 Copynumber: 17.6 Consensus size: 5
660632 TTATTATTCA
* * * * *
660642 TTTAT CTTAT TTT-T TATTAT TTTAT TTTAT CTCAT TTTAT TTTAT CTCAT
1 TTTAT TTTAT TTTAT T-TTAT TTTAT TTTAT TTTAT TTTAT TTTAT TTTAT
* * *
660692 TTTAT TTCAT CGTTT-T TTTCT CTCTAT TTTAT TTTAT TTT
1 TTTAT TTTAT --TTTAT TTTAT -TTTAT TTTAT TTTAT TTT
660732 CCCCCTCTTT
Statistics
Matches: 64, Mismatches: 15, Indels: 12
0.70 0.16 0.13
Matches are distributed among these distances:
4 5 0.08
5 51 0.80
6 6 0.09
7 2 0.03
ACGTcount: A:0.17, C:0.11, G:0.01, T:0.71
Consensus pattern (5 bp):
TTTAT
Found at i:660666 original size:15 final size:15
Alignment explanation
Indices: 660623--660698 Score: 53
Period size: 15 Copynumber: 4.9 Consensus size: 15
660613 ATTTTTAGCA
*
660623 TTATTATTATTATTAT
1 TTATTATT-TTATTTT
* *
660639 TCATTTATCTTATTTT
1 TTA-TTATTTTATTTT
660655 TTATTATTTTATTTT
1 TTATTATTTTATTTT
* * *
660670 ATCTCATTTTATTTT
1 TTATTATTTTATTTT
* * *
660685 ATCTCATTTTATTT
1 TTATTATTTTATTT
660699 CATCGTTTTT
Statistics
Matches: 51, Mismatches: 8, Indels: 3
0.82 0.13 0.05
Matches are distributed among these distances:
15 37 0.73
16 10 0.20
17 4 0.08
ACGTcount: A:0.22, C:0.08, G:0.00, T:0.70
Consensus pattern (15 bp):
TTATTATTTTATTTT
Found at i:661457 original size:25 final size:25
Alignment explanation
Indices: 661423--661494 Score: 135
Period size: 25 Copynumber: 2.9 Consensus size: 25
661413 CTTAGAATCA
661423 TGTCTCCTTAGAACTCAAGGATTCC
1 TGTCTCCTTAGAACTCAAGGATTCC
*
661448 TGTCTCCTTAGAACTCGAGGATTCC
1 TGTCTCCTTAGAACTCAAGGATTCC
661473 TGTCTCCTTAGAACTCAAGGAT
1 TGTCTCCTTAGAACTCAAGGAT
661495 ACGAAGGTAC
Statistics
Matches: 45, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
25 45 1.00
ACGTcount: A:0.24, C:0.26, G:0.18, T:0.32
Consensus pattern (25 bp):
TGTCTCCTTAGAACTCAAGGATTCC
Found at i:676283 original size:87 final size:86
Alignment explanation
Indices: 676133--676299 Score: 271
Period size: 87 Copynumber: 1.9 Consensus size: 86
676123 CGGTTATGTT
* *
676133 ATATCATTTAACCAGAAATATTATCAAGCACAATAACATATTAGGTAGTGTTTATATAATGTAAT
1 ATATCATTTAACCAGAAATATTATCAAGCACAATAACATATTAGATAGTGCTTATATAATGTAAT
676198 AAGTAGCGCTTATATAATAAA
66 AAGTAGCGCTTATATAATAAA
** *
676219 ATATGCATTTAACTGGAAATATTATCAAGTACAATAACATATTAGATAGTGCTTATATAATGTAA
1 ATAT-CATTTAACCAGAAATATTATCAAGCACAATAACATATTAGATAGTGCTTATATAATGTAA
*
676284 TAGGTAGCGCTTATAT
65 TAAGTAGCGCTTATAT
676300 TGACCTATTT
Statistics
Matches: 74, Mismatches: 6, Indels: 1
0.91 0.07 0.01
Matches are distributed among these distances:
86 4 0.05
87 70 0.95
ACGTcount: A:0.42, C:0.10, G:0.13, T:0.35
Consensus pattern (86 bp):
ATATCATTTAACCAGAAATATTATCAAGCACAATAACATATTAGATAGTGCTTATATAATGTAAT
AAGTAGCGCTTATATAATAAA
Found at i:677197 original size:20 final size:19
Alignment explanation
Indices: 677151--677197 Score: 58
Period size: 20 Copynumber: 2.4 Consensus size: 19
677141 TCCGTTAGCG
677151 TTTTACCGGTTTTGTCATT
1 TTTTACCGGTTTTGTCATT
**
677170 TCGATACCGGTTTTGTCATAT
1 T-TTTACCGGTTTTGTCAT-T
677191 TTTTACC
1 TTTTACC
677198 TGTAATATTG
Statistics
Matches: 22, Mismatches: 4, Indels: 3
0.76 0.14 0.10
Matches are distributed among these distances:
19 1 0.05
20 19 0.86
21 2 0.09
ACGTcount: A:0.15, C:0.19, G:0.15, T:0.51
Consensus pattern (19 bp):
TTTTACCGGTTTTGTCATT
Found at i:677197 original size:363 final size:364
Alignment explanation
Indices: 676433--677227 Score: 1218
Period size: 363 Copynumber: 2.2 Consensus size: 364
676423 ATGCGTCCTA
** *
676433 TTTTGTCATTTTGAGATTGGTTTTGTCATATTTTTAGCTGTTATATTGTTATGGATCGATACATT
1 TTTTGTCATTTTGAGACAGGTTTTGTCATATTTTTACCTGTTATATTGTTATGGATCGATACATT
* * * * *
676498 TTCATAAAGTGTCGACACTTTTTAGGCGCTATAACTTCTTCTCTTTTAAATTTCAAAAGTGTCGA
66 TTTATAAAGTATCAACACTTTATAGGCGCTATAACTTCTTCTCTTTTAAATTCCAAAAGTGTCGA
* * *
676563 TACTTATATTAAAGTATCGACACTTTCAACATATTCGGTAGCGCTTTACCGGTTTTGTCATTTTG
131 TACTTATATTAAAGTATCGACACTTTCAACATATCCGGTAGCGATTTACAGGTTTTGTCATTTTG
676628 AGACCGGTTTTGTCATATTTTTAGCTGTTATATTGTTATGGAGCGATACATTTTCATAAAGTGTC
196 AGACCGGTTTTGTCATATTTTTAGCTGTTATATTGTTATGGAGCGATACATTTTCATAAAGTGTC
* *
676693 GACACTTTTTAGGCGCTATAACTTCTTCTCTTTTAAATTTCAAAAGTGTTGATACTTATATTAAA
261 GACACTTTTTAGGCGCTATAACTTCTTCTATTTTAAATTTCAAAAGTGTCGATACTTATATTAAA
* * * *
676758 TTATCGATACTTTCAACATATATAATATCTTTTTACCGG
326 TTATCGACACTTTCAACATATACAATAGCGTTTTACCGG
* * *
676797 TTTTGTCATTTTTGAGACATGTTTTATCATA-TTTTACCTGTTATATTGTTATGGATTGATACAT
1 TTTTGTCA-TTTTGAGACAGGTTTTGTCATATTTTTACCTGTTATATTGTTATGGATCGATACAT
676861 TTTTA-AAAGTATCAACACTTTATAGGCGCTATAACTTCTTCTCTTTTAAATTCCAAAAGTGTCG
65 TTTTATAAAGTATCAACACTTTATAGGCGCTATAACTTCTTCTCTTTTAAATTCCAAAAGTGTCG
* ** *
676925 ATACTTATATTAAAGTATCGACACTTTGAACATATCCGGTAGTTATTTACATGTTTTGTCATTTT
130 ATACTTATATTAAAGTATCGACACTTTCAACATATCCGGTAGCGATTTACAGGTTTTGTCATTTT
* * *
676990 GAGACTGGTTTTGTCATATTTTTAGCTGTTATATTGTTATGGATCGATATATTTTCATAAAGTGT
195 GAGACCGGTTTTGTCATATTTTTAGCTGTTATATTGTTATGGAGCGATACATTTTCATAAAGTGT
*
677055 CGACACTTTTTAGGCGCTATAACTTCTTCTATTTTAAA-TTCGGAAAGTGTCGATACTTATATTA
260 CGACACTTTTTAGGCGCTATAACTTCTTCTATTTTAAATTTC-AAAAGTGTCGATACTTATATTA
* **
677119 AATTATCGACACTTTCAACATATCCGTTAGCGTTTTACCGG
324 AATTATCGACACTTTCAACATATACAATAGCGTTTTACCGG
* * * * * *
677160 TTTTGTCATTTCGATACCGGTTTTGTCATATTTTTACCTGTAATATTGCTATGGAGCGATACATT
1 TTTTGTCATTTTGAGACAGGTTTTGTCATATTTTTACCTGTTATATTGTTATGGATCGATACATT
677225 TTT
66 TTT
677228 CATTTGTATC
Statistics
Matches: 388, Mismatches: 40, Indels: 7
0.89 0.09 0.02
Matches are distributed among these distances:
362 20 0.05
363 307 0.79
364 43 0.11
365 18 0.05
ACGTcount: A:0.26, C:0.15, G:0.15, T:0.44
Consensus pattern (364 bp):
TTTTGTCATTTTGAGACAGGTTTTGTCATATTTTTACCTGTTATATTGTTATGGATCGATACATT
TTTATAAAGTATCAACACTTTATAGGCGCTATAACTTCTTCTCTTTTAAATTCCAAAAGTGTCGA
TACTTATATTAAAGTATCGACACTTTCAACATATCCGGTAGCGATTTACAGGTTTTGTCATTTTG
AGACCGGTTTTGTCATATTTTTAGCTGTTATATTGTTATGGAGCGATACATTTTCATAAAGTGTC
GACACTTTTTAGGCGCTATAACTTCTTCTATTTTAAATTTCAAAAGTGTCGATACTTATATTAAA
TTATCGACACTTTCAACATATACAATAGCGTTTTACCGG
Found at i:677242 original size:182 final size:182
Alignment explanation
Indices: 676433--677226 Score: 1173
Period size: 182 Copynumber: 4.4 Consensus size: 182
676423 ATGCGTCCTA
**
676433 TTTTGTCATTTTGAGATTGGTTTTGTCATATTTTTAGCTGTTATATTGTTATGGATCGATACATT
1 TTTTGTCATTTTGAGACCGGTTTTGTCATATTTTTAGCTGTTATATTGTTATGGATCGATACATT
676498 TTCATAAAGTGTCGACACTTTTTAGGCGCTATAACTTCTTCTCTTTTAAATTTCAAAAGTGTCGA
66 TTCATAAAGTGTCGACACTTTTTAGGCGCTATAACTTCTTCTCTTTTAAATTTCAAAAGTGTCGA
* *
676563 TACTTATATTAAAGTATCGACACTTTCAACATATTCGGTAGCGCTTTACCGG
131 TACTTATATTAAAGTATCGACACTTTCAACATATCCGGTAGCGTTTTACCGG
*
676615 TTTTGTCATTTTGAGACCGGTTTTGTCATATTTTTAGCTGTTATATTGTTATGGAGCGATACATT
1 TTTTGTCATTTTGAGACCGGTTTTGTCATATTTTTAGCTGTTATATTGTTATGGATCGATACATT
*
676680 TTCATAAAGTGTCGACACTTTTTAGGCGCTATAACTTCTTCTCTTTTAAATTTCAAAAGTGTTGA
66 TTCATAAAGTGTCGACACTTTTTAGGCGCTATAACTTCTTCTCTTTTAAATTTCAAAAGTGTCGA
* * **** * *
676745 TACTTATATTAAATTATCGATACTTTCAACATATATAATATCTTTTTACCGG
131 TACTTATATTAAAGTATCGACACTTTCAACATATCCGGTAGCGTTTTACCGG
** * * *
676797 TTTTGTCATTTTTGAGACATGTTTTATCATA-TTTTACCTGTTATATTGTTATGGATTGATACAT
1 TTTTGTCA-TTTTGAGACCGGTTTTGTCATATTTTTAGCTGTTATATTGTTATGGATCGATACAT
* * * * *
676861 TTTTA-AAAGTATCAACACTTTATAGGCGCTATAACTTCTTCTCTTTTAAATTCCAAAAGTGTCG
65 TTTCATAAAGTGTCGACACTTTTTAGGCGCTATAACTTCTTCTCTTTTAAATTTCAAAAGTGTCG
* * **
676925 ATACTTATATTAAAGTATCGACACTTTGAACATATCCGGTAG-TTATTTACATG
130 ATACTTATATTAAAGTATCGACACTTTCAACATATCCGGTAGCGT-TTTACCGG
* *
676978 TTTTGTCATTTTGAGACTGGTTTTGTCATATTTTTAGCTGTTATATTGTTATGGATCGATATATT
1 TTTTGTCATTTTGAGACCGGTTTTGTCATATTTTTAGCTGTTATATTGTTATGGATCGATACATT
* *
677043 TTCATAAAGTGTCGACACTTTTTAGGCGCTATAACTTCTTCTATTTTAAA-TTCGGAAAGTGTCG
66 TTCATAAAGTGTCGACACTTTTTAGGCGCTATAACTTCTTCTCTTTTAAATTTC-AAAAGTGTCG
* *
677107 ATACTTATATTAAATTATCGACACTTTCAACATATCCGTTAGCGTTTTACCGG
130 ATACTTATATTAAAGTATCGACACTTTCAACATATCCGGTAGCGTTTTACCGG
* * * * * *
677160 TTTTGTCATTTCGATACCGGTTTTGTCATATTTTTACCTGTAATATTGCTATGGAGCGATACATT
1 TTTTGTCATTTTGAGACCGGTTTTGTCATATTTTTAGCTGTTATATTGTTATGGATCGATACATT
677225 TT
66 TT
677227 TCATTTGTAT
Statistics
Matches: 544, Mismatches: 62, Indels: 12
0.88 0.10 0.02
Matches are distributed among these distances:
180 21 0.04
181 138 0.25
182 365 0.67
183 20 0.04
ACGTcount: A:0.26, C:0.15, G:0.15, T:0.44
Consensus pattern (182 bp):
TTTTGTCATTTTGAGACCGGTTTTGTCATATTTTTAGCTGTTATATTGTTATGGATCGATACATT
TTCATAAAGTGTCGACACTTTTTAGGCGCTATAACTTCTTCTCTTTTAAATTTCAAAAGTGTCGA
TACTTATATTAAAGTATCGACACTTTCAACATATCCGGTAGCGTTTTACCGG
Found at i:678861 original size:19 final size:17
Alignment explanation
Indices: 678824--678870 Score: 58
Period size: 19 Copynumber: 2.6 Consensus size: 17
678814 TTAAATTGAA
678824 CATCGAATGCATTTCATG
1 CATCG-ATGCATTTCATG
678842 CATCGATGCATATATCATG
1 CATCGATGCAT-T-TCATG
*
678861 CACCGATGCA
1 CATCGATGCA
678871 CTGAGGATGT
Statistics
Matches: 26, Mismatches: 1, Indels: 3
0.87 0.03 0.10
Matches are distributed among these distances:
17 6 0.23
18 6 0.23
19 14 0.54
ACGTcount: A:0.30, C:0.26, G:0.17, T:0.28
Consensus pattern (17 bp):
CATCGATGCATTTCATG
Found at i:678891 original size:65 final size:64
Alignment explanation
Indices: 678822--679001 Score: 211
Period size: 65 Copynumber: 2.8 Consensus size: 64
678812 AATTAAATTG
* * *
678822 AACATCGAATGCATTTCATGCATCGATGCA-TATATCATGCACCGATGCACTGAGGATGTTATGA
1 AACATCGAATGCATTTGATGCATCGATGCACTAT-TCATGCACCGATGCACTCAGGATATTATG-
678886 A
64 A
* * * * * *
678887 AACATCGAATGCATTTGATGCATCGATGCACCAGTCATGCATCGATGCACTCTGGCTATTTTGA
1 AACATCGAATGCATTTGATGCATCGATGCACTATTCATGCACCGATGCACTCAGGATATTATGA
* * *
678951 AACATCGAATGCACTTGATGCATCGCTGCACTCTT-AGTGCACCGATGCACT
1 AACATCGAATGCATTTGATGCATCGATGCACTATTCA-TGCACCGATGCACT
679002 AAGGGTCCAA
Statistics
Matches: 98, Mismatches: 15, Indels: 5
0.83 0.13 0.04
Matches are distributed among these distances:
63 1 0.01
64 44 0.45
65 52 0.53
66 1 0.01
ACGTcount: A:0.28, C:0.24, G:0.20, T:0.28
Consensus pattern (64 bp):
AACATCGAATGCATTTGATGCATCGATGCACTATTCATGCACCGATGCACTCAGGATATTATGA
Found at i:678981 original size:64 final size:66
Alignment explanation
Indices: 678772--679001 Score: 203
Period size: 65 Copynumber: 3.6 Consensus size: 66
678762 TTTTTCAGAG
* * *
678772 TGATGCACCGATGCACCA-ATCCATGCATCGATGCAC-CATGA-ATTA--AATTGAACATCGAAT
1 TGATGCATCGATGCACCATAT-CATGCACCGATGCACTCAGGATATTATGAA---AACATCGAAT
678832 GCATT
62 GCATT
* * * *
678837 TCATGCATCGATGCA-TATATCATGCACCGATGCACTGAGGATGTTATGAAAACATCGAATGCAT
1 TGATGCATCGATGCACCATATCATGCACCGATGCACTCAGGATATTATGAAAACATCGAATGCAT
678901 T
66 T
* * * * * *
678902 TGATGCATCGATGCACCA-GTCATGCATCGATGCACTCTGGCTATTTTG-AAACATCGAATGCAC
1 TGATGCATCGATGCACCATATCATGCACCGATGCACTCAGGATATTATGAAAACATCGAATGCAT
678965 T
66 T
*
678966 TGATGCATCGCTGCACTC-T-T-AGTGCACCGATGCACT
1 TGATGCATCGATGCAC-CATATCA-TGCACCGATGCACT
679002 AAGGGTCCAA
Statistics
Matches: 137, Mismatches: 19, Indels: 19
0.78 0.11 0.11
Matches are distributed among these distances:
63 1 0.01
64 59 0.43
65 71 0.52
66 4 0.03
68 2 0.01
ACGTcount: A:0.29, C:0.24, G:0.20, T:0.27
Consensus pattern (66 bp):
TGATGCATCGATGCACCATATCATGCACCGATGCACTCAGGATATTATGAAAACATCGAATGCAT
T
Found at i:684822 original size:24 final size:23
Alignment explanation
Indices: 684790--684869 Score: 60
Period size: 24 Copynumber: 3.5 Consensus size: 23
684780 CACTTAACAA
*
684790 TGCAACGATGCATCCCTTTGAATG
1 TGCATCGATGCAT-CCTTTGAATG
* *
684814 TGCATCGATTCATCATGTTG-A--
1 TGCATCGATGCATCCT-TTGAATG
* *
684835 TGCACCGAAGCATGCC-TTGAATG
1 TGCATCGATGCAT-CCTTTGAATG
684858 TGCATCGATGCA
1 TGCATCGATGCA
684870 CAGGGTCATG
Statistics
Matches: 42, Mismatches: 9, Indels: 11
0.68 0.15 0.18
Matches are distributed among these distances:
20 3 0.07
21 11 0.26
22 1 0.02
23 13 0.31
24 14 0.33
ACGTcount: A:0.25, C:0.24, G:0.23, T:0.29
Consensus pattern (23 bp):
TGCATCGATGCATCCTTTGAATG
Found at i:687622 original size:65 final size:63
Alignment explanation
Indices: 687552--687731 Score: 209
Period size: 65 Copynumber: 2.8 Consensus size: 63
687542 AATTAAATTG
* * *
687552 AACATCGAATGCATTTCATGCATCGATGCACA-TACCATGCACCGATGCACTGAGGATGTTATGA
1 AACATCGAATGCATTTGATGCATCGATGCACAGT--CATGCACCGATGCACTCAGGATATTATG-
687616 A
63 A
* * * *
687617 AACATCGAATGCATTTGATGCATCGATGCACCAGTCATGCATCGATGCACTCTGGCTATTTTGA
1 AACATCGAATGCATTTGATGCATCGATGCA-CAGTCATGCACCGATGCACTCAGGATATTATGA
* ** *
687681 AACATCGAATGCACTTGATGCATCGATGCACTCTTAGTGCACCGATGCACT
1 AACATCGAATGCATTTGATGCATCGATGCACAGTCA-TGCACCGATGCACT
687732 AAGGGTCCAA
Statistics
Matches: 100, Mismatches: 12, Indels: 7
0.84 0.10 0.06
Matches are distributed among these distances:
63 3 0.03
64 43 0.43
65 51 0.51
66 2 0.02
67 1 0.01
ACGTcount: A:0.29, C:0.24, G:0.20, T:0.27
Consensus pattern (63 bp):
AACATCGAATGCATTTGATGCATCGATGCACAGTCATGCACCGATGCACTCAGGATATTATGA
Found at i:687711 original size:17 final size:19
Alignment explanation
Indices: 687683--687731 Score: 57
Period size: 19 Copynumber: 2.6 Consensus size: 19
687673 TATTTTGAAA
687683 CATCGAATGCACT-TGA-TG
1 CATCG-ATGCACTCTGAGTG
*
687701 CATCGATGCACTCTTAGTG
1 CATCGATGCACTCTGAGTG
*
687720 CACCGATGCACT
1 CATCGATGCACT
687732 AAGGGTCCAA
Statistics
Matches: 27, Mismatches: 2, Indels: 3
0.84 0.06 0.09
Matches are distributed among these distances:
17 7 0.26
18 7 0.26
19 13 0.48
ACGTcount: A:0.24, C:0.29, G:0.20, T:0.27
Consensus pattern (19 bp):
CATCGATGCACTCTGAGTG
Found at i:690944 original size:13 final size:13
Alignment explanation
Indices: 690926--690950 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
690916 CTTTGCTAAG
690926 GTGGTTCAAGGCA
1 GTGGTTCAAGGCA
690939 GTGGTTCAAGGC
1 GTGGTTCAAGGC
690951 TAACTGTAAC
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.20, C:0.16, G:0.40, T:0.24
Consensus pattern (13 bp):
GTGGTTCAAGGCA
Found at i:701541 original size:19 final size:19
Alignment explanation
Indices: 701517--701554 Score: 76
Period size: 19 Copynumber: 2.0 Consensus size: 19
701507 ATGGGTAATA
701517 ACTTCTTACTTTCTTATGT
1 ACTTCTTACTTTCTTATGT
701536 ACTTCTTACTTTCTTATGT
1 ACTTCTTACTTTCTTATGT
701555 TGGAGAATCC
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
19 19 1.00
ACGTcount: A:0.16, C:0.21, G:0.05, T:0.58
Consensus pattern (19 bp):
ACTTCTTACTTTCTTATGT
Found at i:705181 original size:15 final size:15
Alignment explanation
Indices: 705141--705189 Score: 59
Period size: 15 Copynumber: 3.5 Consensus size: 15
705131 TTATTATAAA
*
705141 ATATTA-TTATAATT
1 ATATTATTTATATTT
705155 ATATT-TTT-TATTT
1 ATATTATTTATATTT
705168 ATATTATTTATATTT
1 ATATTATTTATATTT
*
705183 TTATTAT
1 ATATTAT
705190 AGTTTAAATT
Statistics
Matches: 30, Mismatches: 2, Indels: 5
0.81 0.05 0.14
Matches are distributed among these distances:
13 9 0.30
14 10 0.33
15 11 0.37
ACGTcount: A:0.33, C:0.00, G:0.00, T:0.67
Consensus pattern (15 bp):
ATATTATTTATATTT
Found at i:714044 original size:24 final size:24
Alignment explanation
Indices: 714017--714087 Score: 71
Period size: 24 Copynumber: 3.1 Consensus size: 24
714007 ACAAGTGTAT
714017 TGGTAAAATAAGCTTACGAGCTTA
1 TGGTAAAATAAGCTTACGAGCTTA
* *
714041 TGGTACAAAT-AG--TA--AGTATTT
1 TGGTA-AAATAAGCTTACGAG-CTTA
714062 TGGTAAAATAAGCTTACGAGCTTA
1 TGGTAAAATAAGCTTACGAGCTTA
714086 TG
1 TG
714088 ACATAAATGG
Statistics
Matches: 36, Mismatches: 4, Indels: 14
0.67 0.07 0.26
Matches are distributed among these distances:
20 6 0.17
21 9 0.25
22 2 0.06
23 2 0.06
24 11 0.31
25 6 0.17
ACGTcount: A:0.37, C:0.10, G:0.21, T:0.32
Consensus pattern (24 bp):
TGGTAAAATAAGCTTACGAGCTTA
Found at i:717802 original size:13 final size:13
Alignment explanation
Indices: 717784--717811 Score: 56
Period size: 13 Copynumber: 2.2 Consensus size: 13
717774 TTACATCATC
717784 TTAATCGCAACCA
1 TTAATCGCAACCA
717797 TTAATCGCAACCA
1 TTAATCGCAACCA
717810 TT
1 TT
717812 GCTGATATCA
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 15 1.00
ACGTcount: A:0.36, C:0.29, G:0.07, T:0.29
Consensus pattern (13 bp):
TTAATCGCAACCA
Found at i:719889 original size:24 final size:24
Alignment explanation
Indices: 719819--719889 Score: 62
Period size: 24 Copynumber: 3.1 Consensus size: 24
719809 CCATTTATGT
719819 CATAAGCTCGTAAGCTTATTTTAC
1 CATAAGCTCGTAAGCTTATTTTAC
* * *
719843 CA-AA-ATAC-TTA-C-CATTTGTAC
1 CATAAGCT-CGTAAGCTTATTT-TAC
719864 CATAAGCTCGTAAGCTTATTTTAC
1 CATAAGCTCGTAAGCTTATTTTAC
719888 CA
1 CA
719890 ATACACTTGT
Statistics
Matches: 34, Mismatches: 6, Indels: 14
0.63 0.11 0.26
Matches are distributed among these distances:
20 4 0.12
21 6 0.18
22 6 0.18
23 6 0.18
24 8 0.24
25 4 0.12
ACGTcount: A:0.32, C:0.23, G:0.10, T:0.35
Consensus pattern (24 bp):
CATAAGCTCGTAAGCTTATTTTAC
Found at i:719904 original size:45 final size:44
Alignment explanation
Indices: 719819--719912 Score: 134
Period size: 45 Copynumber: 2.1 Consensus size: 44
719809 CCATTTATGT
*
719819 CATAAGCTCGTAAGCTTATTTTACCAAAATACTTACCATTTGTAC
1 CATAAGCTCGTAAGCTTATTTTACCAAAACACTTACCATTT-TAC
* ** *
719864 CATAAGCTCGTAAGCTTATTTTACCAATACACTTGTCATTTTTC
1 CATAAGCTCGTAAGCTTATTTTACCAAAACACTTACCATTTTAC
719908 CATAA
1 CATAA
719913 CCATATACCA
Statistics
Matches: 44, Mismatches: 5, Indels: 1
0.88 0.10 0.02
Matches are distributed among these distances:
44 7 0.16
45 37 0.84
ACGTcount: A:0.32, C:0.22, G:0.09, T:0.37
Consensus pattern (44 bp):
CATAAGCTCGTAAGCTTATTTTACCAAAACACTTACCATTTTAC
Found at i:721693 original size:23 final size:23
Alignment explanation
Indices: 721650--721693 Score: 61
Period size: 23 Copynumber: 1.9 Consensus size: 23
721640 TCAATCCAAT
* **
721650 ATGAATTTCCATTTTTGCCATTA
1 ATGAATTTCCATGTTCACCATTA
721673 ATGAATTTCCATGTTCACCAT
1 ATGAATTTCCATGTTCACCAT
721694 AAAACCAATC
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:0.27, C:0.20, G:0.09, T:0.43
Consensus pattern (23 bp):
ATGAATTTCCATGTTCACCATTA
Found at i:722832 original size:60 final size:60
Alignment explanation
Indices: 722709--722833 Score: 160
Period size: 60 Copynumber: 2.1 Consensus size: 60
722699 ACCTCATTTC
* * * * * * * *
722709 AAATTAATCCTTAAATTTTTGAACATTCTAATTTTATCCTCAATCTATGACTCTCATTTT
1 AAATTAATCCTTAAACTTTTGAACATTCCAATTTTATCCCCAAACAATAACTCCCATTCT
* *
722769 AAATTAGTCCTTAAACTTTTGAACATTCCAATTTTATCCCCAAACAATAAGTCCCATTCT
1 AAATTAATCCTTAAACTTTTGAACATTCCAATTTTATCCCCAAACAATAACTCCCATTCT
722829 AAATT
1 AAATT
722834 GATTCCTAAA
Statistics
Matches: 55, Mismatches: 10, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
60 55 1.00
ACGTcount: A:0.34, C:0.21, G:0.04, T:0.41
Consensus pattern (60 bp):
AAATTAATCCTTAAACTTTTGAACATTCCAATTTTATCCCCAAACAATAACTCCCATTCT
Found at i:722980 original size:3 final size:3
Alignment explanation
Indices: 722972--722997 Score: 52
Period size: 3 Copynumber: 8.7 Consensus size: 3
722962 TATTTTTCAT
722972 TTA TTA TTA TTA TTA TTA TTA TTA TT
1 TTA TTA TTA TTA TTA TTA TTA TTA TT
722998 TTAAGGGTTA
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 23 1.00
ACGTcount: A:0.31, C:0.00, G:0.00, T:0.69
Consensus pattern (3 bp):
TTA
Found at i:723452 original size:21 final size:21
Alignment explanation
Indices: 723413--723452 Score: 55
Period size: 21 Copynumber: 1.9 Consensus size: 21
723403 GAGAGATAAG
*
723413 AGAAAAAGAGAAGAGAAAAAA
1 AGAAAAAGAGAACAGAAAAAA
723434 AGAAAAAGGAGAACA-AAAA
1 AGAAAAA-GAGAACAGAAAA
723453 GAGAGTCTCA
Statistics
Matches: 17, Mismatches: 1, Indels: 2
0.85 0.05 0.10
Matches are distributed among these distances:
21 11 0.65
22 6 0.35
ACGTcount: A:0.75, C:0.03, G:0.23, T:0.00
Consensus pattern (21 bp):
AGAAAAAGAGAACAGAAAAAA
Found at i:724649 original size:46 final size:45
Alignment explanation
Indices: 724580--724724 Score: 227
Period size: 45 Copynumber: 3.2 Consensus size: 45
724570 TATAAAATCT
* *
724580 CTTACCATTTATCCCATAAGCTCGTAATCTTATTTTACCAATATA
1 CTTACCATTTATACCATAAGCTCGTAAGCTTATTTTACCAATATA
724625 CTTACCATTTAATACCATAAGCTCGTAAGCTTATTTTACCAATATA
1 CTTACCATTT-ATACCATAAGCTCGTAAGCTTATTTTACCAATATA
* * *
724671 CTTACCATTTGTTCCATAAGCTCGTAAGCTTATTTTACCAATACA
1 CTTACCATTTATACCATAAGCTCGTAAGCTTATTTTACCAATATA
*
724716 CTTGCCATT
1 CTTACCATT
724725 ATTCGATAAC
Statistics
Matches: 93, Mismatches: 6, Indels: 2
0.92 0.06 0.02
Matches are distributed among these distances:
45 50 0.54
46 43 0.46
ACGTcount: A:0.30, C:0.24, G:0.07, T:0.39
Consensus pattern (45 bp):
CTTACCATTTATACCATAAGCTCGTAAGCTTATTTTACCAATATA
Found at i:724665 original size:24 final size:24
Alignment explanation
Indices: 724637--724710 Score: 61
Period size: 20 Copynumber: 3.2 Consensus size: 24
724627 TACCATTTAA
724637 TACCATAAGCTCGTAAGCTTATTT
1 TACCATAAGCTCGTAAGCTTATTT
*
724661 TACCAATATA-CT--T-A-C-CATTT
1 TACC-ATA-AGCTCGTAAGCTTATTT
*
724681 GTTCCATAAGCTCGTAAGCTTATTT
1 -TACCATAAGCTCGTAAGCTTATTT
724706 TACCA
1 TACCA
724711 ATACACTTGC
Statistics
Matches: 37, Mismatches: 4, Indels: 18
0.63 0.07 0.31
Matches are distributed among these distances:
19 1 0.03
20 9 0.24
21 4 0.11
22 2 0.05
23 2 0.05
24 9 0.24
25 9 0.24
26 1 0.03
ACGTcount: A:0.30, C:0.23, G:0.09, T:0.38
Consensus pattern (24 bp):
TACCATAAGCTCGTAAGCTTATTT
Found at i:724755 original size:20 final size:20
Alignment explanation
Indices: 724730--724772 Score: 68
Period size: 20 Copynumber: 2.1 Consensus size: 20
724720 CCATTATTCG
* *
724730 ATAACCATATACCATAGACA
1 ATAACCATAAACAATAGACA
724750 ATAACCATAAACAATAGACA
1 ATAACCATAAACAATAGACA
724770 ATA
1 ATA
724773 GCCCAATATA
Statistics
Matches: 21, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
20 21 1.00
ACGTcount: A:0.56, C:0.21, G:0.05, T:0.19
Consensus pattern (20 bp):
ATAACCATAAACAATAGACA
Found at i:731310 original size:19 final size:19
Alignment explanation
Indices: 731295--731331 Score: 56
Period size: 19 Copynumber: 1.9 Consensus size: 19
731285 TGATGAATAG
731295 TACCGTGAACAGTGAACAA
1 TACCGTGAACAGTGAACAA
**
731314 TGTCGTGAACAGTGAACA
1 TACCGTGAACAGTGAACA
731332 GTGCATCGAT
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
19 16 1.00
ACGTcount: A:0.38, C:0.19, G:0.24, T:0.19
Consensus pattern (19 bp):
TACCGTGAACAGTGAACAA
Found at i:731871 original size:46 final size:45
Alignment explanation
Indices: 731797--731928 Score: 201
Period size: 46 Copynumber: 2.9 Consensus size: 45
731787 TATAAAATCT
* * *
731797 CTTACCATTTATCCCATAAGCTCTTAAGCTTATTTTACCGACATA
1 CTTACCATTTATACCATAAGCTCGTAAGCTTATTTTACCAACATA
*
731842 CTTACCATTTAATACCATAAGCTCGTAAGCTTATTTTACCAATATA
1 CTTACCATTT-ATACCATAAGCTCGTAAGCTTATTTTACCAACATA
* *
731888 CTTACCATTTATTCCATAAGCTCGTAATCTTATTTTACCAA
1 CTTACCATTTATACCATAAGCTCGTAAGCTTATTTTACCAA
731929 TTCACTTTCC
Statistics
Matches: 80, Mismatches: 6, Indels: 2
0.91 0.07 0.02
Matches are distributed among these distances:
45 39 0.49
46 41 0.51
ACGTcount: A:0.31, C:0.24, G:0.06, T:0.39
Consensus pattern (45 bp):
CTTACCATTTATACCATAAGCTCGTAAGCTTATTTTACCAACATA
Found at i:731929 original size:45 final size:45
Alignment explanation
Indices: 731797--731950 Score: 213
Period size: 45 Copynumber: 3.4 Consensus size: 45
731787 TATAAAATCT
* * * *
731797 CTTACCATTTATCCCATAAGCTCTTAAGCTTATTTTACCGACATA
1 CTTACCATTTATTCCATAAGCTCGTAAGCTTATTTTACCAATATA
*
731842 CTTACCATTTAATACCATAAGCTCGTAAGCTTATTTTACCAATATA
1 CTTACCATTT-ATTCCATAAGCTCGTAAGCTTATTTTACCAATATA
*
731888 CTTACCATTTATTCCATAAGCTCGTAATCTTATTTTACCAAT-TCA
1 CTTACCATTTATTCCATAAGCTCGTAAGCTTATTTTACCAATAT-A
*
731933 CTTTCCA-TTATTCCATAA
1 CTTACCATTTATTCCATAA
731951 CCATATACCA
Statistics
Matches: 100, Mismatches: 7, Indels: 5
0.89 0.06 0.04
Matches are distributed among these distances:
44 12 0.12
45 47 0.47
46 41 0.41
ACGTcount: A:0.31, C:0.25, G:0.05, T:0.40
Consensus pattern (45 bp):
CTTACCATTTATTCCATAAGCTCGTAAGCTTATTTTACCAATATA
Found at i:731972 original size:20 final size:20
Alignment explanation
Indices: 731947--731989 Score: 59
Period size: 20 Copynumber: 2.1 Consensus size: 20
731937 CCATTATTCC
* * *
731947 ATAACCATATACCATAGACA
1 ATAACCATAAACAATAGAAA
731967 ATAACCATAAACAATAGAAA
1 ATAACCATAAACAATAGAAA
731987 ATA
1 ATA
731990 GCCAAATATA
Statistics
Matches: 20, Mismatches: 3, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
20 20 1.00
ACGTcount: A:0.58, C:0.19, G:0.05, T:0.19
Consensus pattern (20 bp):
ATAACCATAAACAATAGAAA
Found at i:733159 original size:20 final size:20
Alignment explanation
Indices: 733130--733179 Score: 64
Period size: 20 Copynumber: 2.5 Consensus size: 20
733120 TTTCAAAGTG
*
733130 ATGCACCGATGCAACAATCC
1 ATGCATCGATGCAACAATCC
* **
733150 ATGCATCGATGCACCCTTCC
1 ATGCATCGATGCAACAATCC
733170 ATGCATCGAT
1 ATGCATCGAT
733180 ACACCGATGC
Statistics
Matches: 26, Mismatches: 4, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
20 26 1.00
ACGTcount: A:0.28, C:0.34, G:0.16, T:0.22
Consensus pattern (20 bp):
ATGCATCGATGCAACAATCC
Found at i:733184 original size:20 final size:20
Alignment explanation
Indices: 733147--733184 Score: 67
Period size: 20 Copynumber: 1.9 Consensus size: 20
733137 GATGCAACAA
*
733147 TCCATGCATCGATGCACCCT
1 TCCATGCATCGATACACCCT
733167 TCCATGCATCGATACACC
1 TCCATGCATCGATACACC
733185 GATGCACCTT
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
20 17 1.00
ACGTcount: A:0.24, C:0.39, G:0.13, T:0.24
Consensus pattern (20 bp):
TCCATGCATCGATACACCCT
Found at i:733187 original size:28 final size:28
Alignment explanation
Indices: 733156--733212 Score: 96
Period size: 28 Copynumber: 2.0 Consensus size: 28
733146 ATCCATGCAT
733156 CGATGCACCCTTCCATGCATCGATACAC
1 CGATGCACCCTTCCATGCATCGATACAC
* *
733184 CGATGCACCTTTCCATGCATCGATGCAC
1 CGATGCACCCTTCCATGCATCGATACAC
733212 C
1 C
733213 AATTAATTTT
Statistics
Matches: 27, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
28 27 1.00
ACGTcount: A:0.23, C:0.39, G:0.16, T:0.23
Consensus pattern (28 bp):
CGATGCACCCTTCCATGCATCGATACAC
Found at i:740679 original size:21 final size:21
Alignment explanation
Indices: 740637--740680 Score: 54
Period size: 21 Copynumber: 2.1 Consensus size: 21
740627 ACCCTGAGAG
*
740637 CTAGCTCTTTACGAGCTGCTC
1 CTAGCTCTTTACGAGCTCCTC
*
740658 CTAGCTCTTCT-CGTGCTCCTC
1 CTAGCTCTT-TACGAGCTCCTC
740679 CT
1 CT
740681 CCTCTTCCGG
Statistics
Matches: 20, Mismatches: 2, Indels: 2
0.83 0.08 0.08
Matches are distributed among these distances:
21 19 0.95
22 1 0.05
ACGTcount: A:0.09, C:0.39, G:0.16, T:0.36
Consensus pattern (21 bp):
CTAGCTCTTTACGAGCTCCTC
Found at i:741841 original size:20 final size:20
Alignment explanation
Indices: 741812--741849 Score: 58
Period size: 20 Copynumber: 1.9 Consensus size: 20
741802 TTTCAAAGTG
*
741812 ATGCACCGATGCATCAATCC
1 ATGCACCGATGCACCAATCC
*
741832 ATGCATCGATGCACCAAT
1 ATGCACCGATGCACCAAT
741850 TAATTTTTCA
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
20 16 1.00
ACGTcount: A:0.32, C:0.32, G:0.16, T:0.21
Consensus pattern (20 bp):
ATGCACCGATGCACCAATCC
Found at i:741918 original size:45 final size:46
Alignment explanation
Indices: 741869--741959 Score: 148
Period size: 46 Copynumber: 2.0 Consensus size: 46
741859 AAACATCGAA
* * *
741869 TGCATTTTATGCATCTATGCAC-ATACCATGCATCGATGCACTCAG
1 TGCATTTGATGCATCGATGCACAAGACCATGCATCGATGCACTCAG
741914 TGCATTTGATGCATCGATGCACAAGACCATGCATCGATGCACTCAG
1 TGCATTTGATGCATCGATGCACAAGACCATGCATCGATGCACTCAG
741960 GTTTTTTTAA
Statistics
Matches: 42, Mismatches: 3, Indels: 1
0.91 0.07 0.02
Matches are distributed among these distances:
45 20 0.48
46 22 0.52
ACGTcount: A:0.27, C:0.26, G:0.19, T:0.27
Consensus pattern (46 bp):
TGCATTTGATGCATCGATGCACAAGACCATGCATCGATGCACTCAG
Found at i:742016 original size:110 final size:109
Alignment explanation
Indices: 741810--742020 Score: 275
Period size: 110 Copynumber: 1.9 Consensus size: 109
741800 TTTTTCAAAG
* *
741810 TGATGCACCGATGCATCAATCCATGCATCGATGCACCAATTAATTTTTCAAACATCGAATGCATT
1 TGATGCACCGATGCATCAAACCATGCATCGATGCACCAATT-ATTTTTAAAACATCGAATGCATT
* * *
741875 TTATGCATCTATGCACATACCATGCATCGATGCACTCAGTGCATT
65 TTATGCATCGATGCACATAACATGCACCGATGCACTCAGTGCATT
* *
741920 TGATGCATCGATGCA-CAAGACCATGCATCGATGCACTCAGGTT-TTTTTAAAACATCGAATGCA
1 TGATGCACCGATGCATCAA-ACCATGCATCGATGCAC-CA-ATTATTTTTAAAACATCGAATGCA
* *
741983 TTTTATGCATCGGTGCAC-TAAGAGTGCACCGATGCACT
63 TTTTATGCATCGATGCACATAACA-TGCACCGATGCACT
742021 GAGAGTCCAA
Statistics
Matches: 88, Mismatches: 9, Indels: 8
0.84 0.09 0.08
Matches are distributed among these distances:
109 6 0.07
110 78 0.89
111 2 0.02
112 2 0.02
ACGTcount: A:0.29, C:0.24, G:0.18, T:0.29
Consensus pattern (109 bp):
TGATGCACCGATGCATCAAACCATGCATCGATGCACCAATTATTTTTAAAACATCGAATGCATTT
TATGCATCGATGCACATAACATGCACCGATGCACTCAGTGCATT
Found at i:744076 original size:19 final size:19
Alignment explanation
Indices: 744052--744090 Score: 78
Period size: 19 Copynumber: 2.1 Consensus size: 19
744042 ACTCCCAGAG
744052 TACATGCCCTTATGATCTT
1 TACATGCCCTTATGATCTT
744071 TACATGCCCTTATGATCTT
1 TACATGCCCTTATGATCTT
744090 T
1 T
744091 GTGAGTAGCT
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
19 20 1.00
ACGTcount: A:0.21, C:0.26, G:0.10, T:0.44
Consensus pattern (19 bp):
TACATGCCCTTATGATCTT
Found at i:745799 original size:30 final size:30
Alignment explanation
Indices: 745743--745807 Score: 87
Period size: 30 Copynumber: 2.2 Consensus size: 30
745733 AAAAATTGAC
* *
745743 ACTACTTCTCTTTAAGGCAGCTAAAGTCAT
1 ACTACTTCTCTCTAAGGCAGCCAAAGTCAT
*
745773 ACTACATTCTCTCTGAGGCA-CCAAAGTCAT
1 ACTAC-TTCTCTCTAAGGCAGCCAAAGTCAT
745803 ACTAC
1 ACTAC
745808 CACCTCTCTT
Statistics
Matches: 31, Mismatches: 3, Indels: 2
0.86 0.08 0.06
Matches are distributed among these distances:
30 19 0.61
31 12 0.39
ACGTcount: A:0.31, C:0.28, G:0.12, T:0.29
Consensus pattern (30 bp):
ACTACTTCTCTCTAAGGCAGCCAAAGTCAT
Found at i:747741 original size:13 final size:13
Alignment explanation
Indices: 747709--747749 Score: 55
Period size: 13 Copynumber: 2.9 Consensus size: 13
747699 AAATCCTCTA
747709 CTCAAGATGAAAGCAC
1 CTCAAG-TG-AAG-AC
747725 CTCAAGTGAAGAC
1 CTCAAGTGAAGAC
747738 CTCAAGTGAAGA
1 CTCAAGTGAAGA
747750 AGATGATGAA
Statistics
Matches: 25, Mismatches: 0, Indels: 3
0.89 0.00 0.11
Matches are distributed among these distances:
13 14 0.56
14 3 0.12
15 2 0.08
16 6 0.24
ACGTcount: A:0.41, C:0.22, G:0.22, T:0.15
Consensus pattern (13 bp):
CTCAAGTGAAGAC
Found at i:751312 original size:21 final size:20
Alignment explanation
Indices: 751286--751338 Score: 63
Period size: 20 Copynumber: 2.6 Consensus size: 20
751276 GAGTATTTTG
751286 ACAAGAAGTTTCGAAACTTCT
1 ACAAGAAGTTTCGAAACTT-T
*
751307 ACAAG-AGTTTCGAAGCTTT
1 ACAAGAAGTTTCGAAACTTT
*
751326 CCAAGACAGTTTC
1 ACAAGA-AGTTTC
751339 CCGAAAAGTT
Statistics
Matches: 28, Mismatches: 2, Indels: 4
0.82 0.06 0.12
Matches are distributed among these distances:
19 5 0.18
20 12 0.43
21 11 0.39
ACGTcount: A:0.34, C:0.21, G:0.17, T:0.28
Consensus pattern (20 bp):
ACAAGAAGTTTCGAAACTTT
Done.