Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Scaffold143
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: 1221646
ACGTcount: A:0.32, C:0.18, G:0.19, T:0.31
Warning! 499 characters in sequence are not A, C, G, or T
File 5 of 8
Found at i:559503 original size:13 final size:13
Alignment explanation
Indices: 559485--559510 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
559475 CATTATTCCA
559485 TGTATCGATACAT
1 TGTATCGATACAT
559498 TGTATCGATACAT
1 TGTATCGATACAT
559511 GGATCTTTGT
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.31, C:0.15, G:0.15, T:0.38
Consensus pattern (13 bp):
TGTATCGATACAT
Found at i:562163 original size:51 final size:51
Alignment explanation
Indices: 562032--562147 Score: 232
Period size: 51 Copynumber: 2.3 Consensus size: 51
562022 TTTCCGAAGA
562032 GATACTCCAACCCCGGCTTCATTTCCAAAATATTGATTTCTCAAAATCGGG
1 GATACTCCAACCCCGGCTTCATTTCCAAAATATTGATTTCTCAAAATCGGG
562083 GATACTCCAACCCCGGCTTCATTTCCAAAATATTGATTTCTCAAAATCGGG
1 GATACTCCAACCCCGGCTTCATTTCCAAAATATTGATTTCTCAAAATCGGG
562134 GATACTCCAACCCC
1 GATACTCCAACCCC
562148 AGTTTTATTT
Statistics
Matches: 65, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
51 65 1.00
ACGTcount: A:0.29, C:0.30, G:0.13, T:0.28
Consensus pattern (51 bp):
GATACTCCAACCCCGGCTTCATTTCCAAAATATTGATTTCTCAAAATCGGG
Found at i:562305 original size:28 final size:26
Alignment explanation
Indices: 562239--562309 Score: 90
Period size: 27 Copynumber: 2.6 Consensus size: 26
562229 TCACAATCGA
562239 GGATACTCCAACCCCGTTAATCATCGG
1 GGATACTCCAACCCCGTTAATCA-CGG
*
562266 GGATACTCCAACCCCGTTATTTC-CGAAG
1 GGATACTCCAACCCCGTTA-ATCACG--G
562294 GGATACTCCAACCCCG
1 GGATACTCCAACCCCG
562310 GCTTTATTTC
Statistics
Matches: 40, Mismatches: 1, Indels: 5
0.87 0.02 0.11
Matches are distributed among these distances:
26 2 0.05
27 19 0.47
28 19 0.47
ACGTcount: A:0.25, C:0.35, G:0.18, T:0.21
Consensus pattern (26 bp):
GGATACTCCAACCCCGTTAATCACGG
Found at i:562328 original size:212 final size:211
Alignment explanation
Indices: 562081--562572 Score: 828
Period size: 212 Copynumber: 2.3 Consensus size: 211
562071 CTCAAAATCG
*
562081 GGGATACTCCAACCCCGGCTTCATTTCCAAAATATTGATTTCTCAAAATCGGGGATACTCCAACC
1 GGGATACTCCAACCCCGGCTTTATTT-CAAAATATTGATTTCTCAAAATCGGGGATACTCCAACC
562146 CC-AGTTTTATTTTCAAAACACCAATTTTCCTTTAATCAGGGATACTCCAGCTCCAATTTTATTT
65 CCGA-TTTTATTTTCAAAACACCAATTTTCCTTTAATCAGGGATACTCCAGCTCCAATTTTATTT
562210 CCAAAAAAACACCAA-TTTTTCACAATCGAGGATACTCCAACCCCGTTA-ATCATCGGGGATACT
129 CC--AAAAACACCAATTTTTTCACAATCGAGGATACTCCAACCCCGTTATATCATCGGGGATACT
*
562273 CCAACCCCGTTATTTCCGAA
192 CCAACCCCGTTACTTCCGAA
562293 GGGATACTCCAACCCCGGCTTTATTTCGAAAATATTGATTTCTCAAAATCGGGGATACTCCAACC
1 GGGATACTCCAACCCCGGCTTTATTTC-AAAATATTGATTTCTCAAAATCGGGGATACTCCAACC
*
562358 CCGATTTTATTTTCAAAACACCAATTTTCCTTTAATCAGGGATACTCCAGCTCCGATTTTATTTC
65 CCGATTTTATTTTCAAAACACCAATTTTCCTTTAATCAGGGATACTCCAGCTCCAATTTTATTTC
* *
562423 CAAAAACACCAATTTTTTCACAATCGAGGATACTCCAACCTCGTTATTTCATCGGGGATACTCCA
130 CAAAAACACCAATTTTTTCACAATCGAGGATACTCCAACCCCGTTATATCATCGGGGATACTCCA
*
562488 ACCCCGTTACTTCCGAG
195 ACCCCGTTACTTCCGAA
* * *
562505 GGGATACTCCAACCCTGGCTTTATTCTCAAAATATTGATTTCTCATAATTGGGGATACTCCAACC
1 GGGATACTCCAACCCCGGCTTTATT-TCAAAATATTGATTTCTCAAAATCGGGGATACTCCAACC
562570 CCG
65 CCG
562573 TTATTTCCGA
Statistics
Matches: 266, Mismatches: 9, Indels: 10
0.93 0.03 0.04
Matches are distributed among these distances:
210 11 0.04
211 33 0.12
212 219 0.82
213 3 0.01
ACGTcount: A:0.29, C:0.28, G:0.13, T:0.30
Consensus pattern (211 bp):
GGGATACTCCAACCCCGGCTTTATTTCAAAATATTGATTTCTCAAAATCGGGGATACTCCAACCC
CGATTTTATTTTCAAAACACCAATTTTCCTTTAATCAGGGATACTCCAGCTCCAATTTTATTTCC
AAAAACACCAATTTTTTCACAATCGAGGATACTCCAACCCCGTTATATCATCGGGGATACTCCAA
CCCCGTTACTTCCGAA
Found at i:562331 original size:263 final size:262
Alignment explanation
Indices: 561888--562360 Score: 838
Period size: 263 Copynumber: 1.8 Consensus size: 262
561878 CCATCTCTGA
* * * *
561888 TTTTATTTTCAAAACACTAATTTTCTATAATCGGGGATACCCCAACTTCGATTTTATTTCCAAAA
1 TTTTATTTTCAAAACACCAATTTTCTATAATCAGGGATACCCCAACTCCAATTTTATTTCCAAAA
*
561953 AAACACCAATTTTTCACAATCGGGGATACTCCAACCCCGTTAATCATCGGGGATACTCCAACCCC
66 AAACACCAATTTTTCACAATCGAGGATACTCCAACCCCGTTAATCATCGGGGATACTCCAACCCC
562018 GTTATTTCCGAAGAGATACTCCAACCCCGGCTTCATTTCCAAAATATTGATTTCTCAAAATCGGG
131 GTTATTTCCGAAGAGATACTCCAACCCCGGCTTCATTTCCAAAATATTGATTTCTCAAAATCGGG
562083 GATACTCCAACCCCGGCTTCATTTCCAAAATATTGATTTCTCAAAATCGGGGATACTCCAACCCC
196 GATACTCCAACCCCGGCTTCATTTCCAAAATATTGATTTCTCAAAATCGGGGATACTCCAACCCC
562148 AG
261 AG
* * *
562150 TTTTATTTTCAAAACACCAATTTTCCTTTAATCAGGGATACTCCAGCTCCAATTTTATTTCCAAA
1 TTTTATTTTCAAAACACCAATTTT-CTATAATCAGGGATACCCCAACTCCAATTTTATTTCCAAA
562215 AAAACACCAATTTTTCACAATCGAGGATACTCCAACCCCGTTAATCATCGGGGATACTCCAACCC
65 AAAACACCAATTTTTCACAATCGAGGATACTCCAACCCCGTTAATCATCGGGGATACTCCAACCC
* * *
562280 CGTTATTTCCGAAGGGATACTCCAACCCCGGCTTTATTTCGAAAATATTGATTTCTCAAAATCGG
130 CGTTATTTCCGAAGAGATACTCCAACCCCGGCTTCATTTCCAAAATATTGATTTCTCAAAATCGG
562345 GGATACTCCAACCCCG
195 GGATACTCCAACCCCG
562361 ATTTTATTTT
Statistics
Matches: 199, Mismatches: 11, Indels: 1
0.94 0.05 0.00
Matches are distributed among these distances:
262 23 0.12
263 176 0.88
ACGTcount: A:0.30, C:0.27, G:0.12, T:0.30
Consensus pattern (262 bp):
TTTTATTTTCAAAACACCAATTTTCTATAATCAGGGATACCCCAACTCCAATTTTATTTCCAAAA
AAACACCAATTTTTCACAATCGAGGATACTCCAACCCCGTTAATCATCGGGGATACTCCAACCCC
GTTATTTCCGAAGAGATACTCCAACCCCGGCTTCATTTCCAAAATATTGATTTCTCAAAATCGGG
GATACTCCAACCCCGGCTTCATTTCCAAAATATTGATTTCTCAAAATCGGGGATACTCCAACCCC
AG
Found at i:562414 original size:52 final size:53
Alignment explanation
Indices: 562339--562438 Score: 157
Period size: 52 Copynumber: 1.9 Consensus size: 53
562329 GATTTCTCAA
* *
562339 AATCGGGGATACTCCAACCCCGATTTTATTTTC-AAAACACCAATTTTCCTTT
1 AATCAGGGATACTCCAACCCCGATTTTATTTCCAAAAACACCAATTTTCCTTT
* *
562391 AATCAGGGATACTCCAGCTCCGATTTTATTTCCAAAAACACCAATTTT
1 AATCAGGGATACTCCAACCCCGATTTTATTTCCAAAAACACCAATTTT
562439 TTCACAATCG
Statistics
Matches: 43, Mismatches: 4, Indels: 1
0.90 0.08 0.02
Matches are distributed among these distances:
52 29 0.67
53 14 0.33
ACGTcount: A:0.31, C:0.26, G:0.10, T:0.33
Consensus pattern (53 bp):
AATCAGGGATACTCCAACCCCGATTTTATTTCCAAAAACACCAATTTTCCTTT
Found at i:562454 original size:53 final size:51
Alignment explanation
Indices: 562339--562462 Score: 144
Period size: 53 Copynumber: 2.4 Consensus size: 51
562329 GATTTCTCAA
* * *
562339 AATCGGGGATACTCCAACCCCGATTTTATTTTCAAAACACCAATTTTCCTTT
1 AATCGAGGATACTCCAACCCCGATTTTATTTCCAAAACACCAATTTT-CTTC
* *
562391 AATC-AGGGATACTCCAGCTCCGATTTTATTTCCAAAAACACCAATTTT-TTCAC
1 AATCGA-GGATACTCCAACCCCGATTTTATTTCC-AAAACACCAATTTTCTT--C
562444 AATCGAGGATACTCCAACC
1 AATCGAGGATACTCCAACC
562463 TCGTTATTTC
Statistics
Matches: 60, Mismatches: 7, Indels: 9
0.79 0.09 0.12
Matches are distributed among these distances:
51 2 0.03
52 28 0.47
53 29 0.48
54 1 0.02
ACGTcount: A:0.31, C:0.27, G:0.10, T:0.31
Consensus pattern (51 bp):
AATCGAGGATACTCCAACCCCGATTTTATTTCCAAAACACCAATTTTCTTC
Found at i:562481 original size:28 final size:28
Alignment explanation
Indices: 562445--562519 Score: 96
Period size: 28 Copynumber: 2.7 Consensus size: 28
562435 TTTTTTCACA
* * *
562445 ATCGAGGATACTCCAACCTCGTTATTTC
1 ATCGGGGATACTCCAACCCCGTTACTTC
562473 ATCGGGGATACTCCAACCCCGTTACTTC
1 ATCGGGGATACTCCAACCCCGTTACTTC
***
562501 CGAGGGGATACTCCAACCC
1 ATCGGGGATACTCCAACCC
562520 TGGCTTTATT
Statistics
Matches: 41, Mismatches: 6, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
28 41 1.00
ACGTcount: A:0.24, C:0.33, G:0.19, T:0.24
Consensus pattern (28 bp):
ATCGGGGATACTCCAACCCCGTTACTTC
Found at i:562624 original size:79 final size:78
Alignment explanation
Indices: 562475--562697 Score: 211
Period size: 79 Copynumber: 2.8 Consensus size: 78
562465 GTTATTTCAT
* * *
562475 CGGGGATACTCCAACCCCGTTACTTCCGAGGGGATACTCCAACCCTGGCT-TTATTCTCAAAATA
1 CGGGGATACTCCAACCCCGTTATTTCCGAAGGGATACTCCAACCC--GATATTATTCTCAAAATA
* * *
562539 TTGATTTCTCATAAT
64 TCGATTTCTCACAAC
* * * *
562554 TGGGGATACTCCAACCCCGTTATTTCCGAAGGGATACTCCAATCCCGATATTTTTTTC-TAATCA
1 CGGGGATACTCCAACCCCGTTATTTCCGAAGGGATACTCCAA-CCCGATATTATTCTCAAAAT-A
562618 TCGATTTCTCACAAC
64 TCGATTTCTCACAAC
* * * * * *
562633 CGGGGATACTCTAGCCCCGTCATTTTC-AAGGGGACACTCCAACCCCGTTATTA-TCTCCAAAAT
1 CGGGGATACTCCAACCCCGTTATTTCCGAA-GGGATACTCCAA-CCCGATATTATTCT-CAAAAT
562696 AT
63 AT
562698 TAAATTTCTC
Statistics
Matches: 117, Mismatches: 21, Indels: 12
0.78 0.14 0.08
Matches are distributed among these distances:
78 9 0.08
79 102 0.87
80 6 0.05
ACGTcount: A:0.26, C:0.29, G:0.16, T:0.30
Consensus pattern (78 bp):
CGGGGATACTCCAACCCCGTTATTTCCGAAGGGATACTCCAACCCGATATTATTCTCAAAATATC
GATTTCTCACAAC
Found at i:564960 original size:2 final size:2
Alignment explanation
Indices: 564947--564983 Score: 56
Period size: 2 Copynumber: 18.5 Consensus size: 2
564937 ATTTCACTTT
* *
564947 TA TA TG TA TA TA TA TA TA TA TA TA TA TA TA CA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
564984 TTAAAAAGAT
Statistics
Matches: 31, Mismatches: 4, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
2 31 1.00
ACGTcount: A:0.46, C:0.03, G:0.03, T:0.49
Consensus pattern (2 bp):
TA
Found at i:567581 original size:13 final size:13
Alignment explanation
Indices: 567563--567663 Score: 54
Period size: 13 Copynumber: 7.9 Consensus size: 13
567553 TAATAATAAT
567563 TAATTATATAAAA
1 TAATTATATAAAA
567576 TAATTATATATATAA
1 TAATTATATA-A-AA
*
567591 TAAATAGT-TATAAA
1 TAATTA-TATA-AAA
* *
567605 TAA-AAAATAAAA
1 TAATTATATAAAA
*
567617 -AA-TA-AAAAATA
1 TAATTATATAAA-A
*
567628 TAATTATATAAAT
1 TAATTATATAAAA
567641 TAATT-TAT-AAA
1 TAATTATATAAAA
*
567652 TAATTAAATAAA
1 TAATTATATAAA
567664 TTTTCATTAA
Statistics
Matches: 69, Mismatches: 9, Indels: 20
0.70 0.09 0.20
Matches are distributed among these distances:
10 4 0.06
11 11 0.16
12 10 0.14
13 22 0.32
14 10 0.14
15 11 0.16
16 1 0.01
ACGTcount: A:0.63, C:0.00, G:0.01, T:0.36
Consensus pattern (13 bp):
TAATTATATAAAA
Found at i:567585 original size:15 final size:17
Alignment explanation
Indices: 567557--567645 Score: 55
Period size: 17 Copynumber: 5.4 Consensus size: 17
567547 TTTATTTAAT
567557 AATAATTAATTATATAA
1 AATAATTAATTATATAA
*
567574 AATAATT-A-TATATAT
1 AATAATTAATTATATAA
* *
567589 AATAAATAGTTATAAATAA
1 AATAATTAATTAT--ATAA
* *
567608 AA-AA-TAA-AAAATAA
1 AATAATTAATTATATAA
567622 AA-AATATAATTATATAA
1 AATAAT-TAATTATATAA
*
567639 ATTAATT
1 AATAATT
567646 TATAAATAAT
Statistics
Matches: 54, Mismatches: 10, Indels: 16
0.68 0.12 0.20
Matches are distributed among these distances:
14 8 0.15
15 12 0.22
16 5 0.09
17 19 0.35
18 5 0.09
19 5 0.09
ACGTcount: A:0.63, C:0.00, G:0.01, T:0.36
Consensus pattern (17 bp):
AATAATTAATTATATAA
Found at i:567623 original size:6 final size:7
Alignment explanation
Indices: 567602--567627 Score: 52
Period size: 7 Copynumber: 3.7 Consensus size: 7
567592 AAATAGTTAT
567602 AAATAAA
1 AAATAAA
567609 AAATAAA
1 AAATAAA
567616 AAATAAA
1 AAATAAA
567623 AAATA
1 AAATA
567628 TAATTATATA
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 19 1.00
ACGTcount: A:0.85, C:0.00, G:0.00, T:0.15
Consensus pattern (7 bp):
AAATAAA
Found at i:567824 original size:16 final size:16
Alignment explanation
Indices: 567800--567832 Score: 50
Period size: 17 Copynumber: 2.1 Consensus size: 16
567790 TGAATATTAT
567800 TTTATTAAAT-TTTAA
1 TTTATTAAATATTTAA
567815 TTTATGTAAATATTTAA
1 TTTAT-TAAATATTTAA
567832 T
1 T
567833 GATTATATAT
Statistics
Matches: 16, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
15 5 0.31
16 5 0.31
17 6 0.38
ACGTcount: A:0.39, C:0.00, G:0.03, T:0.58
Consensus pattern (16 bp):
TTTATTAAATATTTAA
Found at i:567965 original size:21 final size:21
Alignment explanation
Indices: 567921--567965 Score: 56
Period size: 21 Copynumber: 2.1 Consensus size: 21
567911 TAAAATTAAA
*
567921 TAAATATTTTATTATTAATTT
1 TAAATATTTTATTATTAATAT
*
567942 TAAATTTTTTATTA-TAATAAT
1 TAAATATTTTATTATTAAT-AT
567963 TAA
1 TAA
567966 TTTAATATGG
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
20 4 0.19
21 17 0.81
ACGTcount: A:0.42, C:0.00, G:0.00, T:0.58
Consensus pattern (21 bp):
TAAATATTTTATTATTAATAT
Found at i:568138 original size:37 final size:35
Alignment explanation
Indices: 568097--568180 Score: 96
Period size: 37 Copynumber: 2.3 Consensus size: 35
568087 TTCAGTAAGG
*
568097 AAAAAAAAAAAAAAACTGAAAGAAATGAAATAGAT
1 AAAAAAAAAAAAAAAATGAAAGAAATGAAATAGAT
**** *
568132 GAAAAAAGAAAATTTGAATGAAAGAAATGAAATAGGT
1 -AAAAAA-AAAAAAAAAATGAAAGAAATGAAATAGAT
568169 AAAAAAAAAAAA
1 AAAAAAAAAAAA
568181 GAAGAAATTT
Statistics
Matches: 39, Mismatches: 8, Indels: 3
0.78 0.16 0.06
Matches are distributed among these distances:
35 4 0.10
36 12 0.31
37 23 0.59
ACGTcount: A:0.71, C:0.01, G:0.14, T:0.13
Consensus pattern (35 bp):
AAAAAAAAAAAAAAAATGAAAGAAATGAAATAGAT
Found at i:578175 original size:19 final size:20
Alignment explanation
Indices: 578151--578205 Score: 69
Period size: 19 Copynumber: 2.8 Consensus size: 20
578141 GTATCTATAT
**
578151 ATTGTATCGATACATGTTC-
1 ATTGTATCGATACATGCACA
578170 ATTGTATCGAT-CTATGCACA
1 ATTGTATCGATAC-ATGCACA
578190 ATTGTATCGATACATG
1 ATTGTATCGATACATG
578206 AAATTGGCAG
Statistics
Matches: 31, Mismatches: 2, Indels: 5
0.82 0.05 0.13
Matches are distributed among these distances:
18 1 0.03
19 15 0.48
20 14 0.45
21 1 0.03
ACGTcount: A:0.29, C:0.16, G:0.16, T:0.38
Consensus pattern (20 bp):
ATTGTATCGATACATGCACA
Found at i:578259 original size:20 final size:20
Alignment explanation
Indices: 578234--578287 Score: 72
Period size: 20 Copynumber: 2.7 Consensus size: 20
578224 TTACCACTGT
** *
578234 TTGTATCGATACATGGCACA
1 TTGTATCGATACATAACAAA
578254 TTGTATCGATACATAACAAA
1 TTGTATCGATACATAACAAA
*
578274 TTGTATCAATACAT
1 TTGTATCGATACAT
578288 TATCCCAAAT
Statistics
Matches: 30, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
20 30 1.00
ACGTcount: A:0.37, C:0.17, G:0.13, T:0.33
Consensus pattern (20 bp):
TTGTATCGATACATAACAAA
Found at i:579525 original size:19 final size:19
Alignment explanation
Indices: 579501--579567 Score: 74
Period size: 19 Copynumber: 3.8 Consensus size: 19
579491 ATTCAACGAT
579501 TTGTATCGATACATAAAAG
1 TTGTATCGATACATAAAAG
579520 TTGTATCGATAC----AA-
1 TTGTATCGATACATAAAAG
**
579534 -TGTATCGATACATAAGTG
1 TTGTATCGATACATAAAAG
579552 TTGTATCGATACATAA
1 TTGTATCGATACATAA
579568 TTAGCTACTG
Statistics
Matches: 40, Mismatches: 2, Indels: 12
0.74 0.04 0.22
Matches are distributed among these distances:
13 11 0.28
15 2 0.05
19 27 0.68
ACGTcount: A:0.37, C:0.12, G:0.16, T:0.34
Consensus pattern (19 bp):
TTGTATCGATACATAAAAG
Found at i:579538 original size:32 final size:32
Alignment explanation
Indices: 579502--579564 Score: 108
Period size: 32 Copynumber: 2.0 Consensus size: 32
579492 TTCAACGATT
579502 TGTATCGATACATAAAAGTTGTATCGATACAA
1 TGTATCGATACATAAAAGTTGTATCGATACAA
**
579534 TGTATCGATACATAAGTGTTGTATCGATACA
1 TGTATCGATACATAAAAGTTGTATCGATACA
579565 TAATTAGCTA
Statistics
Matches: 29, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
32 29 1.00
ACGTcount: A:0.37, C:0.13, G:0.17, T:0.33
Consensus pattern (32 bp):
TGTATCGATACATAAAAGTTGTATCGATACAA
Found at i:579539 original size:13 final size:13
Alignment explanation
Indices: 579521--579545 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
579511 ACATAAAAGT
579521 TGTATCGATACAA
1 TGTATCGATACAA
579534 TGTATCGATACA
1 TGTATCGATACA
579546 TAAGTGTTGT
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:0.36, C:0.16, G:0.16, T:0.32
Consensus pattern (13 bp):
TGTATCGATACAA
Found at i:583768 original size:21 final size:21
Alignment explanation
Indices: 583703--583773 Score: 56
Period size: 21 Copynumber: 3.3 Consensus size: 21
583693 TCCGTGTTAG
*
583703 GCATGAATCATAGCTTAAAAT
1 GCATGAAACATAGCTTAAAAT
* * *
583724 GCCCTAGAGACAT-GATGT-AAAT
1 G-CAT-GAAACATAGCT-TAAAAT
583746 GCATGAAACATAGCTTAAAAT
1 GCATGAAACATAGCTTAAAAT
*
583767 GCTTGAA
1 GCATGAA
583774 TCATGGGCTG
Statistics
Matches: 37, Mismatches: 8, Indels: 10
0.67 0.15 0.18
Matches are distributed among these distances:
20 7 0.19
21 15 0.41
22 9 0.24
23 6 0.16
ACGTcount: A:0.41, C:0.15, G:0.18, T:0.25
Consensus pattern (21 bp):
GCATGAAACATAGCTTAAAAT
Found at i:585690 original size:49 final size:49
Alignment explanation
Indices: 585533--586138 Score: 497
Period size: 49 Copynumber: 12.6 Consensus size: 49
585523 CGAAGAATGA
* * * * * *
585533 CAATGTGCTGATTCATGGCCAGCGACATTAGACTTGAAGAAGAA--TGC
1 CAATATGCTGATTCAAGGCCAGCGACATTGGTCTTAAAGATGAAGGTGC
* ** * * * *
585580 CAATGTGCTGAGACAAGGCCAGTGACATTAGG-CTTAGGAATGTTAAAGATGC
1 CAATATGCTGATTCAAGGCCAGCGACATT-GGTCTTA--AA-GATGAAGGTGC
* * * * *
585632 CAATATGCTGATTCAAGGCCAACGATATCGGACTTAAAGATGAAGATGC
1 CAATATGCTGATTCAAGGCCAGCGACATTGGTCTTAAAGATGAAGGTGC
* * * * *
585681 CAATGTGCTGATTGAAGGCCAACGACATTGGTCTTTAGAGATGACTAAGGCGC
1 CAATATGCTGATTCAAGGCCAGCGACATTGGTC-TTAAAGATG---AAGGTGC
* *
585734 CAATATGCTGATTCAAGGACAGCG-CTATTGGACTTAAAGATGAAGGTGC
1 CAATATGCTGATTCAAGGCCAGCGAC-ATTGGTCTTAAAGATGAAGGTGC
* * * *
585783 CAATGTGCTGATTCAAAGCCAGCGACATTGGACTTAAAGATGACAAAGGCGC
1 CAATATGCTGATTCAAGGCCAGCGACATTGGTCTTAAAGATG---AAGGTGC
* * *
585835 CAATATGCTAATTCAAGGCCAGCGATATTGGAC-T-----T----GTGC
1 CAATATGCTGATTCAAGGCCAGCGACATTGGTCTTAAAGATGAAGGTGC
* *
585874 CAATGTGCTGATTCAAGGCCAGCGACATTGGTCTTAAAGA-CAAGGTGC
1 CAATATGCTGATTCAAGGCCAGCGACATTGGTCTTAAAGATGAAGGTGC
*
585922 CAATATGCTGATTCAAGGCCAGCGACATCGGTCTTAAAGATGAAGGTGC
1 CAATATGCTGATTCAAGGCCAGCGACATTGGTCTTAAAGATGAAGGTGC
* * *
585971 CAATATGCTGATTCAAGGCCAGCGATATTGG-------GCT---CGTGC
1 CAATATGCTGATTCAAGGCCAGCGACATTGGTCTTAAAGATGAAGGTGC
* * * *
586010 CAATGTGCTGATTCAGGGCTAGCGACATTGGTCTTAAAGATGAACGTGC
1 CAATATGCTGATTCAAGGCCAGCGACATTGGTCTTAAAGATGAAGGTGC
* * * * *
586059 CAATGTGCTGATTCAAGGCCAACAACATCGGTCTTAAAGATAAAGGTGC
1 CAATATGCTGATTCAAGGCCAGCGACATTGGTCTTAAAGATGAAGGTGC
*
586108 CAATATGCTGATTCAAGGCCAGCGATATTGG
1 CAATATGCTGATTCAAGGCCAGCGACATTGG
586139 GCTCGTGCCA
Statistics
Matches: 452, Mismatches: 70, Indels: 72
0.76 0.12 0.12
Matches are distributed among these distances:
39 63 0.14
40 1 0.00
42 2 0.00
46 3 0.01
47 28 0.06
48 43 0.10
49 191 0.42
50 14 0.03
51 3 0.01
52 73 0.16
53 31 0.07
ACGTcount: A:0.31, C:0.19, G:0.26, T:0.24
Consensus pattern (49 bp):
CAATATGCTGATTCAAGGCCAGCGACATTGGTCTTAAAGATGAAGGTGC
Found at i:585888 original size:39 final size:40
Alignment explanation
Indices: 585833--586229 Score: 163
Period size: 49 Copynumber: 8.9 Consensus size: 40
585823 TGACAAAGGC
* * *
585833 GCCAATATGCTAATTCAAGGCCAGCGATATTGGACTT-GT
1 GCCAATATGCTGATTCAAGGCCAGCGACATTGGTCTTAGT
*
585872 GCCAATGTGCTGATTCAAGGCCAGCGACATTGGTCTTAAAGACAAGGT
1 GCCAATATGCTGATTCAAGGCCAGCGACATTGGTCTT-------A-GT
*
585920 GCCAATATGCTGATTCAAGGCCAGCGACATCGGTCTTAAAGATGAAGGT
1 GCCAATATGCTGATTCAAGGCCAGCGACATTGGTC-T-----T--A-GT
* * *
585969 GCCAATATGCTGATTCAAGGCCAGCGATATTGGGC-TCGT
1 GCCAATATGCTGATTCAAGGCCAGCGACATTGGTCTTAGT
* * *
586008 GCCAATGTGCTGATTCAGGGCTAGCGACATTGGTCTTAAAGATGAACGT
1 GCCAATATGCTGATTCAAGGCCAGCGACATTGGTC-T-----T--A-GT
* * * *
586057 GCCAATGTGCTGATTCAAGGCCAACAACATCGGTCTTAAAGATAAAGGT
1 GCCAATATGCTGATTCAAGGCCAGCGACATTGGTC-T-----T--A-GT
* * *
586106 GCCAATATGCTGATTCAAGGCCAGCGATATTGGGC-TCGT
1 GCCAATATGCTGATTCAAGGCCAGCGACATTGGTCTTAGT
* * *
586145 GCCAATGTGCTGATTC-AGAGCTAGCGATATTGGTCTTAAAGAAAAAT
1 GCCAATATGCTGATTCAAG-GCCAGCGACATTGGTCTT--AG-----T
* * *
586192 GCCAATGTGCTGATACAAGGCCAGCGACATTGGGCTTA
1 GCCAATATGCTGATTCAAGGCCAGCGACATTGGTCTTA
586230 AAGGTGCCAC
Statistics
Matches: 284, Mismatches: 39, Indels: 64
0.73 0.10 0.17
Matches are distributed among these distances:
38 2 0.01
39 96 0.34
40 1 0.00
42 3 0.01
45 1 0.00
46 1 0.00
47 31 0.11
48 37 0.13
49 111 0.39
54 1 0.00
ACGTcount: A:0.29, C:0.20, G:0.26, T:0.25
Consensus pattern (40 bp):
GCCAATATGCTGATTCAAGGCCAGCGACATTGGTCTTAGT
Found at i:586024 original size:88 final size:88
Alignment explanation
Indices: 585918--586079 Score: 270
Period size: 88 Copynumber: 1.8 Consensus size: 88
585908 TAAAGACAAG
*
585918 GTGCCAATATGCTGATTCAAGGCCAGCGACATCGGTCTTAAAGATGAAGGTGCCAATATGCTGAT
1 GTGCCAATATGCTGATTCAAGGCCAGCGACATCGGTCTTAAAGATGAACGTGCCAATATGCTGAT
585983 TCAAGGCCAGCGATATTGGGCTC
66 TCAAGGCCAGCGATATTGGGCTC
* * * * *
586006 GTGCCAATGTGCTGATTCAGGGCTAGCGACATTGGTCTTAAAGATGAACGTGCCAATGTGCTGAT
1 GTGCCAATATGCTGATTCAAGGCCAGCGACATCGGTCTTAAAGATGAACGTGCCAATATGCTGAT
586071 TCAAGGCCA
66 TCAAGGCCA
586080 ACAACATCGG
Statistics
Matches: 68, Mismatches: 6, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
88 68 1.00
ACGTcount: A:0.27, C:0.21, G:0.28, T:0.25
Consensus pattern (88 bp):
GTGCCAATATGCTGATTCAAGGCCAGCGACATCGGTCTTAAAGATGAACGTGCCAATATGCTGAT
TCAAGGCCAGCGATATTGGGCTC
Found at i:586119 original size:137 final size:136
Alignment explanation
Indices: 585732--586232 Score: 693
Period size: 137 Copynumber: 3.7 Consensus size: 136
585722 TGACTAAGGC
* * *
585732 GCCAATATGCTGATTCAAGGAC-AGCG-CTATTGGACTTAAAGATGAAGGTGCCAATGTGCTGAT
1 GCCAATGTGCTGATTC-AGGGCTAGCGAC-ATTGGTCTTAAAGA-GAAGGTGCCAATGTGCTGAT
* * * * *
585795 TCAAAGCCAGCGACATTGGACTTAAAGATGACAAAGGCGCCAATATGCTAATTCAAGGCCAGCGA
63 TCAAGGCCAGCGACATCGGTCTTAAAGAT---AAAGGTGCCAATATGCTGATTCAAGGCCAGCGA
* *
585860 TATTGGACTTGT
125 TATTGGGCTCGT
* * * *
585872 GCCAATGTGCTGATTCAAGGCCAGCGACATTGGTCTTAAAGACAAGGTGCCAATATGCTGATTCA
1 GCCAATGTGCTGATTCAGGGCTAGCGACATTGGTCTTAAAGAGAAGGTGCCAATGTGCTGATTCA
*
585937 AGGCCAGCGACATCGGTCTTAAAGATGAAGGTGCCAATATGCTGATTCAAGGCCAGCGATATTGG
66 AGGCCAGCGACATCGGTCTTAAAGATAAAGGTGCCAATATGCTGATTCAAGGCCAGCGATATTGG
586002 GCTCGT
131 GCTCGT
*
586008 GCCAATGTGCTGATTCAGGGCTAGCGACATTGGTCTTAAAGATGAACGTGCCAATGTGCTGATTC
1 GCCAATGTGCTGATTCAGGGCTAGCGACATTGGTCTTAAAGA-GAAGGTGCCAATGTGCTGATTC
* *
586073 AAGGCCAACAACATCGGTCTTAAAGATAAAGGTGCCAATATGCTGATTCAAGGCCAGCGATATTG
65 AAGGCCAGCGACATCGGTCTTAAAGATAAAGGTGCCAATATGCTGATTCAAGGCCAGCGATATTG
586138 GGCTCGT
130 GGCTCGT
* * ** *
586145 GCCAATGTGCTGATTCAGAGCTAGCGATATTGGTCTTAAAGA-AAAATGCCAATGTGCTGATACA
1 GCCAATGTGCTGATTCAGGGCTAGCGACATTGGTCTTAAAGAGAAGGTGCCAATGTGCTGATTCA
* *
586209 AGGCCAGCGACATTGGGCTTAAAG
66 AGGCCAGCGACATCGGTCTTAAAG
586233 GTGCCACAGA
Statistics
Matches: 327, Mismatches: 31, Indels: 11
0.89 0.08 0.03
Matches are distributed among these distances:
135 39 0.12
136 80 0.24
137 128 0.39
139 47 0.14
140 32 0.10
141 1 0.00
ACGTcount: A:0.30, C:0.20, G:0.26, T:0.24
Consensus pattern (136 bp):
GCCAATGTGCTGATTCAGGGCTAGCGACATTGGTCTTAAAGAGAAGGTGCCAATGTGCTGATTCA
AGGCCAGCGACATCGGTCTTAAAGATAAAGGTGCCAATATGCTGATTCAAGGCCAGCGATATTGG
GCTCGT
Found at i:586224 original size:86 final size:88
Alignment explanation
Indices: 586054--586227 Score: 237
Period size: 88 Copynumber: 2.0 Consensus size: 88
586044 TAAAGATGAA
*
586054 CGTGCCAATGTGCTGATTCAAGGCCAACAACATCGGTCTTAAAGATAAAGGTGCCAATATGCTGA
1 CGTGCCAATGTGCTGATTCAAGGCCAACAACATCGGTCTTAAAGATAAAGATGCCAATATGCTGA
* *
586119 TTCAAGGCCAGCGATATTGGGCT
66 TACAAGGCCAGCGACATTGGGCT
* * * * * *
586142 CGTGCCAATGTGCTGATTC-AGAGCTAGCGATATTGGTCTTAAAGA-AAA-ATGCCAATGTGCTG
1 CGTGCCAATGTGCTGATTCAAG-GCCAACAACATCGGTCTTAAAGATAAAGATGCCAATATGCTG
586204 ATACAAGGCCAGCGACATTGGGCT
65 ATACAAGGCCAGCGACATTGGGCT
586228 TAAAGGTGCC
Statistics
Matches: 76, Mismatches: 9, Indels: 4
0.85 0.10 0.04
Matches are distributed among these distances:
86 34 0.45
87 5 0.07
88 37 0.49
ACGTcount: A:0.29, C:0.21, G:0.26, T:0.24
Consensus pattern (88 bp):
CGTGCCAATGTGCTGATTCAAGGCCAACAACATCGGTCTTAAAGATAAAGATGCCAATATGCTGA
TACAAGGCCAGCGACATTGGGCT
Found at i:586365 original size:29 final size:30
Alignment explanation
Indices: 586259--586435 Score: 240
Period size: 29 Copynumber: 6.1 Consensus size: 30
586249 GACTTAAAAG
*
586259 GAAAAAGATGCCACGGACTTGTGGGCTTTT
1 GAAAAAGATGCCACTGACTTGTGGGCTTTT
* * *
586289 G--AAGGTTGCCGCTGACTTGTGGGCTTTT
1 GAAAAAGATGCCACTGACTTGTGGGCTTTT
* *
586317 G--AAGGTTGCCACTGACTTGTGGGC-TTT
1 GAAAAAGATGCCACTGACTTGTGGGCTTTT
586344 GAAAAAGATGCCACTGACTTGTGGGCTTTT
1 GAAAAAGATGCCACTGACTTGTGGGCTTTT
*
586374 GAAAAAGATGCCACTAACTTGTGGGC-TTT
1 GAAAAAGATGCCACTGACTTGTGGGCTTTT
*
586403 GGAAAAGATGCCACTGACTTGTGGGCTTTT
1 GAAAAAGATGCCACTGACTTGTGGGCTTTT
586433 GAA
1 GAA
586436 GGGTGAGGAA
Statistics
Matches: 132, Mismatches: 11, Indels: 8
0.87 0.07 0.05
Matches are distributed among these distances:
27 4 0.03
28 46 0.35
29 48 0.36
30 34 0.26
ACGTcount: A:0.23, C:0.17, G:0.30, T:0.30
Consensus pattern (30 bp):
GAAAAAGATGCCACTGACTTGTGGGCTTTT
Found at i:586402 original size:59 final size:58
Alignment explanation
Indices: 586259--586435 Score: 243
Period size: 59 Copynumber: 3.1 Consensus size: 58
586249 GACTTAAAAG
* * * *
586259 GAAAAAGATGCCACGGACTTGTGGGCTTTTG-AAGGTTGCCGCTGACTTGTGGGCTTTT
1 GAAAAAGATGCCACTGACTTGTGGGC-TTTGAAAAGATGCCACTGACTTGTGGGCTTTT
* *
586317 G--AAGGTTGCCACTGACTTGTGGGCTTTGAAAAAGATGCCACTGACTTGTGGGCTTTT
1 GAAAAAGATGCCACTGACTTGTGGGCTTTG-AAAAGATGCCACTGACTTGTGGGCTTTT
*
586374 GAAAAAGATGCCACTAACTTGTGGGCTTTGGAAAAGATGCCACTGACTTGTGGGCTTTT
1 GAAAAAGATGCCACTGACTTGTGGGCTTT-GAAAAGATGCCACTGACTTGTGGGCTTTT
586433 GAA
1 GAA
586436 GGGTGAGGAA
Statistics
Matches: 105, Mismatches: 9, Indels: 9
0.85 0.07 0.07
Matches are distributed among these distances:
55 4 0.04
56 20 0.19
57 25 0.24
58 1 0.01
59 54 0.51
60 1 0.01
ACGTcount: A:0.23, C:0.17, G:0.30, T:0.30
Consensus pattern (58 bp):
GAAAAAGATGCCACTGACTTGTGGGCTTTGAAAAGATGCCACTGACTTGTGGGCTTTT
Found at i:587896 original size:17 final size:17
Alignment explanation
Indices: 587855--587912 Score: 73
Period size: 17 Copynumber: 3.5 Consensus size: 17
587845 CTTTTTGTTG
* *
587855 TTTTTTTTGTCTCTTT-
1 TTTTTTTTGTTTGTTTA
*
587871 TTTTGTTTGTTTGTTTA
1 TTTTTTTTGTTTGTTTA
*
587888 TTTTTTTTGGTTGTTTA
1 TTTTTTTTGTTTGTTTA
587905 TTTTTTTT
1 TTTTTTTT
587913 ATCTCTCTTT
Statistics
Matches: 36, Mismatches: 5, Indels: 1
0.86 0.12 0.02
Matches are distributed among these distances:
16 13 0.36
17 23 0.64
ACGTcount: A:0.03, C:0.03, G:0.12, T:0.81
Consensus pattern (17 bp):
TTTTTTTTGTTTGTTTA
Found at i:587940 original size:15 final size:14
Alignment explanation
Indices: 587868--587954 Score: 57
Period size: 16 Copynumber: 5.7 Consensus size: 14
587858 TTTTTGTCTC
*
587868 TTTTTTTGTTTGTTTG
1 TTTTTTT-TTT-TTGG
*
587884 TTTATTTTTTTTGG
1 TTTTTTTTTTTTGG
**
587898 TTGTTTATTTTTTTTA
1 TT-TTT-TTTTTTTGG
*
587914 TCTCTCTTTTTTTTGG
1 T-T-TTTTTTTTTTGG
*
587930 TTTTTTCTTTTTTTG
1 TTTTTT-TTTTTTGG
587945 TTTTTTTTTT
1 TTTTTTTTTT
587955 GGCGAAGGAT
Statistics
Matches: 56, Mismatches: 11, Indels: 10
0.73 0.14 0.13
Matches are distributed among these distances:
14 12 0.21
15 19 0.34
16 22 0.39
17 3 0.05
ACGTcount: A:0.03, C:0.05, G:0.10, T:0.82
Consensus pattern (14 bp):
TTTTTTTTTTTTGG
Found at i:587940 original size:16 final size:14
Alignment explanation
Indices: 587846--587954 Score: 74
Period size: 15 Copynumber: 7.1 Consensus size: 14
587836 ATCCGGACCC
587846 TTTTTGTTGTTTTTT
1 TTTTTGTT-TTTTTT
* *
587861 TTGTCTCTTTTTTTGT
1 TT-TTTGTTTTTTT-T
587877 TTGTTTGTTTATTTTT
1 TT-TTTGTTT-TTTTT
587893 TTTGGTTGTTTATTTTT
1 TTT--TTGTTT-TTTTT
* * * *
587910 TTTATCTCTCTTTT
1 TTTTTGTTTTTTTT
*
587924 TTTTGGTTTTTTCTT
1 TTTTTGTTTTTT-TT
587939 TTTTTGTTTTTTTT
1 TTTTTGTTTTTTTT
587953 TT
1 TT
587955 GGCGAAGGAT
Statistics
Matches: 74, Mismatches: 14, Indels: 13
0.73 0.14 0.13
Matches are distributed among these distances:
14 15 0.20
15 24 0.32
16 16 0.22
17 19 0.26
ACGTcount: A:0.03, C:0.06, G:0.11, T:0.81
Consensus pattern (14 bp):
TTTTTGTTTTTTTT
Found at i:587954 original size:21 final size:21
Alignment explanation
Indices: 587845--587954 Score: 80
Period size: 21 Copynumber: 4.9 Consensus size: 21
587835 CATCCGGACC
* *
587845 CTTTTTGTTGTTTTTTTTGTCT
1 CTTTTT-TTGTTTTTTTTTTTT
587867 CTTTTTTTGTTTGTTTGTTTATTT
1 CTTTTTTTGTTT-TTT-TTT-TTT
587891 -TTTTTGGTTGTTTATTTTTTTTAT
1 CTTTTT--TTGTTT-TTTTTTTT-T
* **
587915 CTCTCTTTT-TTTTGGTTTTTT
1 CT-TTTTTTGTTTTTTTTTTTT
587936 CTTTTTTTGTTTTTTTTTT
1 CTTTTTTTGTTTTTTTTTT
587955 GGCGAAGGAT
Statistics
Matches: 70, Mismatches: 9, Indels: 19
0.71 0.09 0.19
Matches are distributed among these distances:
20 5 0.07
21 17 0.24
22 15 0.21
23 12 0.17
24 8 0.11
25 10 0.14
26 3 0.04
ACGTcount: A:0.03, C:0.06, G:0.11, T:0.80
Consensus pattern (21 bp):
CTTTTTTTGTTTTTTTTTTTT
Found at i:598814 original size:12 final size:12
Alignment explanation
Indices: 598797--598824 Score: 56
Period size: 12 Copynumber: 2.3 Consensus size: 12
598787 AAGAGGGAAG
598797 ATCGGTAGATGA
1 ATCGGTAGATGA
598809 ATCGGTAGATGA
1 ATCGGTAGATGA
598821 ATCG
1 ATCG
598825 CCCATCTAAT
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 16 1.00
ACGTcount: A:0.32, C:0.11, G:0.32, T:0.25
Consensus pattern (12 bp):
ATCGGTAGATGA
Found at i:602888 original size:49 final size:49
Alignment explanation
Indices: 602707--602888 Score: 152
Period size: 49 Copynumber: 3.7 Consensus size: 49
602697 CGGATAATGA
* * * * * *
602707 CAATGTGCTGATTCATGGCCAGCAACATTAGACTTGAAGAAG-A-ATGC
1 CAATGTGCTGATTCAAGGCCAACGACATTGGACTTAAAGATGAAGATGC
** * ** * *
602754 CAATGTGCTGAGACAAGGCCAGCGACATTGGGGTTAGGAATGTTAAAGATGC
1 CAATGTGCTGATTCAAGGCCAACGACATTGGACTTA--AA-GATGAAGATGC
* * * * *
602806 CAATATGCTGATTCAAGGCAAATGATATCGGACTTAAAGATGAAGATGC
1 CAATGTGCTGATTCAAGGCCAACGACATTGGACTTAAAGATGAAGATGC
*
602855 CAATGTGCCGATTCAAGGCCAACGACATTGGACT
1 CAATGTGCTGATTCAAGGCCAACGACATTGGACT
602889 CGTCCCCACA
Statistics
Matches: 101, Mismatches: 29, Indels: 8
0.73 0.21 0.06
Matches are distributed among these distances:
47 28 0.28
49 39 0.39
50 3 0.03
51 1 0.01
52 30 0.30
ACGTcount: A:0.34, C:0.18, G:0.26, T:0.23
Consensus pattern (49 bp):
CAATGTGCTGATTCAAGGCCAACGACATTGGACTTAAAGATGAAGATGC
Found at i:603313 original size:15 final size:15
Alignment explanation
Indices: 603290--603320 Score: 53
Period size: 15 Copynumber: 2.1 Consensus size: 15
603280 ATCAAAGATA
603290 ATGAAGATAATGATG
1 ATGAAGATAATGATG
*
603305 ATGATGATAATGATG
1 ATGAAGATAATGATG
603320 A
1 A
603321 AGTTGACTCG
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
15 15 1.00
ACGTcount: A:0.45, C:0.00, G:0.26, T:0.29
Consensus pattern (15 bp):
ATGAAGATAATGATG
Found at i:607432 original size:13 final size:13
Alignment explanation
Indices: 607414--607439 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
607404 AATTTTTTGG
607414 TGTATCGATACAT
1 TGTATCGATACAT
607427 TGTATCGATACAT
1 TGTATCGATACAT
607440 ACTTGGTGTA
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.31, C:0.15, G:0.15, T:0.38
Consensus pattern (13 bp):
TGTATCGATACAT
Found at i:607534 original size:20 final size:21
Alignment explanation
Indices: 607487--607541 Score: 76
Period size: 20 Copynumber: 2.7 Consensus size: 21
607477 AATCCCAATG
**
607487 ACATGTATCGATACATCTTTT
1 ACATGTATCGATACATCTTCA
*
607508 TCATGTATCGATACAT-TTCA
1 ACATGTATCGATACATCTTCA
607528 ACATGTATCGATAC
1 ACATGTATCGATAC
607542 TTTGAATTGT
Statistics
Matches: 30, Mismatches: 4, Indels: 1
0.86 0.11 0.03
Matches are distributed among these distances:
20 15 0.50
21 15 0.50
ACGTcount: A:0.31, C:0.20, G:0.11, T:0.38
Consensus pattern (21 bp):
ACATGTATCGATACATCTTCA
Found at i:609561 original size:21 final size:20
Alignment explanation
Indices: 609532--609574 Score: 59
Period size: 20 Copynumber: 2.1 Consensus size: 20
609522 GGCTAGTGTG
*
609532 GGGACTGCCCGGTTGCGACCT
1 GGGACTG-CCGGTCGCGACCT
*
609553 GGGAGTGCCGGTCGCGACCT
1 GGGACTGCCGGTCGCGACCT
609573 GG
1 GG
609575 TGGTGCTGCC
Statistics
Matches: 20, Mismatches: 2, Indels: 1
0.87 0.09 0.04
Matches are distributed among these distances:
20 14 0.70
21 6 0.30
ACGTcount: A:0.09, C:0.30, G:0.44, T:0.16
Consensus pattern (20 bp):
GGGACTGCCGGTCGCGACCT
Found at i:610033 original size:13 final size:13
Alignment explanation
Indices: 610015--610052 Score: 67
Period size: 13 Copynumber: 2.9 Consensus size: 13
610005 ATAATCCCCC
610015 TGTATCGATACAG
1 TGTATCGATACAG
*
610028 TGTATCGATACAT
1 TGTATCGATACAG
610041 TGTATCGATACA
1 TGTATCGATACA
610053 AAGAAAAATG
Statistics
Matches: 24, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
13 24 1.00
ACGTcount: A:0.32, C:0.16, G:0.18, T:0.34
Consensus pattern (13 bp):
TGTATCGATACAG
Found at i:614004 original size:21 final size:21
Alignment explanation
Indices: 613975--614019 Score: 56
Period size: 22 Copynumber: 2.1 Consensus size: 21
613965 AGGTTTTTAT
*
613975 TTTTCTTAGCTAA-TTCATTA
1 TTTTCTTAGCCAAGTTCATTA
*
613995 TTTTCATTAGCCAAGTTCTTTA
1 TTTTC-TTAGCCAAGTTCATTA
614017 TTT
1 TTT
614020 CAACTTGCAA
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
20 5 0.24
21 7 0.33
22 9 0.43
ACGTcount: A:0.22, C:0.16, G:0.07, T:0.56
Consensus pattern (21 bp):
TTTTCTTAGCCAAGTTCATTA
Found at i:614019 original size:22 final size:20
Alignment explanation
Indices: 613970--614019 Score: 55
Period size: 21 Copynumber: 2.4 Consensus size: 20
613960 CATGCAGGTT
*
613970 TTTATTTTTCTTAGCTAATTC
1 TTTA-TTTTCTTAGCCAATTC
*
613991 ATTATTTTCATTAGCCAAGTTC
1 TTTATTTTC-TTAGCCAA-TTC
614013 TTTATTT
1 TTTATTT
614020 CAACTTGCAA
Statistics
Matches: 24, Mismatches: 3, Indels: 3
0.80 0.10 0.10
Matches are distributed among these distances:
20 5 0.21
21 10 0.42
22 9 0.38
ACGTcount: A:0.22, C:0.14, G:0.06, T:0.58
Consensus pattern (20 bp):
TTTATTTTCTTAGCCAATTC
Found at i:616257 original size:13 final size:13
Alignment explanation
Indices: 616239--616263 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
616229 ATTTTTTGGT
616239 GTATCGATACATC
1 GTATCGATACATC
616252 GTATCGATACAT
1 GTATCGATACAT
616264 ACTTGGTGTA
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:0.32, C:0.20, G:0.16, T:0.32
Consensus pattern (13 bp):
GTATCGATACATC
Found at i:617894 original size:13 final size:13
Alignment explanation
Indices: 617876--617928 Score: 61
Period size: 13 Copynumber: 4.1 Consensus size: 13
617866 ACAATGTTCT
*
617876 TTGTATCAATACA
1 TTGTATCGATACA
* *
617889 TTGTATTGATATA
1 TTGTATCGATACA
*
617902 ATGTATCGATACA
1 TTGTATCGATACA
*
617915 ATGTATCGATACA
1 TTGTATCGATACA
617928 T
1 T
617929 GGGTTACTAT
Statistics
Matches: 33, Mismatches: 7, Indels: 0
0.82 0.17 0.00
Matches are distributed among these distances:
13 33 1.00
ACGTcount: A:0.36, C:0.11, G:0.13, T:0.40
Consensus pattern (13 bp):
TTGTATCGATACA
Found at i:620439 original size:19 final size:20
Alignment explanation
Indices: 620415--620469 Score: 85
Period size: 19 Copynumber: 2.8 Consensus size: 20
620405 GTATTGATAT
**
620415 ATTGTATCGATACATGTTC-
1 ATTGTATCGATACATGCACA
620434 ATTGTATCGATACATGCACA
1 ATTGTATCGATACATGCACA
620454 ATTGTATCGATACATG
1 ATTGTATCGATACATG
620470 AAATTGGCAA
Statistics
Matches: 33, Mismatches: 2, Indels: 1
0.92 0.06 0.03
Matches are distributed among these distances:
19 17 0.52
20 16 0.48
ACGTcount: A:0.31, C:0.16, G:0.16, T:0.36
Consensus pattern (20 bp):
ATTGTATCGATACATGCACA
Found at i:620535 original size:13 final size:13
Alignment explanation
Indices: 620517--620544 Score: 56
Period size: 13 Copynumber: 2.2 Consensus size: 13
620507 TACATGGCAT
620517 ATTGTATCGATAC
1 ATTGTATCGATAC
620530 ATTGTATCGATAC
1 ATTGTATCGATAC
620543 AT
1 AT
620545 AACAAATTGT
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:0.32, C:0.14, G:0.14, T:0.39
Consensus pattern (13 bp):
ATTGTATCGATAC
Found at i:620535 original size:33 final size:33
Alignment explanation
Indices: 620498--620567 Score: 104
Period size: 33 Copynumber: 2.1 Consensus size: 33
620488 CTACCACTAT
** * *
620498 TTGTATCGATACATGGCATATTGTATCGATACA
1 TTGTATCGATACATAACAAATTGTATCAATACA
620531 TTGTATCGATACATAACAAATTGTATCAATACA
1 TTGTATCGATACATAACAAATTGTATCAATACA
620564 TTGT
1 TTGT
620568 CCCAAATGGC
Statistics
Matches: 33, Mismatches: 4, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
33 33 1.00
ACGTcount: A:0.34, C:0.14, G:0.14, T:0.37
Consensus pattern (33 bp):
TTGTATCGATACATAACAAATTGTATCAATACA
Found at i:625703 original size:19 final size:21
Alignment explanation
Indices: 625660--625711 Score: 81
Period size: 19 Copynumber: 2.6 Consensus size: 21
625650 TTCAATAATT
625660 TGTATCGATACAAATAGTAAA
1 TGTATCGATACAAATAGTAAA
*
625681 TGTATCGATACATA-AGT-AA
1 TGTATCGATACAAATAGTAAA
625700 TGTATCGATACA
1 TGTATCGATACA
625712 GTGTATCGCT
Statistics
Matches: 30, Mismatches: 1, Indels: 2
0.91 0.03 0.06
Matches are distributed among these distances:
19 14 0.47
20 3 0.10
21 13 0.43
ACGTcount: A:0.42, C:0.12, G:0.15, T:0.31
Consensus pattern (21 bp):
TGTATCGATACAAATAGTAAA
Found at i:625782 original size:13 final size:13
Alignment explanation
Indices: 625764--625789 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
625754 ATTTGTAGAA
625764 TGTATCGATACAT
1 TGTATCGATACAT
625777 TGTATCGATACAT
1 TGTATCGATACAT
625790 CAATTTTTGT
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.31, C:0.15, G:0.15, T:0.38
Consensus pattern (13 bp):
TGTATCGATACAT
Found at i:627016 original size:100 final size:94
Alignment explanation
Indices: 626883--627071 Score: 263
Period size: 94 Copynumber: 1.9 Consensus size: 94
626873 TATCTAAACC
** * *
626883 TTCTCCTTCCACTTTTCAGTCCTCAAAGAGCAGGATGCCTTTTCCTTTTAAAGCCCACACAAGTT
1 TTCTCCTTCCACCCTTCAGTCCTCAAAGAGCAGGA---C---ACCTTTCAAAGCCCACACAAGTT
626948 GGTGGCACC-TTCTAGTCCTCAAAGAGCAGGGCGCT
60 GGTGGCACCTTTC-AGTCCTCAAAGAGCAGGGCGCT
*
626983 TTCTCCTTTCACCCTTCAGTCCTCAAAGAGCAGGACACCTTTCAAAGCCCACACAAGTTGGTGGC
1 TTCTCCTTCCACCCTTCAGTCCTCAAAGAGCAGGACACCTTTCAAAGCCCACACAAGTTGGTGGC
627048 ACCTTTCAGTCCTCAAAGAGCAGG
66 ACCTTTCAGTCCTCAAAGAGCAGG
627072 ACGCCTTTTA
Statistics
Matches: 83, Mismatches: 5, Indels: 8
0.86 0.05 0.08
Matches are distributed among these distances:
94 47 0.57
95 3 0.04
97 1 0.01
100 32 0.39
ACGTcount: A:0.24, C:0.31, G:0.19, T:0.26
Consensus pattern (94 bp):
TTCTCCTTCCACCCTTCAGTCCTCAAAGAGCAGGACACCTTTCAAAGCCCACACAAGTTGGTGGC
ACCTTTCAGTCCTCAAAGAGCAGGGCGCT
Found at i:627062 original size:55 final size:55
Alignment explanation
Indices: 626992--627466 Score: 537
Period size: 55 Copynumber: 8.4 Consensus size: 55
626982 TTTCTCCTTT
*
626992 CACCCTTCAGTCCTCAAAGAGCAGGACACCTTTCAAAGCCCACACAAGTTGGTGG
1 CACCTTTCAGTCCTCAAAGAGCAGGACACCTTTCAAAGCCCACACAAGTTGGTGG
* * * *
627047 CACCTTTCAGTCCTCAAAGAGCAGGACGCCTTTTAAAGCCCATACGAGTTGGTGG
1 CACCTTTCAGTCCTCAAAGAGCAGGACACCTTTCAAAGCCCACACAAGTTGGTGG
* * * *
627102 CACCCTCCAGTCCTCAAAGAGCAGGACGCTTTTCAAAGCCCACACAAGTTGGTGG
1 CACCTTTCAGTCCTCAAAGAGCAGGACACCTTTCAAAGCCCACACAAGTTGGTGG
* *
627157 CACCTTTCAGTCCTCAAAGAGCAGGACTCCTTTTAAAGCCCACACAAGTTGGTGG
1 CACCTTTCAGTCCTCAAAGAGCAGGACACCTTTCAAAGCCCACACAAGTTGGTGG
* * ** *
627212 CA-CTTCCAGTCCTCAAAGAGCAAGATGCCTTTCAAAGCCCACACGAGTTGGTGG
1 CACCTTTCAGTCCTCAAAGAGCAGGACACCTTTCAAAGCCCACACAAGTTGGTGG
* *
627266 CA-TTTTCTAATCCTCAAAGAGCAGGACACCTTTTCTTTTTAAAGCCCACACAAGTTGGTGG
1 CACCTTTC-AGTCCTCAAAGAGCAGGACACC-TTTC-----AAAGCCCACACAAGTTGGTGG
* *
627327 CA-TTTTCCAGTCCTCAAAGAGCAGGACACCTCTT-AAAGCCCACACAAGTTAGTGG
1 CACCTTT-CAGTCCTCAAAGAGCAGGACACCT-TTCAAAGCCCACACAAGTTGGTGG
* * * *
627382 CA-TTTTCCAATCCTCAAAGAGCAGGATGCCTTTCCTTTTCAAAGCCCACACGAGTTGGTGG
1 CACCTTT-CAGTCCTCAAAGAGCAGGA---C--ACC-TTTCAAAGCCCACACAAGTTGGTGG
* *
627443 CACTTTTTAGTCCTCAAAGAGCAG
1 CACCTTTCAGTCCTCAAAGAGCAG
627467 AATGCACTTT
Statistics
Matches: 366, Mismatches: 37, Indels: 28
0.85 0.09 0.06
Matches are distributed among these distances:
54 51 0.14
55 214 0.58
56 4 0.01
58 1 0.00
60 5 0.01
61 86 0.23
62 5 0.01
ACGTcount: A:0.28, C:0.29, G:0.20, T:0.24
Consensus pattern (55 bp):
CACCTTTCAGTCCTCAAAGAGCAGGACACCTTTCAAAGCCCACACAAGTTGGTGG
Found at i:627189 original size:110 final size:111
Alignment explanation
Indices: 626995--627466 Score: 580
Period size: 116 Copynumber: 4.2 Consensus size: 111
626985 CTCCTTTCAC
* *
626995 CCTT-CAGTCCTCAAAGAGCAGGACACCTTTCAAAGCCCACACAAGTTGGTGGCACCTTTCAGTC
1 CCTTCCAGTCCTCAAAGAGCAGGACGCCTTTCAAAGCCCACACAAGTTGGTGGCA-CTTTCAATC
* * *
627059 CTCAAAGAGCAGGA-C-GCCTTTTAAAGCCCATACGAGTTGGTGGCA
65 CTCAAAGAGCAGGACCTTCCTTTTAAAGCCCACACAAGTTGGTGGCA
* * *
627104 CCCTCCAGTCCTCAAAGAGCAGGACGCTTTTCAAAGCCCACACAAGTTGGTGGCACCTTTCAGTC
1 CCTTCCAGTCCTCAAAGAGCAGGACGCCTTTCAAAGCCCACACAAGTTGGTGGCA-CTTTCAATC
627169 CTCAAAGAGCAGGA-C-TCCTTTTAAAGCCCACACAAGTTGGTGGCA
65 CTCAAAGAGCAGGACCTTCCTTTTAAAGCCCACACAAGTTGGTGGCA
* * * *
627214 -CTTCCAGTCCTCAAAGAGCAAGATGCCTTTCAAAGCCCACACGAGTTGGTGGCATTTTCTAATC
1 CCTTCCAGTCCTCAAAGAGCAGGACGCCTTTCAAAGCCCACACAAGTTGGTGGCACTTTC-AATC
*
627278 CTCAAAGAGCAGGACACCTTTTCTTTTTAAAGCCCACACAAGTTGGTGGCA
65 CTCAAAGAGCAGG--ACC--TTCCTTTTAAAGCCCACACAAGTTGGTGGCA
** * * *
627329 TTTTCCAGTCCTCAAAGAGCAGGACACCTCTT-AAAGCCCACACAAGTTAGTGGCATTTTCCAAT
1 CCTTCCAGTCCTCAAAGAGCAGGACGCCT-TTCAAAGCCCACACAAGTTGGTGGCACTTT-CAAT
*
627393 CCTCAAAGAGCAGGATGCCTTTCCTTTTCAAAGCCCACACGAGTTGGTGGCA
64 CCTCAAAGAGCAGGA--CC-TTCCTTTT-AAAGCCCACACAAGTTGGTGGCA
* **
627445 CTTTTTAGTCCTCAAAGAGCAG
1 CCTTCCAGTCCTCAAAGAGCAG
627467 AATGCACTTT
Statistics
Matches: 324, Mismatches: 25, Indels: 21
0.88 0.07 0.06
Matches are distributed among these distances:
108 4 0.01
109 68 0.21
110 100 0.31
111 1 0.00
112 1 0.00
114 1 0.00
115 37 0.11
116 109 0.34
117 3 0.01
ACGTcount: A:0.28, C:0.29, G:0.20, T:0.24
Consensus pattern (111 bp):
CCTTCCAGTCCTCAAAGAGCAGGACGCCTTTCAAAGCCCACACAAGTTGGTGGCACTTTCAATCC
TCAAAGAGCAGGACCTTCCTTTTAAAGCCCACACAAGTTGGTGGCA
Found at i:627660 original size:40 final size:42
Alignment explanation
Indices: 627561--627660 Score: 116
Period size: 42 Copynumber: 2.4 Consensus size: 42
627551 GACGTACTCT
* *
627561 TTTTCACTTTGTCCTCAAGGAGCAGGACACTTTCCTTTTCTTC
1 TTTTC-CTTTGTCCTCAAGGAGCAAGACACTTTCCTATTCTTC
* * *
627604 TCTTCCTTGGTCCTCAAGGAGCAAGACA-TATTTC-ATTC-TC
1 TTTTCCTTTGTCCTCAAGGAGCAAGACACT-TTCCTATTCTTC
627644 TTTTCCTTTGTCCTCAA
1 TTTTCCTTTGTCCTCAA
627661 AAAGTGAGAC
Statistics
Matches: 49, Mismatches: 7, Indels: 5
0.80 0.11 0.08
Matches are distributed among these distances:
40 17 0.35
41 4 0.08
42 24 0.49
43 4 0.08
ACGTcount: A:0.18, C:0.28, G:0.13, T:0.41
Consensus pattern (42 bp):
TTTTCCTTTGTCCTCAAGGAGCAAGACACTTTCCTATTCTTC
Found at i:629296 original size:79 final size:78
Alignment explanation
Indices: 629161--630029 Score: 1265
Period size: 79 Copynumber: 11.0 Consensus size: 78
629151 ATATGTCCCG
* * * * *
629161 ATGAGAAATTTAATATTTTGGAGATAATAA-CGGGGTTGGAGCATCCCCTTGAAAATAACGGGGT
1 ATGAGAAA-TTAATA-TTTAGAAATAA-AATCGGGGTTGGAGTATCCCCTCGGAAATAACGGGGT
*
629225 TGGAGTATCCCCGGTT
63 TGGAGTATCCCCGATT
* * ** * *
629241 GTGAAAAATCGATGA-TTAGGAAATAAAATCGGGATTGGAGTATCCCCTCAGAAATAACGGGGTT
1 ATGAGAAATTAAT-ATTTA-GAAATAAAATCGGGGTTGGAGTATCCCCTCGGAAATAACGGGGTT
629305 GGAGTATCCCCGATT
64 GGAGTATCCCCGATT
* *
629320 ATGAAAAATTAATATTTTAGAAATAAAATCGGGGTTGGAGTATCCCTTCGGAAATAACGGGGTTG
1 ATGAGAAATTAATA-TTTAGAAATAAAATCGGGGTTGGAGTATCCCCTCGGAAATAACGGGGTTG
629385 GAGTATCCCCGATT
65 GAGTATCCCCGATT
* *
629399 ATGAGAAATTAATATTTTAGAAATAAAACCGGGGTTGGAGTATCCCCTCGAAAATAACGGGGTTG
1 ATGAGAAATTAATA-TTTAGAAATAAAATCGGGGTTGGAGTATCCCCTCGGAAATAACGGGGTTG
629464 GAGTATCCCCGATT
65 GAGTATCCCCGATT
* * ** * * *
629478 GTGAAAAATCGATGATTTAGAAATAAAATCGGGATTAGAGTATCCCCTCAGAAATAACGGGGTTG
1 ATGAGAAATTAAT-ATTTAGAAATAAAATCGGGGTTGGAGTATCCCCTCGGAAATAACGGGGTTG
629543 GAGTATCCCCGATT
65 GAGTATCCCCGATT
*
629557 ATGAGAAATTAATATTTTAGAAATAAAATCGGGGTTGGAGTATCCCCTTGGAAATAACGGGGTTG
1 ATGAGAAATTAATA-TTTAGAAATAAAATCGGGGTTGGAGTATCCCCTCGGAAATAACGGGGTTG
629622 GAGTATCCCCGATT
65 GAGTATCCCCGATT
* *
629636 ATGAGAAATTAATATTTTAGAAATAAAACCGGGGTTGGAGTATCCCCTCAGAAATAACGGGGTTG
1 ATGAGAAATTAATA-TTTAGAAATAAAATCGGGGTTGGAGTATCCCCTCGGAAATAACGGGGTTG
629701 GAGTATCCCCGATT
65 GAGTATCCCCGATT
* *
629715 ATGAGAAATTAATATTTTAGAAATAAAACCGGGGTTGGAGTATCCCCTCGAAAATAACGGGGTTG
1 ATGAGAAATTAATA-TTTAGAAATAAAATCGGGGTTGGAGTATCCCCTCGGAAATAACGGGGTTG
629780 GAGTATCCCCGATT
65 GAGTATCCCCGATT
* * ** *
629794 GTGAAAAATCGATGATTTAGAAATAAAATCGGGATTGGAGTATCCCCTCGGAAATAACGGGGTTG
1 ATGAGAAATTAAT-ATTTAGAAATAAAATCGGGGTTGGAGTATCCCCTCGGAAATAACGGGGTTG
629859 GAGTATCCCCGATT
65 GAGTATCCCCGATT
*
629873 ATGAGAAATTAATATTTTAGAAATAAAATCGGGGTTGGAGTATCCCCTCGAAAATAACGGGGTTG
1 ATGAGAAATTAATA-TTTAGAAATAAAATCGGGGTTGGAGTATCCCCTCGGAAATAACGGGGTTG
629938 GAGTATCCCCGATT
65 GAGTATCCCCGATT
* * *
629952 ATGAGAAATGAATATTTTAGAAATAAAACCGGGGTTGGAGTATCCCCTCGGAAATAACAGGGTTG
1 ATGAGAAATTAATA-TTTAGAAATAAAATCGGGGTTGGAGTATCCCCTCGGAAATAACGGGGTTG
630017 GAGTATCCCCGAT
65 GAGTATCCCCGAT
630030 GATTAACGGG
Statistics
Matches: 719, Mismatches: 61, Indels: 19
0.90 0.08 0.02
Matches are distributed among these distances:
78 7 0.01
79 700 0.97
80 12 0.02
ACGTcount: A:0.34, C:0.14, G:0.25, T:0.27
Consensus pattern (78 bp):
ATGAGAAATTAATATTTAGAAATAAAATCGGGGTTGGAGTATCCCCTCGGAAATAACGGGGTTGG
AGTATCCCCGATT
Found at i:630044 original size:27 final size:28
Alignment explanation
Indices: 629981--630056 Score: 100
Period size: 27 Copynumber: 2.8 Consensus size: 28
629971 GAAATAAAAC
***
629981 CGGGGTTGGAGTATCCCCTCGGAAATAA
1 CGGGGTTGGAGTATCCCCGATGAAATAA
* *
630009 CAGGGTTGGAGTATCCCCGATG-ATTAA
1 CGGGGTTGGAGTATCCCCGATGAAATAA
630036 CGGGGTTGGAGTATCCCCGAT
1 CGGGGTTGGAGTATCCCCGAT
630057 TGTGAAAAAT
Statistics
Matches: 42, Mismatches: 6, Indels: 1
0.86 0.12 0.02
Matches are distributed among these distances:
27 24 0.57
28 18 0.43
ACGTcount: A:0.22, C:0.21, G:0.33, T:0.24
Consensus pattern (28 bp):
CGGGGTTGGAGTATCCCCGATGAAATAA
Found at i:630096 original size:107 final size:107
Alignment explanation
Indices: 629904--630105 Score: 266
Period size: 107 Copynumber: 1.9 Consensus size: 107
629894 AATAAAATCG
*
629904 GGGTTGGAGTATCCCCTCGAAAATAACGGGGTTGGAGTATCCCCGATTATGAGAAATGAATATTT
1 GGGTTGGAGTATCCCCTCGAAAATAACGGGGTTGGAGTATCCCCGATTATGAAAAATGAATATTT
*
629969 TAGAAATAAAACCGGGGTTGGAGTATCCCCTCGGAAATAACA
66 TAGAAATAAAACCGGAGTTGGAGTATCCCCTCGGAAATAACA
* * * * *
630011 GGGTTGGAGTAT-CCC-CGATGATTAACGGGGTTGGAGTATCCCCGATTGTGAAAAATTG-GTGT
1 GGGTTGGAGTATCCCCTCGA-AAATAACGGGGTTGGAGTATCCCCGATTATGAAAAA-TGAAT-A
* **
630073 TTTTGGAAATAAAATTGGAGTTGGAGTATCCCC
63 TTTTAGAAATAAAACCGGAGTTGGAGTATCCCC
630106 GATTATAGAA
Statistics
Matches: 82, Mismatches: 10, Indels: 6
0.84 0.10 0.06
Matches are distributed among these distances:
105 3 0.04
106 36 0.44
107 43 0.52
ACGTcount: A:0.29, C:0.15, G:0.28, T:0.27
Consensus pattern (107 bp):
GGGTTGGAGTATCCCCTCGAAAATAACGGGGTTGGAGTATCCCCGATTATGAAAAATGAATATTT
TAGAAATAAAACCGGAGTTGGAGTATCCCCTCGGAAATAACA
Found at i:630098 original size:237 final size:231
Alignment explanation
Indices: 629161--630156 Score: 956
Period size: 237 Copynumber: 4.2 Consensus size: 231
629151 ATATGTCCCG
* * * *
629161 ATGAGAAATTTAATATTTTGGAGATAATAA-CGGGGTTGGAGCATCCCCTTGAAAATAACGGGGT
1 ATGAGAAA-TTAATATTTTAGAAATAA-AACCGGGGTTGGAGTATCCCCTCGAAAATAACGGGGT
* * * * *
629225 TGGAGTATCCCCGGTTGTGAAAAATCG-ATGA--TTAGGAAATAAAATCGGGATTGGAGTATCCC
64 TGGAGTATCCCCGATTATGAGAAAT-GAAT-ATTTTA-GAAATAAAACCGGGGTTGGAGTATCCC
* * * * * *
629287 CTCAGAAATAACGGGGTTGGAGTATCCCCGATTATGAA--AAATTAATATTTTAGA-AAT-AAAA
126 CTCGGAAATAACGGGGTTGGAGTATCCCCGATGAT-AACGAGATTAGTA--TAAGATAGTGAAAA
*
629348 TCGGGGTTGGAGTATCCCTTCGGAAATAACGGGGTTGGAGTATCCCCGATT
188 -----ATTGGAGTAT-CCTT-GGAAATAACGGGGTTGGAGTATCCCCGATT
629399 ATGAGAAATTAATATTTTAGAAATAAAACCGGGGTTGGAGTATCCCCTCGAAAATAACGGGGTTG
1 ATGAGAAATTAATATTTTAGAAATAAAACCGGGGTTGGAGTATCCCCTCGAAAATAACGGGGTTG
* * * * *
629464 GAGTATCCCCGATTGTGAAAAATCG-ATGA-TTTAGAAATAAAATCGGGATTAGAGTATCCCCTC
66 GAGTATCCCCGATTATGAGAAAT-GAAT-ATTTTAGAAATAAAACCGGGGTTGGAGTATCCCCTC
* * * * * * *
629527 AGAAATAACGGGGTTGGAGTATCCCCGATTATGA-GAAATTAATATTTTAGA-AAT-AAAATCGG
129 GGAAATAACGGGGTTGGAGTATCCCCGATGATAACGAGATTAGTA--TAAGATAGTGAAAA----
*
629589 GGTTGGAGTATCCCCTTGGAAATAACGGGGTTGGAGTATCCCCGATT
188 -ATTGGAGTAT--CCTTGGAAATAACGGGGTTGGAGTATCCCCGATT
629636 ATGAGAAATTAATATTTTAGAAATAAAACCGGGGTTGGAGTATCCCCTC-AGAAATAACGGGGTT
1 ATGAGAAATTAATATTTTAGAAATAAAACCGGGGTTGGAGTATCCCCTCGA-AAATAACGGGGTT
*
629700 GGAGTATCCCCGATTATGAGAAATTAATATTTTAGAAATAAAACCGGGGTTGGAGTATCCCCTCG
65 GGAGTATCCCCGATTATGAGAAATGAATATTTTAGAAATAAAACCGGGGTTGGAGTATCCCCTCG
* * * * *
629765 AAAATAACGGGGTTGGAGTATCCCCGATTGTGAAAAATCGATGATTTAGAAATAAAATCG-G---
130 GAAATAACGGGGTTGGAGTATCCCCGA---TG-ATAA-CGA-GA-TTAG-TATAAGATAGTGAAA
* *
629826 GATTGGAGTATCCCCTCGGAAATAACGGGGTTGGAGTATCCCCGATT
187 AATTGGAGTAT--CCTTGGAAATAACGGGGTTGGAGTATCCCCGATT
*
629873 ATGAGAAATTAATATTTTAGAAATAAAATCGGGGTTGGAGTATCCCCTCGAAAATAACGGGGTTG
1 ATGAGAAATTAATATTTTAGAAATAAAACCGGGGTTGGAGTATCCCCTCGAAAATAACGGGGTTG
629938 GAGTATCCCCGATTATGAGAAATGAATATTTTAGAAATAAAACCGGGGTTGGAGTATCCCCTCGG
66 GAGTATCCCCGATTATGAGAAATGAATATTTTAGAAATAAAACCGGGGTTGGAGTATCCCCTCGG
* * * ** *
630003 AAATAACAGGGTTGGAGTATCCCCGATGATTAACGGGGTTGGAGTATCCCCGATTGTGAAAAATT
131 AAATAACGGGGTTGGAGTATCCCCGATGA-TAACGAGATT--AGTAT--AAGATAGTGAAAAATT
* * * *
630068 GGTGT-T-TTTGGAAATAAAATTGGAGTTGGAGTATCCCCGATT
191 GGAGTATCCTTGGAAAT--AA-CGGGGTTGGAGTATCCCCGATT
** *
630110 AT-AGAAAATTGGTGTTTT-GAAAATAAAACCGGGGTTGGAGTATCCCC
1 ATGAG-AAATTAATATTTTAG-AAATAAAACCGGGGTTGGAGTATCCCC
630157 GATTGTGGAA
Statistics
Matches: 675, Mismatches: 50, Indels: 67
0.85 0.06 0.08
Matches are distributed among these distances:
231 2 0.00
232 3 0.00
233 5 0.01
234 14 0.02
235 1 0.00
236 10 0.01
237 603 0.89
238 24 0.04
240 1 0.00
241 2 0.00
243 2 0.00
244 4 0.01
245 3 0.00
246 1 0.00
ACGTcount: A:0.33, C:0.14, G:0.25, T:0.27
Consensus pattern (231 bp):
ATGAGAAATTAATATTTTAGAAATAAAACCGGGGTTGGAGTATCCCCTCGAAAATAACGGGGTTG
GAGTATCCCCGATTATGAGAAATGAATATTTTAGAAATAAAACCGGGGTTGGAGTATCCCCTCGG
AAATAACGGGGTTGGAGTATCCCCGATGATAACGAGATTAGTATAAGATAGTGAAAAATTGGAGT
ATCCTTGGAAATAACGGGGTTGGAGTATCCCCGATT
Found at i:630236 original size:102 final size:103
Alignment explanation
Indices: 630036--630273 Score: 327
Period size: 102 Copynumber: 2.3 Consensus size: 103
630026 CGATGATTAA
* * * ** *
630036 CGGGGTTGGAGTATCCCCGATTGTGAAAAATTGGTGTTTTTGGAAATAAAATTGGAGTTGGAGTA
1 CGGGGTTGGAGTATCCCCGATTGTGAAAAATTGGTGTTTTCGAAAAGAAAATCAGAGTTAGAGTA
* *
630101 TCCCCGATTATAGAAAATTGGTGTTTTGAAAATAAAAC
66 TCCCCAATTATAGAAAATTAGTGTTTTGAAAATAAAAC
*
630139 CGGGGTTGGAGTATCCCCGATTGTGGAAAATTGGTG-TTTCGAAAAGAAAATCAGAGTTAGAGTA
1 CGGGGTTGGAGTATCCCCGATTGTGAAAAATTGGTGTTTTCGAAAAGAAAATCAGAGTTAGAGTA
* *
630203 TCCCCAATTGTGGAAAATTAGTGTTTT-AGAAATAAAAC
66 TCCCCAATTATAGAAAATTAGTGTTTTGA-AAATAAAAC
* * *
630241 CGGGGTTGGAGTACCCCCAATTATGAAAAATTG
1 CGGGGTTGGAGTATCCCCGATTGTGAAAAATTG
630274 AGAAACTTAA
Statistics
Matches: 119, Mismatches: 15, Indels: 3
0.87 0.11 0.02
Matches are distributed among these distances:
101 1 0.01
102 83 0.70
103 35 0.29
ACGTcount: A:0.33, C:0.12, G:0.26, T:0.29
Consensus pattern (103 bp):
CGGGGTTGGAGTATCCCCGATTGTGAAAAATTGGTGTTTTCGAAAAGAAAATCAGAGTTAGAGTA
TCCCCAATTATAGAAAATTAGTGTTTTGAAAATAAAAC
Found at i:630271 original size:51 final size:51
Alignment explanation
Indices: 630036--630273 Score: 273
Period size: 51 Copynumber: 4.6 Consensus size: 51
630026 CGATGATTAA
* *
630036 CGGGGTTGGAGTATCCCCGATTGTGAAAAATTGGTGTTTTTGGAAATAAAAT
1 CGGGGTTGGAGTATCCCCGATTGTGAAAAATTGGTG-TTTTGAAAATAAAAC
* * *
630088 TGGAGTTGGAGTATCCCCGATTAT-AGAAAATTGGTGTTTTGAAAATAAAAC
1 CGGGGTTGGAGTATCCCCGATTGTGA-AAAATTGGTGTTTTGAAAATAAAAC
* * * *
630139 CGGGGTTGGAGTATCCCCGATTGTGGAAAATTGGTGTTTCGAAAAGAAAAT
1 CGGGGTTGGAGTATCCCCGATTGTGAAAAATTGGTGTTTTGAAAATAAAAC
* * * * * *
630190 CAGAGTTAGAGTATCCCCAATTGTGGAAAATTAGTGTTTT-AGAAATAAAAC
1 CGGGGTTGGAGTATCCCCGATTGTGAAAAATTGGTGTTTTGA-AAATAAAAC
* * *
630241 CGGGGTTGGAGTACCCCCAATTATGAAAAATTG
1 CGGGGTTGGAGTATCCCCGATTGTGAAAAATTG
630274 AGAAACTTAA
Statistics
Matches: 156, Mismatches: 27, Indels: 7
0.82 0.14 0.04
Matches are distributed among these distances:
50 1 0.01
51 124 0.79
52 31 0.20
ACGTcount: A:0.33, C:0.12, G:0.26, T:0.29
Consensus pattern (51 bp):
CGGGGTTGGAGTATCCCCGATTGTGAAAAATTGGTGTTTTGAAAATAAAAC
Found at i:632609 original size:20 final size:21
Alignment explanation
Indices: 632584--632627 Score: 81
Period size: 20 Copynumber: 2.1 Consensus size: 21
632574 AAACTTCCTA
632584 GATGTATCGATACAATG-ATC
1 GATGTATCGATACAATGTATC
632604 GATGTATCGATACAATGTATC
1 GATGTATCGATACAATGTATC
632625 GAT
1 GAT
632628 ACATTTCCTT
Statistics
Matches: 23, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
20 17 0.74
21 6 0.26
ACGTcount: A:0.34, C:0.14, G:0.20, T:0.32
Consensus pattern (21 bp):
GATGTATCGATACAATGTATC
Found at i:632623 original size:13 final size:13
Alignment explanation
Indices: 632605--632630 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
632595 ACAATGATCG
632605 ATGTATCGATACA
1 ATGTATCGATACA
632618 ATGTATCGATACA
1 ATGTATCGATACA
632631 TTTCCTTAAT
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.38, C:0.15, G:0.15, T:0.31
Consensus pattern (13 bp):
ATGTATCGATACA
Found at i:632641 original size:21 final size:21
Alignment explanation
Indices: 632617--632679 Score: 126
Period size: 21 Copynumber: 3.0 Consensus size: 21
632607 GTATCGATAC
632617 AATGTATCGATACATTTCCTT
1 AATGTATCGATACATTTCCTT
632638 AATGTATCGATACATTTCCTT
1 AATGTATCGATACATTTCCTT
632659 AATGTATCGATACATTTCCTT
1 AATGTATCGATACATTTCCTT
632680 GGCAGTAGCT
Statistics
Matches: 42, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
21 42 1.00
ACGTcount: A:0.29, C:0.19, G:0.10, T:0.43
Consensus pattern (21 bp):
AATGTATCGATACATTTCCTT
Found at i:632742 original size:32 final size:32
Alignment explanation
Indices: 632688--632768 Score: 119
Period size: 32 Copynumber: 2.6 Consensus size: 32
632678 TTGGCAGTAG
* *
632688 CTTA-GTAGCGATACATTGTATCGATACAAAA
1 CTTATGTATCGATACATTATATCGATACAAAA
* *
632719 CTTATGTATTGATACATTATATCGATACAACA
1 CTTATGTATCGATACATTATATCGATACAAAA
632751 CTTATGTATCGATACATT
1 CTTATGTATCGATACATT
632769 TACGGTTTGT
Statistics
Matches: 44, Mismatches: 5, Indels: 1
0.88 0.10 0.02
Matches are distributed among these distances:
31 4 0.09
32 40 0.91
ACGTcount: A:0.36, C:0.16, G:0.12, T:0.36
Consensus pattern (32 bp):
CTTATGTATCGATACATTATATCGATACAAAA
Found at i:632762 original size:19 final size:19
Alignment explanation
Indices: 632704--632766 Score: 66
Period size: 19 Copynumber: 3.6 Consensus size: 19
632694 AGCGATACAT
*
632704 TGTATCGATACAAAACTTA
1 TGTATCGATACAACACTTA
*
632723 TGTATTGAT---ACA-TTA
1 TGTATCGATACAACACTTA
632738 --TATCGATACAACACTTA
1 TGTATCGATACAACACTTA
632755 TGTATCGATACA
1 TGTATCGATACA
632767 TTTACGGTTT
Statistics
Matches: 35, Mismatches: 3, Indels: 12
0.70 0.06 0.24
Matches are distributed among these distances:
13 6 0.17
15 3 0.09
16 5 0.14
17 3 0.09
19 18 0.51
ACGTcount: A:0.38, C:0.16, G:0.11, T:0.35
Consensus pattern (19 bp):
TGTATCGATACAACACTTA
Found at i:633144 original size:19 final size:21
Alignment explanation
Indices: 633101--633152 Score: 81
Period size: 19 Copynumber: 2.6 Consensus size: 21
633091 TTCAATAATT
633101 TGTATCGATACAAACAGTAAA
1 TGTATCGATACAAACAGTAAA
*
633122 TGTATCGATACATA-AGT-AA
1 TGTATCGATACAAACAGTAAA
633141 TGTATCGATACA
1 TGTATCGATACA
633153 GTGTATCGCT
Statistics
Matches: 30, Mismatches: 1, Indels: 2
0.91 0.03 0.06
Matches are distributed among these distances:
19 14 0.47
20 3 0.10
21 13 0.43
ACGTcount: A:0.42, C:0.13, G:0.15, T:0.29
Consensus pattern (21 bp):
TGTATCGATACAAACAGTAAA
Found at i:635655 original size:51 final size:52
Alignment explanation
Indices: 635565--635679 Score: 144
Period size: 51 Copynumber: 2.2 Consensus size: 52
635555 ATTTTTCATC
* **
635565 TCGGGGATACTCCAATCCCGGTTTCATTTCCAAAACATCAA-TTTCTCTTAA
1 TCGGGGATACTCCAATCCCGATTTCATTTCCAAAACATCAATTTTCTCACAA
* * * *
635616 TCGGGGATACTCCAA-CTCCGATTTTATTTTCAAAGCATCAATTTTTTCACAA
1 TCGGGGATACTCCAATC-CCGATTTCATTTCCAAAACATCAATTTTCTCACAA
635668 TCGGGGATACTC
1 TCGGGGATACTC
635680 TAACCCCATA
Statistics
Matches: 55, Mismatches: 7, Indels: 3
0.85 0.11 0.05
Matches are distributed among these distances:
50 1 0.02
51 35 0.64
52 19 0.35
ACGTcount: A:0.27, C:0.25, G:0.14, T:0.34
Consensus pattern (52 bp):
TCGGGGATACTCCAATCCCGATTTCATTTCCAAAACATCAATTTTCTCACAA
Found at i:635711 original size:80 final size:79
Alignment explanation
Indices: 635618--635920 Score: 376
Period size: 79 Copynumber: 3.8 Consensus size: 79
635608 TCTCTTAATC
* * *
635618 GGGGATACTCCAACTCCGATTTTATTT-TCAAAGCATCAATTTTTTCACAATCGGGGATACTCTA
1 GGGGATACTCCAACCCCGATTTTATTTCT-AAAACATCAA-TTTTTCACAATCGGGGATACTCCA
* *
635682 ACCCCATAATTTCTGA
64 ACCCCGTTATTTCTGA
* * * * * *
635698 GGGGACACTCCAACCCCGGTTTTATTTCTAAAATATTAATTTCTCATAATCGGGGATACTCCAAC
1 GGGGATACTCCAACCCCGATTTTATTTCTAAAACATCAATTTTTCACAATCGGGGATACTCCAAC
* *
635763 CTCGTTATTTCCGA
66 CCCGTTATTTCTGA
* * *
635777 GGGGATACTCCAACCCCGGTTTTATTTCTAAAACATCAATTTTTCAAAATCGGGGATTCTCCAAC
1 GGGGATACTCCAACCCCGATTTTATTTCTAAAACATCAATTTTTCACAATCGGGGATACTCCAAC
635842 CCCGTTATTT-TCGA
66 CCCGTTATTTCT-GA
* * * * *
635856 GGGGATACTCCAACCCCAACTTTATTTCTAAAATACCAATTTTTCACAATCGGGGTTACTCCAAC
1 GGGGATACTCCAACCCCGATTTTATTTCTAAAACATCAATTTTTCACAATCGGGGATACTCCAAC
635921 TCCGATTTTA
Statistics
Matches: 192, Mismatches: 29, Indels: 5
0.85 0.13 0.02
Matches are distributed among these distances:
79 160 0.83
80 31 0.16
81 1 0.01
ACGTcount: A:0.28, C:0.25, G:0.14, T:0.32
Consensus pattern (79 bp):
GGGGATACTCCAACCCCGATTTTATTTCTAAAACATCAATTTTTCACAATCGGGGATACTCCAAC
CCCGTTATTTCTGA
Found at i:635907 original size:158 final size:159
Alignment explanation
Indices: 635618--635920 Score: 414
Period size: 158 Copynumber: 1.9 Consensus size: 159
635608 TCTCTTAATC
* * * *
635618 GGGGATACTCCAACTCCGATTTTATTTTCAAAGCATCAATTTTTTCACAATCGGGGATACTCTAA
1 GGGGATACTCCAACCCCGATTTTATTTTCAAAACATCAATTTTTTCAAAATCGGGGATACTCCAA
*** ** *
635683 CCCCATAATTTCTGAGGGGACACTCCAACCCCGGTTTTATTTCTAAAATATTAATTTCTCATAAT
66 CCCCATAATTTCTGAGGGGACACTCCAACCCCAACTTTATTTCTAAAATACCAATTTCTCACAAT
635748 CGGGGATACTCCAACCTCGTTATTTCCGA
131 CGGGGATACTCCAACCTCGTTATTTCCGA
* *
635777 GGGGATACTCCAACCCCGGTTTTA-TTTCTAAAACATCAA-TTTTTCAAAATCGGGGATTCTCCA
1 GGGGATACTCCAACCCCGATTTTATTTTC-AAAACATCAATTTTTTCAAAATCGGGGATACTCCA
* * * *
635840 ACCCCGTTATTT-TCGAGGGGATACTCCAACCCCAACTTTATTTCTAAAATACCAATTTTTCACA
65 ACCCCATAATTTCT-GAGGGGACACTCCAACCCCAACTTTATTTCTAAAATACCAATTTCTCACA
*
635904 ATCGGGGTTACTCCAAC
129 ATCGGGGATACTCCAAC
635921 TCCGATTTTA
Statistics
Matches: 125, Mismatches: 17, Indels: 5
0.85 0.12 0.03
Matches are distributed among these distances:
157 1 0.01
158 93 0.74
159 31 0.25
ACGTcount: A:0.28, C:0.25, G:0.14, T:0.32
Consensus pattern (159 bp):
GGGGATACTCCAACCCCGATTTTATTTTCAAAACATCAATTTTTTCAAAATCGGGGATACTCCAA
CCCCATAATTTCTGAGGGGACACTCCAACCCCAACTTTATTTCTAAAATACCAATTTCTCACAAT
CGGGGATACTCCAACCTCGTTATTTCCGA
Found at i:635919 original size:51 final size:51
Alignment explanation
Indices: 635856--636071 Score: 216
Period size: 51 Copynumber: 4.2 Consensus size: 51
635846 TTATTTTCGA
* *
635856 GGGGATACTCCAACCCCAACTTTATTTCTAAAATACCAATTTTTCACAATC
1 GGGGATACTCCAACCCCGACTTTATTTCTAAAACACCAATTTTTCACAATC
* * * * * * *
635907 GGGGTTACTCCAACTCCGATTTTAGTTCCAAAACACCAATTTCTCTCAATC
1 GGGGATACTCCAACCCCGACTTTATTTCTAAAACACCAATTTTTCACAATC
* * * **
635958 AGGGATACTCCAACCCCGACCTTATTTCTAAAGCATTAATTTTTTCACAATC
1 GGGGATACTCCAACCCCGACTTTATTTCTAAAACACCAA-TTTTTCACAATC
* * * * * * * *
636010 TGGGATACTCTAACCCCGATTTTATTTTTTAGAACACCGATTTTCCATAATC
1 GGGGATACTCCAACCCCGACTTTA-TTTCTAAAACACCAATTTTTCACAATC
636062 GGGGATACTC
1 GGGGATACTC
636072 TAGCCCCGTT
Statistics
Matches: 129, Mismatches: 34, Indels: 3
0.78 0.20 0.02
Matches are distributed among these distances:
51 71 0.55
52 49 0.38
53 9 0.07
ACGTcount: A:0.29, C:0.26, G:0.12, T:0.33
Consensus pattern (51 bp):
GGGGATACTCCAACCCCGACTTTATTTCTAAAACACCAATTTTTCACAATC
Found at i:639292 original size:20 final size:20
Alignment explanation
Indices: 639216--639292 Score: 82
Period size: 20 Copynumber: 3.8 Consensus size: 20
639206 ACCAAGGAAA
* *
639216 TGTATCGATACATTACTAAA
1 TGTATCGATACATTTCTAAT
**
639236 TGTATCGATACATGCTTAAAAT
1 TGTATCGATACAT--TTCTAAT
* *
639258 TGTATCGATATATTTCTCAT
1 TGTATCGATACATTTCTAAT
639278 TGTATCGATACATTT
1 TGTATCGATACATTT
639293 TGGATTTTTT
Statistics
Matches: 46, Mismatches: 9, Indels: 4
0.78 0.15 0.07
Matches are distributed among these distances:
20 31 0.67
22 15 0.33
ACGTcount: A:0.32, C:0.14, G:0.12, T:0.42
Consensus pattern (20 bp):
TGTATCGATACATTTCTAAT
Found at i:646049 original size:79 final size:78
Alignment explanation
Indices: 645878--646133 Score: 284
Period size: 81 Copynumber: 3.2 Consensus size: 78
645868 CTTAGAGATA
* * * * **
645878 GTGGGGTTAGAGTATCTCGGAGATGAAAAGTTTAATATTTTGGAAGTAAAATGGGGTTGGAGTAT
1 GTGGGGTTGGAGTATCCCTGAGATGAAAAATTTAATATTTTGGAAGTAAAACAGGGTTGGAGTAT
* **
645943 CCC-GCCAAAATTG
66 CCCTTCGGAAA-TG
* *
645956 GTGGGGTTGGAGTATCCCTTAGATGAAAATTTTAATATTTTGGAAGTAGAAACAGGGTTGGAGTA
1 GTGGGGTTGGAGTATCCCTGAGATGAAAAATTTAATATTTTGGAAGTA-AAACAGGGTTGGAGTA
646021 TCCCTTCGGAAATG
65 TCCCTTCGGAAATG
* * *
646035 GTGGGGTTGGAGTATCCCATGAGATGAAGAAATTCAATGTTTTAGAAGTAAAA-AGAAGGTTGGA
1 GTGGGGTTGGAGTATCCC-TGAGATGAA-AAATTTAATATTTTGGAAGTAAAACAG--GGTTGGA
*
646099 GTATTCCCTT-GGAATTG
62 GTA-TCCCTTCGGAAATG
*
646116 ATGGGGTTGGAGTATCCC
1 GTGGGGTTGGAGTATCCC
646134 CTCTTAAATG
Statistics
Matches: 154, Mismatches: 17, Indels: 11
0.85 0.09 0.06
Matches are distributed among these distances:
78 43 0.28
79 40 0.26
80 15 0.10
81 50 0.32
82 6 0.04
ACGTcount: A:0.30, C:0.10, G:0.30, T:0.30
Consensus pattern (78 bp):
GTGGGGTTGGAGTATCCCTGAGATGAAAAATTTAATATTTTGGAAGTAAAACAGGGTTGGAGTAT
CCCTTCGGAAATG
Found at i:646135 original size:28 final size:28
Alignment explanation
Indices: 646092--646161 Score: 97
Period size: 28 Copynumber: 2.5 Consensus size: 28
646082 GTAAAAAGAA
* *
646092 GGTTGGAGTATTCCCT-TGGAATTGATGG
1 GGTTGGAGTATCCCCTCT-GAAATGATGG
*
646120 GGTTGGAGTATCCCCTCTTAAATGATGG
1 GGTTGGAGTATCCCCTCTGAAATGATGG
646148 GGTTGGAGTATCCC
1 GGTTGGAGTATCCC
646162 TAGAGATAAA
Statistics
Matches: 38, Mismatches: 3, Indels: 2
0.88 0.07 0.05
Matches are distributed among these distances:
28 37 0.97
29 1 0.03
ACGTcount: A:0.19, C:0.16, G:0.33, T:0.33
Consensus pattern (28 bp):
GGTTGGAGTATCCCCTCTGAAATGATGG
Found at i:646143 original size:109 final size:108
Alignment explanation
Indices: 646010--646349 Score: 495
Period size: 109 Copynumber: 3.1 Consensus size: 108
646000 AGTAGAAACA
*
646010 GGGTTGGAGTATCCCTTCGGAAATGGTGGGGTTGGAGTATCCCATGAGATGAAGAAATTCAATGT
1 GGGTTGGAGTATCCCTTC-GAAATGATGGGGTTGGAGTATCCCATGAGATGAAGAAATTCAATGT
* * *
646075 TTTAGAAGTAAAAAGAAGGTTGGAGTATTCCCTTGGAATTGATG
65 TTTAGAAGTAAAAACAAGGTTGGAGTATCCCCTCGGAATTGATG
* * *
646119 GGGTTGGAGTATCCCCTCTTAAATGATGGGGTTGGAGTATCCC-TAGAGATAAAGAAATTCAATG
1 GGGTTGGAGTATCCCTTC-GAAATGATGGGGTTGGAGTATCCCAT-GAGATGAAGAAATTCAATG
*
646183 TTTTAGAAGTAAAAACAAGGTTGGAGTATCCCCTCGAAATTGATG
64 TTTTAGAAGTAAAAACAAGGTTGGAGTATCCCCTCGGAATTGATG
* * * * * *
646228 GGTTTAGAGTATTCCTTCGAAATTGATGGGGTTGGAGTATCCTA-GAGATGAAAAAATTCAATCT
1 GGGTTGGAGTATCCCTTCGAAA-TGATGGGGTTGGAGTATCCCATGAGATGAAGAAATTCAATGT
*
646292 TTTAGAAGTAAAAACAAGGTTGGAGTATCCCCTCAGAATTGATG
65 TTTAGAAGTAAAAACAAGGTTGGAGTATCCCCTCGGAATTGATG
646336 GGGTTGGAGTATCC
1 GGGTTGGAGTATCC
646350 TTTAAGATGA
Statistics
Matches: 205, Mismatches: 23, Indels: 7
0.87 0.10 0.03
Matches are distributed among these distances:
108 74 0.36
109 131 0.64
ACGTcount: A:0.31, C:0.12, G:0.28, T:0.29
Consensus pattern (108 bp):
GGGTTGGAGTATCCCTTCGAAATGATGGGGTTGGAGTATCCCATGAGATGAAGAAATTCAATGTT
TTAGAAGTAAAAACAAGGTTGGAGTATCCCCTCGGAATTGATG
Found at i:646247 original size:28 final size:28
Alignment explanation
Indices: 646201--646269 Score: 93
Period size: 28 Copynumber: 2.5 Consensus size: 28
646191 GTAAAAACAA
*
646201 GGTTGGAGTATCCCCTCGAAATTGATGG
1 GGTTAGAGTATCCCCTCGAAATTGATGG
* * *
646229 GTTTAGAGTATTCCTTCGAAATTGATGG
1 GGTTAGAGTATCCCCTCGAAATTGATGG
*
646257 GGTTGGAGTATCC
1 GGTTAGAGTATCC
646270 TAGAGATGAA
Statistics
Matches: 34, Mismatches: 7, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
28 34 1.00
ACGTcount: A:0.22, C:0.14, G:0.30, T:0.33
Consensus pattern (28 bp):
GGTTAGAGTATCCCCTCGAAATTGATGG
Found at i:646379 original size:80 final size:81
Alignment explanation
Indices: 646248--646431 Score: 241
Period size: 80 Copynumber: 2.3 Consensus size: 81
646238 ATTCCTTCGA
* *
646248 AATTGATGGGGTTGGAGTATCC--TAGAGATGAAAAAATTCAATCTTTTAGAAGTAAAAACAAGG
1 AATTGATGGGGTTGGAGTATCCTTTAGAGATG-AAAAATTCAATCTTTCAGAAGCAAAAACAAGG
*
646311 TTGGAGTATCCCCTCAG
65 TGGGAGTATCCCCTCAG
* * * **
646328 AATTGATGGGGTTGGAGTATCCTTTA-AGATG-AAAATTCTAGTGTTTCAGAAGCAAAGACGGGG
1 AATTGATGGGGTTGGAGTATCCTTTAGAGATGAAAAATTC-AATCTTTCAGAAGCAAAAACAAGG
*
646391 TGGGAGTATCCCTTCAG
65 TGGGAGTATCCCCTCAG
646408 AATTGATGGGGTTGGAGTATCCTT
1 AATTGATGGGGTTGGAGTATCCTT
646432 GATGGTGAAA
Statistics
Matches: 92, Mismatches: 9, Indels: 6
0.86 0.08 0.06
Matches are distributed among these distances:
79 7 0.08
80 78 0.85
81 5 0.05
82 2 0.02
ACGTcount: A:0.31, C:0.12, G:0.28, T:0.29
Consensus pattern (81 bp):
AATTGATGGGGTTGGAGTATCCTTTAGAGATGAAAAATTCAATCTTTCAGAAGCAAAAACAAGGT
GGGAGTATCCCCTCAG
Found at i:646441 original size:80 final size:78
Alignment explanation
Indices: 646234--646442 Score: 240
Period size: 80 Copynumber: 2.6 Consensus size: 78
646224 GATGGGTTTA
* * *
646234 GAGTATTCCTTC-GAAATTGATGGGGTTGGAGTATCCTAGAGATGAAAAAATTCAATCTTTTAGA
1 GAGTATCCCTTCAG-AATTGATGGGGTTGGAGTATCCTTGAGATG--AAAATTCAATCTTTCAGA
* *
646298 AGTAAAAACAAGGTTG
63 AGCAAAAACAAGGTGG
* * * *
646314 GAGTATCCCCTCAGAATTGATGGGGTTGGAGTATCCTTTAAGATGAAAATTCTAGTGTTTCAGAA
1 GAGTATCCCTTCAGAATTGATGGGGTTGGAGTATCC-TTGAGATGAAAATTC-AATCTTTCAGAA
* **
646379 GCAAAGACGGGGTGG
64 GCAAAAACAAGGTGG
*
646394 GAGTATCCCTTCAGAATTGATGGGGTTGGAGTATCCTTGATGGTGAAAA
1 GAGTATCCCTTCAGAATTGATGGGGTTGGAGTATCCTTGA-GATGAAAA
646443 ATTTGATGCT
Statistics
Matches: 110, Mismatches: 15, Indels: 8
0.83 0.11 0.06
Matches are distributed among these distances:
79 10 0.09
80 93 0.85
81 7 0.06
ACGTcount: A:0.31, C:0.12, G:0.28, T:0.29
Consensus pattern (78 bp):
GAGTATCCCTTCAGAATTGATGGGGTTGGAGTATCCTTGAGATGAAAATTCAATCTTTCAGAAGC
AAAAACAAGGTGG
Found at i:648736 original size:20 final size:20
Alignment explanation
Indices: 648706--648765 Score: 66
Period size: 20 Copynumber: 3.0 Consensus size: 20
648696 ACTCAGTATC
* *
648706 GATACATTGTATCAATACAT
1 GATAAATTGTATCGATACAT
* *
648726 GATGAATTGTATTGATACAT
1 GATAAATTGTATCGATACAT
* *
648746 GGTAAAATGTATCGATACAT
1 GATAAATTGTATCGATACAT
648766 TGATCCCAAT
Statistics
Matches: 32, Mismatches: 8, Indels: 0
0.80 0.20 0.00
Matches are distributed among these distances:
20 32 1.00
ACGTcount: A:0.38, C:0.10, G:0.17, T:0.35
Consensus pattern (20 bp):
GATAAATTGTATCGATACAT
Found at i:655740 original size:28 final size:29
Alignment explanation
Indices: 655666--656202 Score: 629
Period size: 28 Copynumber: 18.7 Consensus size: 29
655656 CGCTAACTTG
* **
655666 TGTGGGCTTTGAAAAGAGTTGCCACCAACTT
1 TGTGGGCTTTG-AAAGAGATGCCACTGAC-T
*
655697 GTGTGGGCTTTGAAAGAG-TGCCACCGACT
1 -TGTGGGCTTTGAAAGAGATGCCACTGACT
* *
655726 TGTGGGCTTTAAAAGGGTATGCCACTGACT
1 TGTGGGCTTTGAAAGAG-ATGCCACTGACT
* *
655756 TGTGGGCTTTGAAAG-GGTACCACTGACT
1 TGTGGGCTTTGAAAGAGATGCCACTGACT
* * *
655784 TGTGGGGTTTGAAGGGGTATGCCACTGACT
1 TGTGGGCTTTGAAAGAG-ATGCCACTGACT
*
655814 TGTGGGCTTTGAAAG-GGTGCCACTGACT
1 TGTGGGCTTTGAAAGAGATGCCACTGACT
* *
655842 TGTGGGCTTTGAAA-AGATACCACTGGCT
1 TGTGGGCTTTGAAAGAGATGCCACTGACT
* *
655870 TGTGGTCTTTTG-AAGAGATGCCACTAACT
1 TGTGGGC-TTTGAAAGAGATGCCACTGACT
* *
655899 TGTGGGTTTTGAAAG-GATGCCACCGACT
1 TGTGGGCTTTGAAAGAGATGCCACTGACT
*
655927 TGTGGGCTTTGAAAGGGTATGCCACTGAAC-
1 TGTGGGCTTTGAAAGAG-ATGCCACTG-ACT
* * *
655957 TGTGGGCTTTGAAAG-GGTGCCACTAATT
1 TGTGGGCTTTGAAAGAGATGCCACTGACT
655985 TGTGGGCTTTGAAAGAGATGCCACTGACT
1 TGTGGGCTTTGAAAGAGATGCCACTGACT
656014 TGTGGGCTTTGAAAG-GATGCCACTGACT
1 TGTGGGCTTTGAAAGAGATGCCACTGACT
656042 TGTGGGCTTTGAAAG-GATGCCACTGACT
1 TGTGGGCTTTGAAAGAGATGCCACTGACT
*
656070 TGTGGGCTTTGAAAG-GATGCCATTGACT
1 TGTGGGCTTTGAAAGAGATGCCACTGACT
*
656098 TGTGGGCTTTGAAA-AGGTGCCACTGACT
1 TGTGGGCTTTGAAAGAGATGCCACTGACT
656126 TGTGGGCTTTGAAA-AGATGCCACTGACT
1 TGTGGGCTTTGAAAGAGATGCCACTGACT
*
656154 TGTGGGGCTTTGAAAG-GATGCCA-TGATTTT
1 TGT-GGGCTTTGAAAGAGATGCCACTGA--CT
*
656184 TGTGGGCGTTG-AAGAGATG
1 TGTGGGCTTTGAAAGAGATG
656203 AATGTTCTAG
Statistics
Matches: 447, Mismatches: 39, Indels: 41
0.85 0.07 0.08
Matches are distributed among these distances:
27 1 0.00
28 261 0.58
29 83 0.19
30 83 0.19
31 8 0.02
32 11 0.02
ACGTcount: A:0.22, C:0.16, G:0.32, T:0.29
Consensus pattern (29 bp):
TGTGGGCTTTGAAAGAGATGCCACTGACT
Found at i:655787 original size:58 final size:56
Alignment explanation
Indices: 655666--656176 Score: 639
Period size: 58 Copynumber: 8.9 Consensus size: 56
655656 CGCTAACTTG
* ** * *
655666 TGTGGGCTTTGAAAAGAGTTGCCACCAACTTGTGTGGGCTTTGAAAGAGTGCCACCGACT
1 TGTGGGCTTTG-AAAG-GATGCCACTGAC-T-TGTGGGCTTTGAAAGGGTGCCACTGACT
* *
655726 TGTGGGCTTTAAAAGGGTATGCCACTGACTTGTGGGCTTTGAAAGGGTACCACTGACT
1 TGTGGGCTTTGAAA-GG-ATGCCACTGACTTGTGGGCTTTGAAAGGGTGCCACTGACT
* *
655784 TGTGGGGTTTGAAGGGGTATGCCACTGACTTGTGGGCTTTGAAAGGGTGCCACTGACT
1 TGTGGGCTTTGAA-AGG-ATGCCACTGACTTGTGGGCTTTGAAAGGGTGCCACTGACT
* * * * * *
655842 TGTGGGCTTTGAAAAGATACCACTGGCTTGTGGTCTTTTG-AAGAGATGCCACTAACT
1 TGTGGGCTTTGAAAGGATGCCACTGACTTGTGGGC-TTTGAAAG-GGTGCCACTGACT
* *
655899 TGTGGGTTTTGAAAGGATGCCACCGACTTGTGGGCTTTGAAAGGGTATGCCACTGAAC-
1 TGTGGGCTTTGAAAGGATGCCACTGACTTGTGGGCTTTGAAAGGG--TGCCACTG-ACT
* * * *
655957 TGTGGGCTTTGAAAGGGTGCCACTAATTTGTGGGCTTTGAAAGAGATGCCACTGACT
1 TGTGGGCTTTGAAAGGATGCCACTGACTTGTGGGCTTTGAAAG-GGTGCCACTGACT
*
656014 TGTGGGCTTTGAAAGGATGCCACTGACTTGTGGGCTTTGAAAGGATGCCACTGACT
1 TGTGGGCTTTGAAAGGATGCCACTGACTTGTGGGCTTTGAAAGGGTGCCACTGACT
* *
656070 TGTGGGCTTTGAAAGGATGCCATTGACTTGTGGGCTTTGAAAAGGTGCCACTGACT
1 TGTGGGCTTTGAAAGGATGCCACTGACTTGTGGGCTTTGAAAGGGTGCCACTGACT
* *
656126 TGTGGGCTTTGAAAAGATGCCACTGACTTGTGGGGCTTTGAAAGGATGCCA
1 TGTGGGCTTTGAAAGGATGCCACTGACTTGT-GGGCTTTGAAAGGGTGCCA
656177 TGATTTTTGT
Statistics
Matches: 396, Mismatches: 43, Indels: 27
0.85 0.09 0.06
Matches are distributed among these distances:
56 121 0.31
57 113 0.29
58 135 0.34
59 8 0.02
60 19 0.05
ACGTcount: A:0.22, C:0.17, G:0.32, T:0.29
Consensus pattern (56 bp):
TGTGGGCTTTGAAAGGATGCCACTGACTTGTGGGCTTTGAAAGGGTGCCACTGACT
Found at i:655929 original size:143 final size:142
Alignment explanation
Indices: 655666--656176 Score: 667
Period size: 143 Copynumber: 3.6 Consensus size: 142
655656 CGCTAACTTG
* * *
655666 TGTGGGCTTTGAAAAGAGTTGCCACCAACTTGTGTGGGCTTTG-AAAGAGTGCCACCGACTTGTG
1 TGTGGGCTTTG-AAAG-GGTGCCACTAAC-T-TGTGGGCTTTGAAAAGA-TGCCACTGACTTGTG
** * * * *
655730 GGCTTTAAAAGGGTATGCCACTGACTTGTGGGCTTTGAAAGGGTACCACTGACTTGTGGGGTTTG
61 GGCTTTTGAAGAG-ATGCCACTGACTTGTGGGCTTTGAAAGGATGCCACTGACTTGTGGGCTTTG
655795 AAGGGGTATGCCACTGACT
125 AA-GGGTATGCCACTGACT
* * * *
655814 TGTGGGCTTTGAAAGGGTGCCACTGACTTGTGGGCTTTGAAAAGATACCACTGGCTTGTGGTCTT
1 TGTGGGCTTTGAAAGGGTGCCACTAACTTGTGGGCTTTGAAAAGATGCCACTGACTTGTGGGCTT
* * *
655879 TTGAAGAGATGCCACTAACTTGTGGGTTTTGAAAGGATGCCACCGACTTGTGGGCTTTGAAAGGG
66 TTGAAGAGATGCCACTGACTTGTGGGCTTTGAAAGGATGCCACTGACTTGTGGGCTTTG-AAGGG
655944 TATGCCACTGAAC-
130 TATGCCACTG-ACT
*
655957 TGTGGGCTTTGAAAGGGTGCCACTAATTTGTGGGCTTTGAAAGAGATGCCACTGACTTGTGGGC-
1 TGTGGGCTTTGAAAGGGTGCCACTAACTTGTGGGCTTTGAAA-AGATGCCACTGACTTGTGGGCT
*
656021 TTTGAA-AGGATGCCACTGACTTGTGGGCTTTGAAAGGATGCCACTGACTTGTGGGCTTTGAAAG
65 TTTGAAGA-GATGCCACTGACTTGTGGGCTTTGAAAGGATGCCACTGACTTGTGGGCTTTGAAGG
*
656085 G-ATGCCATTGACT
129 GTATGCCACTGACT
* *
656098 TGTGGGCTTTGAAAAGGTGCCACTGACTTGTGGGCTTTGAAAAGATGCCACTGACTTGTGGGGC-
1 TGTGGGCTTTGAAAGGGTGCCACTAACTTGTGGGCTTTGAAAAGATGCCACTGACTTGT-GGGCT
656162 TTTGAA-AGGATGCCA
65 TTTGAAGA-GATGCCA
656177 TGATTTTTGT
Statistics
Matches: 327, Mismatches: 29, Indels: 21
0.87 0.08 0.06
Matches are distributed among these distances:
140 19 0.06
141 66 0.20
142 5 0.02
143 153 0.47
144 54 0.17
145 6 0.02
146 9 0.03
147 4 0.01
148 11 0.03
ACGTcount: A:0.22, C:0.17, G:0.32, T:0.29
Consensus pattern (142 bp):
TGTGGGCTTTGAAAGGGTGCCACTAACTTGTGGGCTTTGAAAAGATGCCACTGACTTGTGGGCTT
TTGAAGAGATGCCACTGACTTGTGGGCTTTGAAAGGATGCCACTGACTTGTGGGCTTTGAAGGGT
ATGCCACTGACT
Found at i:657503 original size:8 final size:7
Alignment explanation
Indices: 657453--657519 Score: 53
Period size: 7 Copynumber: 8.9 Consensus size: 7
657443 TCTGGACCCC
657453 TTTTTTG
1 TTTTTTG
657460 TTTGTTTG
1 TTT-TTTG
*
657468 TTTTTTA
1 TTTTTTG
*
657475 TTTTTGGTT
1 TTTTT--TG
*
657484 TTTTTCTA
1 TTTTT-TG
657492 TTTTTTG
1 TTTTTTG
*
657499 GTTTTTG
1 TTTTTTG
657506 TTTTTTTG
1 -TTTTTTG
657514 TTTTTT
1 TTTTTT
657520 TTGTACGGAG
Statistics
Matches: 49, Mismatches: 7, Indels: 8
0.77 0.11 0.12
Matches are distributed among these distances:
7 24 0.49
8 19 0.39
9 6 0.12
ACGTcount: A:0.03, C:0.01, G:0.13, T:0.82
Consensus pattern (7 bp):
TTTTTTG
Found at i:657520 original size:8 final size:8
Alignment explanation
Indices: 657453--657520 Score: 61
Period size: 8 Copynumber: 8.8 Consensus size: 8
657443 TCTGGACCCC
657453 TTTTTTGT
1 TTTTTTGT
*
657461 TTGTTTG-
1 TTTTTTGT
*
657468 TTTTTT-A
1 TTTTTTGT
*
657475 TTTTTGGT
1 TTTTTTGT
*
657483 TTTTTTCT
1 TTTTTTGT
657491 ATTTTTTG-
1 -TTTTTTGT
*
657499 GTTTTTGT
1 TTTTTTGT
657507 TTTTTTGT
1 TTTTTTGT
657515 TTTTTT
1 TTTTTT
657521 TGTACGGAGG
Statistics
Matches: 47, Mismatches: 9, Indels: 8
0.73 0.14 0.12
Matches are distributed among these distances:
7 16 0.34
8 25 0.53
9 6 0.13
ACGTcount: A:0.03, C:0.01, G:0.13, T:0.82
Consensus pattern (8 bp):
TTTTTTGT
Found at i:671420 original size:20 final size:20
Alignment explanation
Indices: 671394--671448 Score: 76
Period size: 20 Copynumber: 2.8 Consensus size: 20
671384 AAAAAGACAG
671394 AATGTATCGATACATTCATAC
1 AATGTATCGATACATT-ATAC
* *
671415 -ATGTATCGATACATTTTTC
1 AATGTATCGATACATTATAC
671434 AATGTATCGATACAT
1 AATGTATCGATACAT
671449 CTAGGTAAAA
Statistics
Matches: 31, Mismatches: 2, Indels: 3
0.86 0.06 0.08
Matches are distributed among these distances:
19 2 0.06
20 29 0.94
ACGTcount: A:0.35, C:0.16, G:0.11, T:0.38
Consensus pattern (20 bp):
AATGTATCGATACATTATAC
Found at i:671460 original size:71 final size:71
Alignment explanation
Indices: 671344--671530 Score: 304
Period size: 71 Copynumber: 2.6 Consensus size: 71
671334 TTTTAACTAG
*
671344 ATGTATCGATACATTATTCAATGTATCGATACATCTGGGTAAAAAGACAGAATGTATCGATACAT
1 ATGTATCGATACATTATTCAATGTATCGATACATCTGGGTAAAAAGACAGAATATATCGATACAT
671409 TCATAC
66 TCATAC
* *
671415 ATGTATCGATACATTTTTCAATGTATCGATACATCTAGGTAAAAAGACAGAATATATCGATACAT
1 ATGTATCGATACATTATTCAATGTATCGATACATCTGGGTAAAAAGACAGAATATATCGATACAT
671480 TCATAC
66 TCATAC
* **
671486 ATGTATCTATACATTGA-AAAATGTATCGATACATCTGGGTAAAAA
1 ATGTATCGATACATT-ATTCAATGTATCGATACATCTGGGTAAAAA
671531 TGTGATTTTT
Statistics
Matches: 107, Mismatches: 8, Indels: 2
0.91 0.07 0.02
Matches are distributed among these distances:
71 107 1.00
ACGTcount: A:0.40, C:0.14, G:0.14, T:0.32
Consensus pattern (71 bp):
ATGTATCGATACATTATTCAATGTATCGATACATCTGGGTAAAAAGACAGAATATATCGATACAT
TCATAC
Found at i:671497 original size:20 final size:20
Alignment explanation
Indices: 671469--671519 Score: 66
Period size: 20 Copynumber: 2.5 Consensus size: 20
671459 AGACAGAATA
* *
671469 TATCGATACATTCATACATG
1 TATCGATACATTCAAAAATG
* *
671489 TATCTATACATTGAAAAATG
1 TATCGATACATTCAAAAATG
671509 TATCGATACAT
1 TATCGATACAT
671520 CTGGGTAAAA
Statistics
Matches: 26, Mismatches: 5, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
20 26 1.00
ACGTcount: A:0.39, C:0.16, G:0.10, T:0.35
Consensus pattern (20 bp):
TATCGATACATTCAAAAATG
Found at i:674897 original size:19 final size:19
Alignment explanation
Indices: 674873--674910 Score: 76
Period size: 19 Copynumber: 2.0 Consensus size: 19
674863 AACTTCATGA
674873 AATTAGCTTTCTGGAAAGG
1 AATTAGCTTTCTGGAAAGG
674892 AATTAGCTTTCTGGAAAGG
1 AATTAGCTTTCTGGAAAGG
674911 TATAGTTTGT
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:0.32, C:0.11, G:0.26, T:0.32
Consensus pattern (19 bp):
AATTAGCTTTCTGGAAAGG
Found at i:688544 original size:13 final size:13
Alignment explanation
Indices: 688526--688550 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
688516 CATAGATCAG
688526 TGTATCGATACAA
1 TGTATCGATACAA
688539 TGTATCGATACA
1 TGTATCGATACA
688551 TTTAAGTGAT
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:0.36, C:0.16, G:0.16, T:0.32
Consensus pattern (13 bp):
TGTATCGATACAA
Found at i:688628 original size:33 final size:33
Alignment explanation
Indices: 688591--688657 Score: 98
Period size: 33 Copynumber: 2.0 Consensus size: 33
688581 AGTAGCTTAA
688591 ATTGTATCGATACAAAAAAATATGTATCGATAC
1 ATTGTATCGATACAAAAAAATATGTATCGATAC
* ***
688624 ATTGTATCGATACAACACTTTATGTATCGATAC
1 ATTGTATCGATACAAAAAAATATGTATCGATAC
688657 A
1 A
688658 AATCGTTGAT
Statistics
Matches: 30, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
33 30 1.00
ACGTcount: A:0.40, C:0.15, G:0.12, T:0.33
Consensus pattern (33 bp):
ATTGTATCGATACAAAAAAATATGTATCGATAC
Found at i:688631 original size:13 final size:13
Alignment explanation
Indices: 688613--688637 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
688603 CAAAAAAATA
688613 TGTATCGATACAT
1 TGTATCGATACAT
688626 TGTATCGATACA
1 TGTATCGATACA
688638 ACACTTTATG
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:0.32, C:0.16, G:0.16, T:0.36
Consensus pattern (13 bp):
TGTATCGATACAT
Found at i:689355 original size:55 final size:51
Alignment explanation
Indices: 689255--690113 Score: 473
Period size: 43 Copynumber: 17.9 Consensus size: 51
689245 GAAAAGTGAT
* * * * * * *
689255 AAAGATGCCAATATGTTGATTCACGGCCAACGATATTAGGCTTAAAGATGAGAA
1 AAAGGTGCCAATACGCTGATTCAAGGCCAGCTACATT-GGCTTAAAGATG-G-A
* *
689309 AAAGGATGTCAATGCGCTGATTCAAGGCCAGCTACATTGAGCTTAAAGATGGA
1 AAAGG-TGCCAATACGCTGATTCAAGGCCAGCTACATTG-GCTTAAAGATGGA
* *
689362 AAAGGTGCCAATATGCTGATTCAAGGCCAGCTATATTGGAC-T-----T---
1 AAAGGTGCCAATACGCTGATTCAAGGCCAGCTACATTGG-CTTAAAGATGGA
* **
689405 AAAGGTGCCAGTGTGCTGATTCAAGGCCAGCTACATTGGACTTAAAGAT---
1 AAAGGTGCCAATACGCTGATTCAAGGCCAGCTACATTGG-CTTAAAGATGGA
* * * *
689454 TAAGGTGCCAATATGCTGATTCAAGGCCAGCTATATTGGACTTAAAGGTGGA
1 AAAGGTGCCAATACGCTGATTCAAGGCCAGCTACATTGG-CTTAAAGATGGA
* *
689506 AAAGGTGCCAATATGCTGATTCAAGGCCAGCTATATTGGAC-T-----T---
1 AAAGGTGCCAATACGCTGATTCAAGGCCAGCTACATTGG-CTTAAAGATGGA
** *
689549 AAAGGTGCCAATGTGCTTATTCAAGGCCAGCTACATTGGACTTAAAGATGGA
1 AAAGGTGCCAATACGCTGATTCAAGGCCAGCTACATTGG-CTTAAAGATGGA
* * * *
689601 AAAGGTGCCAATATGCTGATTCACGGCTAGCTATATTGGACTT----A--G-
1 AAAGGTGCCAATACGCTGATTCAAGGCCAGCTACATTGG-CTTAAAGATGGA
** *
689646 --AGGTGCCAATGTGCTGAGTCAAGGCCAGCTACATTGGGCTTAAAGAT-G-
1 AAAGGTGCCAATACGCTGATTCAAGGCCAGCTACATT-GGCTTAAAGATGGA
* *
689694 -AAGGTGCCAATATGCTGATTCAAGGCCAGCTATATTGGAC-T-----T---
1 AAAGGTGCCAATACGCTGATTCAAGGCCAGCTACATTGG-CTTAAAGATGGA
** * * * *
689736 AAAGGTGCCAATGTGCTGAGTCATGGCCAGCTACATTGGGCTTAAAGGTGAA
1 AAAGGTGCCAATACGCTGATTCAAGGCCAGCTACATT-GGCTTAAAGATGGA
* * *
689788 AAAGATGCCAATATGCTGATTCAAGGCCAGCTATATTGGAC-T-----T---
1 AAAGGTGCCAATACGCTGATTCAAGGCCAGCTACATTGG-CTTAAAGATGGA
* ** * *
689831 AAAGGTACCAATGTGCTGATTCAAGGCCAGCTACATTGGACTTAAAGGTGAA
1 AAAGGTGCCAATACGCTGATTCAAGGCCAGCTACATTGG-CTTAAAGATGGA
* *
689883 AAAGGTGCCAATATGCTGATTCAAGGCCAGCTATATTGGAC-T-----T---
1 AAAGGTGCCAATACGCTGATTCAAGGCCAGCTACATTGG-CTTAAAGATGGA
* **
689926 AAAGGTGCCACTGTGCTGATTCAAGGCCAGCTACATTGGACTTAAAGA---A
1 AAAGGTGCCAATACGCTGATTCAAGGCCAGCTACATTGG-CTTAAAGATGGA
* * *
689975 GAAGGTGCCAATATGCTGATTCAAGGCCAGCTATATTGGGC-T-----T---
1 AAAGGTGCCAATACGCTGATTCAAGGCCAGCTACATT-GGCTTAAAGATGGA
**
690018 AAAGGTGCCAATGTGCTGATTCAAGGCCAGCTACATTGGACTTAAAGA---A
1 AAAGGTGCCAATACGCTGATTCAAGGCCAGCTACATTGG-CTTAAAGATGGA
* * *
690067 GAAGGTGCCAATATGCTGATTCAAGGCCAGCTATATTGGGCTTAAAG
1 AAAGGTGCCAATACGCTGATTCAAGGCCAGCTACATT-GGCTTAAAG
690114 GTGAAGGTGA
Statistics
Matches: 670, Mismatches: 67, Indels: 141
0.76 0.08 0.16
Matches are distributed among these distances:
42 2 0.00
43 253 0.38
44 10 0.01
46 5 0.01
47 1 0.00
48 6 0.01
49 156 0.23
50 4 0.01
51 7 0.01
52 179 0.27
53 6 0.01
54 6 0.01
55 35 0.05
ACGTcount: A:0.31, C:0.18, G:0.25, T:0.25
Consensus pattern (51 bp):
AAAGGTGCCAATACGCTGATTCAAGGCCAGCTACATTGGCTTAAAGATGGA
Found at i:689409 original size:22 final size:22
Alignment explanation
Indices: 689384--689451 Score: 52
Period size: 22 Copynumber: 3.1 Consensus size: 22
689374 ATGCTGATTC
689384 AAGGCCAGCTATATTGGACTTA
1 AAGGCCAGCTATATTGGACTTA
* ** *
689406 AAGGTGCCAG-TGTGCT-GA-TTC
1 AA-G-GCCAGCTATATTGGACTTA
*
689427 AAGGCCAGCTACATTGGACTTA
1 AAGGCCAGCTATATTGGACTTA
689449 AAG
1 AAG
689452 ATTAAGGTGC
Statistics
Matches: 32, Mismatches: 9, Indels: 10
0.63 0.18 0.20
Matches are distributed among these distances:
19 5 0.16
20 3 0.09
21 6 0.19
22 9 0.28
23 4 0.12
24 5 0.16
ACGTcount: A:0.29, C:0.19, G:0.26, T:0.25
Consensus pattern (22 bp):
AAGGCCAGCTATATTGGACTTA
Found at i:689423 original size:43 final size:43
Alignment explanation
Indices: 689362--690985 Score: 1183
Period size: 43 Copynumber: 35.1 Consensus size: 43
689352 TAAAGATGGA
689362 AAAGGTGCCAATATGCTGATTCAAGGCCAGCTATATTGGACTT
1 AAAGGTGCCAATATGCTGATTCAAGGCCAGCTATATTGGACTT
* * *
689405 AAAGGTGCCAGTGTGCTGATTCAAGGCCAGCTACATTGGACTT
1 AAAGGTGCCAATATGCTGATTCAAGGCCAGCTATATTGGACTT
689448 AAAGATTAAGGTGCCAATATGCTGATTCAAGGCCAGCTATATTGGACTTAAAGGT
1 ----A--AAGGTGCCAATATGCTGATTCAAGGCCAGCTATATTGGAC-T-----T
689503 GGAAAAGGTGCCAATATGCTGATTCAAGGCCAGCTATATTGGACTT
1 ---AAAGGTGCCAATATGCTGATTCAAGGCCAGCTATATTGGACTT
* * *
689549 AAAGGTGCCAATGTGCTTATTCAAGGCCAGCTACATTGGACTTAAAGAT
1 AAAGGTGCCAATATGCTGATTCAAGGCCAGCTATATTGGAC-T-----T
* *
689598 GGAAAAGGTGCCAATATGCTGATTCACGGCTAGCTATATTGGACTT
1 ---AAAGGTGCCAATATGCTGATTCAAGGCCAGCTATATTGGACTT
* * * * *
689644 AGAGGTGCCAATGTGCTGAGTCAAGGCCAGCTACATTGGGCTT
1 AAAGGTGCCAATATGCTGATTCAAGGCCAGCTATATTGGACTT
689687 AAAGATGAAGGTGCCAATATGCTGATTCAAGGCCAGCTATATTGGACTT
1 ----A--AAGGTGCCAATATGCTGATTCAAGGCCAGCTATATTGGACTT
* * * * *
689736 AAAGGTGCCAATGTGCTGAGTCATGGCCAGCTACATTGGGCTT
1 AAAGGTGCCAATATGCTGATTCAAGGCCAGCTATATTGGACTT
689779 AAAGGTGAAAAAGATGCCAATATGCTGATTCAAGGCCAGCTATATTGGACTT
1 AAA---G-----G-TGCCAATATGCTGATTCAAGGCCAGCTATATTGGACTT
* * *
689831 AAAGGTACCAATGTGCTGATTCAAGGCCAGCTACATTGGACTTAAAGGT
1 AAAGGTGCCAATATGCTGATTCAAGGCCAGCTATATTGGAC-T-----T
689880 GAAAAAGGTGCCAATATGCTGATTCAAGGCCAGCTATATTGGACTT
1 ---AAAGGTGCCAATATGCTGATTCAAGGCCAGCTATATTGGACTT
* * *
689926 AAAGGTGCCACTGTGCTGATTCAAGGCCAGCTACATTGGACTT
1 AAAGGTGCCAATATGCTGATTCAAGGCCAGCTATATTGGACTT
*
689969 AAAGAAGAAGGTGCCAATATGCTGATTCAAGGCCAGCTATATTGGGCTT
1 -----A-AAGGTGCCAATATGCTGATTCAAGGCCAGCTATATTGGACTT
* *
690018 AAAGGTGCCAATGTGCTGATTCAAGGCCAGCTACATTGGACTT
1 AAAGGTGCCAATATGCTGATTCAAGGCCAGCTATATTGGACTT
*
690061 AAAGAAGAAGGTGCCAATATGCTGATTCAAGGCCAGCTATATTGGGCTT
1 -----A-AAGGTGCCAATATGCTGATTCAAGGCCAGCTATATTGGACTT
** * * * * *
690110 AAAGGTGAAGGTGAGAAAAG-TGA-TAAAGATGCCA-ATATGTT-GA-TT
1 AAAGGT----GCCA-ATATGCTGATTCAAG--GCCAGCTATATTGGACTT
* * * * * * * * **
690155 -CACG-GCCAACA--AT-ATT--GGGCTTA--AAGA-TGAGA-AA
1 AAAGGTGCCAATATGCTGATTCAAGGC-CAGCTATATTG-GACTT
* * * ** * *
690189 AAGGATGTCAATGCGCTGATTCAAGGCCAGCTACATTGAACTTAAAGAT
1 AAAGGTGCCAATATGCTGATTCAAGGCCAGCTATATTGGAC-T-----T
*
690238 GGAAAAGGTGCCAATATGCTGATTCAAGGCCAGCTACATTGGACTTAAAGAT
1 ---AAAGGTGCCAATATGCTGATTCAAGGCCAGCTATATTGGAC-T-----T
*
690290 GGAAAAGGTGCCAATATGCTGATTCACGGCCAGCTATATTGGACTT
1 ---AAAGGTGCCAATATGCTGATTCAAGGCCAGCTATATTGGACTT
* * *
690336 AGAGGTGCCAATGTGCTGATTCAAGGCCAGCTACATTGGACTT
1 AAAGGTGCCAATATGCTGATTCAAGGCCAGCTATATTGGACTT
* * * * *
690379 AAAGATGCCAATATGTTGATTCACGGCCAACGATATTGGACTT
1 AAAGGTGCCAATATGCTGATTCAAGGCCAGCTATATTGGACTT
* * * *
690422 AAAGATGCCAATGTACTGATTCAAGGCCAGCTACATTGGACTTAAAGAT
1 AAAGGTGCCAATATGCTGATTCAAGGCCAGCTATATTGGAC-T-----T
*
690471 GGAAAAGGTGCCAATATGCTGATTCACGGCCAGCTATATTGGACTT
1 ---AAAGGTGCCAATATGCTGATTCAAGGCCAGCTATATTGGACTT
* * * * *
690517 AGAGGTGCCAATGTGCTGAGTCAAGGCCAGCTACATTGGGCTT
1 AAAGGTGCCAATATGCTGATTCAAGGCCAGCTATATTGGACTT
690560 AAAGATGAAGGTGCCAATATGCTGATTCAAGGCCAGCTATATTGGACTT
1 ----A--AAGGTGCCAATATGCTGATTCAAGGCCAGCTATATTGGACTT
* * * * *
690609 AAAGGTGCCAATGTGCTGAGTCATGGCCAGCTACATTGGGCTTAAAGGT
1 AAAGGTGCCAATATGCTGATTCAAGGCCAGCTATATTGGAC-T-----T
690658 GAAAAAGGTGCCAATATGCTGATTCAAGGCCAGCTATATTGGACTT
1 ---AAAGGTGCCAATATGCTGATTCAAGGCCAGCTATATTGGACTT
* *
690704 AAAGGTGCCAATGTGCTGATTCAAGGCCAGCTACATTGGACTTAAAGGT
1 AAAGGTGCCAATATGCTGATTCAAGGCCAGCTATATTGGAC-T-----T
*
690753 GAAAAAGGTGCCAATATGCTGATTCAAGGCCAGCTATATTGGGCTT
1 ---AAAGGTGCCAATATGCTGATTCAAGGCCAGCTATATTGGACTT
* *
690799 AAAGGTGCCAATGTGCTGATTCAAGGCCAGCTACATTGGACTT
1 AAAGGTGCCAATATGCTGATTCAAGGCCAGCTATATTGGACTT
*
690842 AAAGAAGAAGGTGCCAATATGCTGATTCAAGGCCAGCTATATTGGGCTT
1 -----A-AAGGTGCCAATATGCTGATTCAAGGCCAGCTATATTGGACTT
* *
690891 AAAGGTGCCAATGTGCTGATTCAAGGCCAGCTACATTGGACTT
1 AAAGGTGCCAATATGCTGATTCAAGGCCAGCTATATTGGACTT
690934 AAAGAAGAAGGTGCCAATATGCTGATTCAAGGCCAGCTATATTGGACTT
1 -----A-AAGGTGCCAATATGCTGATTCAAGGCCAGCTATATTGGACTT
690983 AAA
1 AAA
690986 AGGGTTGCCA
Statistics
Matches: 1285, Mismatches: 162, Indels: 268
0.75 0.09 0.16
Matches are distributed among these distances:
32 1 0.00
33 3 0.00
34 3 0.00
35 1 0.00
36 5 0.00
37 2 0.00
38 3 0.00
39 5 0.00
40 1 0.00
41 3 0.00
42 3 0.00
43 573 0.45
44 12 0.01
45 4 0.00
46 13 0.01
47 13 0.01
48 11 0.01
49 273 0.21
50 1 0.00
51 8 0.01
52 345 0.27
54 1 0.00
55 1 0.00
ACGTcount: A:0.31, C:0.18, G:0.26, T:0.25
Consensus pattern (43 bp):
AAAGGTGCCAATATGCTGATTCAAGGCCAGCTATATTGGACTT
Found at i:689601 original size:95 final size:95
Alignment explanation
Indices: 689405--690985 Score: 1912
Period size: 95 Copynumber: 16.5 Consensus size: 95
689395 TATTGGACTT
* * * *
689405 AAAGGTGCCAGTGTGCTGATTCAAGGCCAGCTACATTGGACTTAAAGATTAAGGTGCCAATATGC
1 AAAGGTGCCAATATGCTGATTCAAGGCCAGCTATATTGGACTT----A--AAGGTGCCAATGTGC
* *
689470 TGATTCAAGGCCAGCTATATTGGACTTAAAGGTGGA
60 TGATTCAAGGCCAGCTACATTGGACTTAAAGATGGA
*
689506 AAAGGTGCCAATATGCTGATTCAAGGCCAGCTATATTGGACTTAAAGGTGCCAATGTGCTTATTC
1 AAAGGTGCCAATATGCTGATTCAAGGCCAGCTATATTGGACTTAAAGGTGCCAATGTGCTGATTC
689571 AAGGCCAGCTACATTGGACTTAAAGATGGA
66 AAGGCCAGCTACATTGGACTTAAAGATGGA
* * * *
689601 AAAGGTGCCAATATGCTGATTCACGGCTAGCTATATTGGACTTAGAGGTGCCAATGTGCTGAGTC
1 AAAGGTGCCAATATGCTGATTCAAGGCCAGCTATATTGGACTTAAAGGTGCCAATGTGCTGATTC
*
689666 AAGGCCAGCTACATTGGGCTTAAAGAT-G-
66 AAGGCCAGCTACATTGGACTTAAAGATGGA
*
689694 -AAGGTGCCAATATGCTGATTCAAGGCCAGCTATATTGGACTTAAAGGTGCCAATGTGCTGAGTC
1 AAAGGTGCCAATATGCTGATTCAAGGCCAGCTATATTGGACTTAAAGGTGCCAATGTGCTGATTC
* * * *
689758 ATGGCCAGCTACATTGGGCTTAAAGGTGAA
66 AAGGCCAGCTACATTGGACTTAAAGATGGA
* *
689788 AAAGATGCCAATATGCTGATTCAAGGCCAGCTATATTGGACTTAAAGGTACCAATGTGCTGATTC
1 AAAGGTGCCAATATGCTGATTCAAGGCCAGCTATATTGGACTTAAAGGTGCCAATGTGCTGATTC
* *
689853 AAGGCCAGCTACATTGGACTTAAAGGTGAA
66 AAGGCCAGCTACATTGGACTTAAAGATGGA
*
689883 AAAGGTGCCAATATGCTGATTCAAGGCCAGCTATATTGGACTTAAAGGTGCCACTGTGCTGATTC
1 AAAGGTGCCAATATGCTGATTCAAGGCCAGCTATATTGGACTTAAAGGTGCCAATGTGCTGATTC
689948 AAGGCCAGCTACATTGGACTTAAAGA---A
66 AAGGCCAGCTACATTGGACTTAAAGATGGA
* *
689975 GAAGGTGCCAATATGCTGATTCAAGGCCAGCTATATTGGGCTTAAAGGTGCCAATGTGCTGATTC
1 AAAGGTGCCAATATGCTGATTCAAGGCCAGCTATATTGGACTTAAAGGTGCCAATGTGCTGATTC
690040 AAGGCCAGCTACATTGGACTTAAAGA---A
66 AAGGCCAGCTACATTGGACTTAAAGATGGA
* * * *
690067 GAAGGTGCCAATATGCTGATTCAAGGCCAGCTATATTGGGCTTAAAGGTG--AAGGTG-AGAAAA
1 AAAGGTGCCAATATGCTGATTCAAGGCCAGCTATATTGGACTTAAAGGTGCCAATGTGCTG---A
* * * ** * *
690129 GTGATAAAGATGCCAATATGTTGATTCA-CGG-CCAACAATATTGGGCTT
63 -T--TCAAG--GCC---A-GCT-A--CATTGGACTTA-AAGA-T-GG--A
* ** * * * * *
690177 AAAGATGAGAAAAAGGATGTCAATGCGCTGATTCAAGGCCAGCTACATTGAACTTAAAGATGGAA
1 AAAGGTG-CCAATATGCTG---A--------TTCAAGGCCAGCTATATTGGAC-T-----T---A
*
690242 AAGGTGCCAATATGCTGATTCAAGGCCAGCTACATTGGACTTAAAGATGGA
45 AAGGTGCCAATGTGCTGATTCAAGGCCAGCTACATTGGACTTAAAGATGGA
* *
690293 AAAGGTGCCAATATGCTGATTCACGGCCAGCTATATTGGACTTAGAGGTGCCAATGTGCTGATTC
1 AAAGGTGCCAATATGCTGATTCAAGGCCAGCTATATTGGACTTAAAGGTGCCAATGTGCTGATTC
690358 AAGGCCAGCTACATTGGACTT-AA-A--G-
66 AAGGCCAGCTACATTGGACTTAAAGATGGA
* * * * * *
690383 --A--TGCCAATATGTTGATTCACGGCCAACGATATTGGACTTAAAGATGCCAATGTACTGATTC
1 AAAGGTGCCAATATGCTGATTCAAGGCCAGCTATATTGGACTTAAAGGTGCCAATGTGCTGATTC
690444 AAGGCCAGCTACATTGGACTTAAAGATGGA
66 AAGGCCAGCTACATTGGACTTAAAGATGGA
* * *
690474 AAAGGTGCCAATATGCTGATTCACGGCCAGCTATATTGGACTTAGAGGTGCCAATGTGCTGAGTC
1 AAAGGTGCCAATATGCTGATTCAAGGCCAGCTATATTGGACTTAAAGGTGCCAATGTGCTGATTC
*
690539 AAGGCCAGCTACATTGGGCTTAAAGAT-G-
66 AAGGCCAGCTACATTGGACTTAAAGATGGA
*
690567 -AAGGTGCCAATATGCTGATTCAAGGCCAGCTATATTGGACTTAAAGGTGCCAATGTGCTGAGTC
1 AAAGGTGCCAATATGCTGATTCAAGGCCAGCTATATTGGACTTAAAGGTGCCAATGTGCTGATTC
* * * *
690631 ATGGCCAGCTACATTGGGCTTAAAGGTGAA
66 AAGGCCAGCTACATTGGACTTAAAGATGGA
690661 AAAGGTGCCAATATGCTGATTCAAGGCCAGCTATATTGGACTTAAAGGTGCCAATGTGCTGATTC
1 AAAGGTGCCAATATGCTGATTCAAGGCCAGCTATATTGGACTTAAAGGTGCCAATGTGCTGATTC
* *
690726 AAGGCCAGCTACATTGGACTTAAAGGTGAA
66 AAGGCCAGCTACATTGGACTTAAAGATGGA
*
690756 AAAGGTGCCAATATGCTGATTCAAGGCCAGCTATATTGGGCTTAAAGGTGCCAATGTGCTGATTC
1 AAAGGTGCCAATATGCTGATTCAAGGCCAGCTATATTGGACTTAAAGGTGCCAATGTGCTGATTC
690821 AAGGCCAGCTACATTGGACTTAAAGA---A
66 AAGGCCAGCTACATTGGACTTAAAGATGGA
* *
690848 GAAGGTGCCAATATGCTGATTCAAGGCCAGCTATATTGGGCTTAAAGGTGCCAATGTGCTGATTC
1 AAAGGTGCCAATATGCTGATTCAAGGCCAGCTATATTGGACTTAAAGGTGCCAATGTGCTGATTC
690913 AAGGCCAGCTACATTGGACTTAAAGA---A
66 AAGGCCAGCTACATTGGACTTAAAGATGGA
*
690940 GAAGGTGCCAATATGCTGATTCAAGGCCAGCTATATTGGACTTAAA
1 AAAGGTGCCAATATGCTGATTCAAGGCCAGCTATATTGGACTTAAA
690986 AGGGTTGCCA
Statistics
Matches: 1319, Mismatches: 97, Indels: 137
0.85 0.06 0.09
Matches are distributed among these distances:
86 75 0.06
87 2 0.00
88 2 0.00
89 1 0.00
90 6 0.00
91 1 0.00
92 451 0.34
93 3 0.00
94 4 0.00
95 613 0.46
97 4 0.00
98 1 0.00
100 1 0.00
101 42 0.03
102 3 0.00
103 6 0.00
104 21 0.02
110 5 0.00
111 6 0.00
112 1 0.00
114 1 0.00
115 6 0.00
116 6 0.00
118 2 0.00
119 3 0.00
120 5 0.00
121 3 0.00
122 21 0.02
123 2 0.00
126 3 0.00
128 5 0.00
130 1 0.00
131 8 0.01
133 4 0.00
134 1 0.00
ACGTcount: A:0.31, C:0.18, G:0.26, T:0.25
Consensus pattern (95 bp):
AAAGGTGCCAATATGCTGATTCAAGGCCAGCTATATTGGACTTAAAGGTGCCAATGTGCTGATTC
AAGGCCAGCTACATTGGACTTAAAGATGGA
Found at i:689930 original size:22 final size:22
Alignment explanation
Indices: 689905--689972 Score: 52
Period size: 22 Copynumber: 3.1 Consensus size: 22
689895 ATGCTGATTC
689905 AAGGCCAGCTATATTGGACTTA
1 AAGGCCAGCTATATTGGACTTA
* ** *
689927 AAGGTGCCA-CTGTGCT-GA-TTC
1 AA-G-GCCAGCTATATTGGACTTA
*
689948 AAGGCCAGCTACATTGGACTTA
1 AAGGCCAGCTATATTGGACTTA
689970 AAG
1 AAG
689973 AAGAAGGTGC
Statistics
Matches: 32, Mismatches: 9, Indels: 10
0.63 0.18 0.20
Matches are distributed among these distances:
19 4 0.12
20 4 0.12
21 6 0.19
22 9 0.28
23 5 0.16
24 4 0.12
ACGTcount: A:0.29, C:0.21, G:0.25, T:0.25
Consensus pattern (22 bp):
AAGGCCAGCTATATTGGACTTA
Found at i:690699 original size:187 final size:187
Alignment explanation
Indices: 690241--690985 Score: 1184
Period size: 187 Copynumber: 4.0 Consensus size: 187
690231 TAAAGATGGA
* *
690241 AAAGGTGCCAATATGCTGATTCAAGGCCAGCTACATTGGACTTAAAGATGGAAAAGGTGCCAATA
1 AAAGGTGCCAATGTGCTGATTCAAGGCCAGCTACATTGGACTTAAAGATGAAAAAGGTGCCAATA
* *
690306 TGCTGATTCACGGCCAGCTATATTGGACTTAGAGGTGCCAATGTGCTGATTCAAGGCCAGCTACA
66 TGCTGATTCAAGGCCAGCTATATTGGACTTAAAGGTGCCAATGTGCTGATTCAAGGCCAGCTACA
* * * *
690371 TTGGACTT-AA-A-G-A--TGCCAATATGTTGATTCACGGCCAACGATATTGGACTT
131 TTGGACTTAAAGATGAAGGTGCCAATATGCTGATTCAAGGCCAGCTATATTGGACTT
* * *
690422 AAAGATGCCAATGTACTGATTCAAGGCCAGCTACATTGGACTTAAAGATGGAAAAGGTGCCAATA
1 AAAGGTGCCAATGTGCTGATTCAAGGCCAGCTACATTGGACTTAAAGATGAAAAAGGTGCCAATA
* * *
690487 TGCTGATTCACGGCCAGCTATATTGGACTTAGAGGTGCCAATGTGCTGAGTCAAGGCCAGCTACA
66 TGCTGATTCAAGGCCAGCTATATTGGACTTAAAGGTGCCAATGTGCTGATTCAAGGCCAGCTACA
*
690552 TTGGGCTTAAAGATGAAGGTGCCAATATGCTGATTCAAGGCCAGCTATATTGGACTT
131 TTGGACTTAAAGATGAAGGTGCCAATATGCTGATTCAAGGCCAGCTATATTGGACTT
* * * *
690609 AAAGGTGCCAATGTGCTGAGTCATGGCCAGCTACATTGGGCTTAAAGGTGAAAAAGGTGCCAATA
1 AAAGGTGCCAATGTGCTGATTCAAGGCCAGCTACATTGGACTTAAAGATGAAAAAGGTGCCAATA
690674 TGCTGATTCAAGGCCAGCTATATTGGACTTAAAGGTGCCAATGTGCTGATTCAAGGCCAGCTACA
66 TGCTGATTCAAGGCCAGCTATATTGGACTTAAAGGTGCCAATGTGCTGATTCAAGGCCAGCTACA
* *
690739 TTGGACTTAAAGGTGAAAAAGGTGCCAATATGCTGATTCAAGGCCAGCTATATTGGGCTT
131 TTGGACTTAAAGATG---AAGGTGCCAATATGCTGATTCAAGGCCAGCTATATTGGACTT
*
690799 AAAGGTGCCAATGTGCTGATTCAAGGCCAGCTACATTGGACTT-AA-A-GAAGAAGGTGCCAATA
1 AAAGGTGCCAATGTGCTGATTCAAGGCCAGCTACATTGGACTTAAAGATGAAAAAGGTGCCAATA
*
690861 TGCTGATTCAAGGCCAGCTATATTGGGCTTAAAGGTGCCAATGTGCTGATTCAAGGCCAGCTACA
66 TGCTGATTCAAGGCCAGCTATATTGGACTTAAAGGTGCCAATGTGCTGATTCAAGGCCAGCTACA
*
690926 TTGGACTTAAAGAAGAAGGTGCCAATATGCTGATTCAAGGCCAGCTATATTGGACTT
131 TTGGACTTAAAGATGAAGGTGCCAATATGCTGATTCAAGGCCAGCTATATTGGACTT
690983 AAA
1 AAA
690986 AGGGTTGCCA
Statistics
Matches: 524, Mismatches: 31, Indels: 15
0.92 0.05 0.03
Matches are distributed among these distances:
181 133 0.25
182 2 0.00
183 1 0.00
184 45 0.09
185 1 0.00
187 259 0.49
189 2 0.00
190 81 0.15
ACGTcount: A:0.31, C:0.19, G:0.26, T:0.25
Consensus pattern (187 bp):
AAAGGTGCCAATGTGCTGATTCAAGGCCAGCTACATTGGACTTAAAGATGAAAAAGGTGCCAATA
TGCTGATTCAAGGCCAGCTATATTGGACTTAAAGGTGCCAATGTGCTGATTCAAGGCCAGCTACA
TTGGACTTAAAGATGAAGGTGCCAATATGCTGATTCAAGGCCAGCTATATTGGACTT
Found at i:690896 original size:873 final size:869
Alignment explanation
Indices: 689205--690985 Score: 3104
Period size: 873 Copynumber: 2.0 Consensus size: 869
689195 CCACTGTGCA
* * * *
689205 GATTCAAGGCCTGCCACACTGGACTTAAAGATGAAGGTGAGAAAAGTGATAAAGATGCCAATATG
1 GATTCAAGGCCAGCTATATTGGACTTAAAGATGAAGGTGAGAAAAGTGATAAAGATGCCAATATG
*
689270 TTGATTCACGGCCAACGATATTAGGCTTAAAGATGAGAAAAAGGATGTCAATGCGCTGATTCAAG
66 TTGATTCACGGCCAACAATATTAGGCTTAAAGATGAGAAAAAGGATGTCAATGCGCTGATTCAAG
* *
689335 GCCAGCTACATTGAGCTTAAAGATGGAAAAGGTGCCAATATGCTGATTCAAGGCCAGCTATATTG
131 GCCAGCTACATTGAACTTAAAGATGGAAAAGGTGCCAATATGCTGATTCAAGGCCAGCTACATTG
* *
689400 GACTTAAAGGTGCCAGTGTGCTGATTCAAGGCCAGCTACATTGGACTTAAAGATTAAGGTGCCAA
196 GACTTAAAGGTGCCAATATGCTGATTCAAGGCCAGCTACATTGGACTT-AAG---AAGGTGCCAA
*
689465 TATGCTGATTCAAGGCCAGCTATATTGGACTTAAAGGTGGAAAAGGTGCCAATATGCTGATTCAA
257 TATGCTGATTCAAGGCCAGCTACATTGGACTTAAA---GG--AA-GTGCCAATATGCTGATTCAA
* * * * *
689530 GGCCAGCTATATTGGACTTAAAGGTGCCAATGTGCTTATTCAAGGCCAGCTACATTGGACTTAAA
316 GGCCAACGATATTGGACTTAAAGATGCCAATGTACTGATTCAAGGCCAGCTACATTGGACTTAAA
*
689595 GATGGAAAAGGTGCCAATATGCTGATTCACGGCTAGCTATATTGGACTTAGAGGTGCCAATGTGC
381 GATGGAAAAGGTGCCAATATGCTGATTCACGGCCAGCTATATTGGACTTAGAGGTGCCAATGTGC
689660 TGAGTCAAGGCCAGCTACATTGGGCTTAAAGATGAAGGTGCCAATATGCTGATTCAAGGCCAGCT
446 TGAGTCAAGGCCAGCTACATTGGGCTTAAAGATGAAGGTGCCAATATGCTGATTCAAGGCCAGCT
689725 ATATTGGACTTAAAGGTGCCAATGTGCTGAGTCATGGCCAGCTACATTGGGCTTAAAGGTGAAAA
511 ATATTGGACTTAAAGGTGCCAATGTGCTGAGTCATGGCCAGCTACATTGGGCTTAAAGGTGAAAA
689790 AGATGCCAATATGCTGATTCAAGGCCAGCTATATTGGACTTAAAGGTACCAATGTGCTGATTCAA
576 AGATGCCAATATGCTGATTCAAGGCCAGCTATATTGGACTTAAAGGTACCAATGTGCTGATTCAA
689855 GGCCAGCTACATTGGACTTAAAGGTGAAAAAGGTGCCAATATGCTGATTCAAGGCCAGCTATATT
641 GGCCAGCTACATTGGACTTAAAGGTGAAAAAGGTGCCAATATGCTGATTCAAGGCCAGCTATATT
*
689920 GGACTTAAAGGTGCCACTGTGCTGATTCAAGGCCAGCTACATTGGACTTAAAGAAGAAGGTGCCA
706 GGACTTAAAGGTGCCAATGTGCTGATTCAAGGCCAGCTACATTGGACTTAAAGAAGAAGGTGCCA
689985 ATATGCTGATTCAAGGCCAGCTATATTGGGCTTAAAGGTGCCAATGTGCTGATTCAAGGCCAGCT
771 ATATGCTGATTCAAGGCCAGCTATATTGGGCTTAAAGGTGCCAATGTGCTGATTCAAGGCCAGCT
690050 ACATTGGACTTAAAGAAGAAGGTGCCAATATGCT
836 ACATTGGACTTAAAGAAGAAGGTGCCAATATGCT
* *
690084 GATTCAAGGCCAGCTATATTGGGCTTAAAGGTGAAGGTGAGAAAAGTGATAAAGATGCCAATATG
1 GATTCAAGGCCAGCTATATTGGACTTAAAGATGAAGGTGAGAAAAGTGATAAAGATGCCAATATG
*
690149 TTGATTCACGGCCAACAATATTGGGCTTAAAGATGAGAAAAAGGATGTCAATGCGCTGATTCAAG
66 TTGATTCACGGCCAACAATATTAGGCTTAAAGATGAGAAAAAGGATGTCAATGCGCTGATTCAAG
690214 GCCAGCTACATTGAACTTAAAGATGGAAAAGGTGCCAATATGCTGATTCAAGGCCAGCTACATTG
131 GCCAGCTACATTGAACTTAAAGATGGAAAAGGTGCCAATATGCTGATTCAAGGCCAGCTACATTG
* *
690279 GACTTAAAGATGGAAAAGGTGCCAATATGCTGATTCACGGCCAGCTATATTGGACTT-AG-AGGT
196 GAC-T-----T---AAAGGTGCCAATATGCTGATTCAAGGCCAGCTACATTGGACTTAAGAAGGT
* * *
690342 GCCAATGTGCTGATTCAAGGCCAGCTACATTGGACTTAAA-G-A-TGCCAATATGTTGATTCACG
252 GCCAATATGCTGATTCAAGGCCAGCTACATTGGACTTAAAGGAAGTGCCAATATGCTGATTCAAG
690404 GCCAACGATATTGGACTTAAAGATGCCAATGTACTGATTCAAGGCCAGCTACATTGGACTTAAAG
317 GCCAACGATATTGGACTTAAAGATGCCAATGTACTGATTCAAGGCCAGCTACATTGGACTTAAAG
690469 ATGGAAAAGGTGCCAATATGCTGATTCACGGCCAGCTATATTGGACTTAGAGGTGCCAATGTGCT
382 ATGGAAAAGGTGCCAATATGCTGATTCACGGCCAGCTATATTGGACTTAGAGGTGCCAATGTGCT
690534 GAGTCAAGGCCAGCTACATTGGGCTTAAAGATGAAGGTGCCAATATGCTGATTCAAGGCCAGCTA
447 GAGTCAAGGCCAGCTACATTGGGCTTAAAGATGAAGGTGCCAATATGCTGATTCAAGGCCAGCTA
690599 TATTGGACTTAAAGGTGCCAATGTGCTGAGTCATGGCCAGCTACATTGGGCTTAAAGGTGAAAAA
512 TATTGGACTTAAAGGTGCCAATGTGCTGAGTCATGGCCAGCTACATTGGGCTTAAAGGTGAAAAA
* *
690664 GGTGCCAATATGCTGATTCAAGGCCAGCTATATTGGACTTAAAGGTGCCAATGTGCTGATTCAAG
577 GATGCCAATATGCTGATTCAAGGCCAGCTATATTGGACTTAAAGGTACCAATGTGCTGATTCAAG
690729 GCCAGCTACATTGGACTTAAAGGTGAAAAAGGTGCCAATATGCTGATTCAAGGCCAGCTATATTG
642 GCCAGCTACATTGGACTTAAAGGTGAAAAAGGTGCCAATATGCTGATTCAAGGCCAGCTATATTG
*
690794 GGCTTAAAGGTGCCAATGTGCTGATTCAAGGCCAGCTACATTGGACTTAAAGAAGAAGGTGCCAA
707 GACTTAAAGGTGCCAATGTGCTGATTCAAGGCCAGCTACATTGGACTTAAAGAAGAAGGTGCCAA
690859 TATGCTGATTCAAGGCCAGCTATATTGGGCTTAAAGGTGCCAATGTGCTGATTCAAGGCCAGCTA
772 TATGCTGATTCAAGGCCAGCTATATTGGGCTTAAAGGTGCCAATGTGCTGATTCAAGGCCAGCTA
690924 CATTGGACTTAAAGAAGAAGGTGCCAATATGCT
837 CATTGGACTTAAAGAAGAAGGTGCCAATATGCT
690957 GATTCAAGGCCAGCTATATTGGACTTAAA
1 GATTCAAGGCCAGCTATATTGGACTTAAA
690986 AGGGTTGCCA
Statistics
Matches: 864, Mismatches: 29, Indels: 24
0.94 0.03 0.03
Matches are distributed among these distances:
873 589 0.68
875 1 0.00
878 1 0.00
879 188 0.22
880 1 0.00
882 42 0.05
885 1 0.00
886 2 0.00
888 39 0.05
ACGTcount: A:0.32, C:0.18, G:0.26, T:0.25
Consensus pattern (869 bp):
GATTCAAGGCCAGCTATATTGGACTTAAAGATGAAGGTGAGAAAAGTGATAAAGATGCCAATATG
TTGATTCACGGCCAACAATATTAGGCTTAAAGATGAGAAAAAGGATGTCAATGCGCTGATTCAAG
GCCAGCTACATTGAACTTAAAGATGGAAAAGGTGCCAATATGCTGATTCAAGGCCAGCTACATTG
GACTTAAAGGTGCCAATATGCTGATTCAAGGCCAGCTACATTGGACTTAAGAAGGTGCCAATATG
CTGATTCAAGGCCAGCTACATTGGACTTAAAGGAAGTGCCAATATGCTGATTCAAGGCCAACGAT
ATTGGACTTAAAGATGCCAATGTACTGATTCAAGGCCAGCTACATTGGACTTAAAGATGGAAAAG
GTGCCAATATGCTGATTCACGGCCAGCTATATTGGACTTAGAGGTGCCAATGTGCTGAGTCAAGG
CCAGCTACATTGGGCTTAAAGATGAAGGTGCCAATATGCTGATTCAAGGCCAGCTATATTGGACT
TAAAGGTGCCAATGTGCTGAGTCATGGCCAGCTACATTGGGCTTAAAGGTGAAAAAGATGCCAAT
ATGCTGATTCAAGGCCAGCTATATTGGACTTAAAGGTACCAATGTGCTGATTCAAGGCCAGCTAC
ATTGGACTTAAAGGTGAAAAAGGTGCCAATATGCTGATTCAAGGCCAGCTATATTGGACTTAAAG
GTGCCAATGTGCTGATTCAAGGCCAGCTACATTGGACTTAAAGAAGAAGGTGCCAATATGCTGAT
TCAAGGCCAGCTATATTGGGCTTAAAGGTGCCAATGTGCTGATTCAAGGCCAGCTACATTGGACT
TAAAGAAGAAGGTGCCAATATGCT
Found at i:691050 original size:37 final size:37
Alignment explanation
Indices: 691004--691200 Score: 385
Period size: 37 Copynumber: 5.3 Consensus size: 37
690994 CACCGACTGG
691004 TGTGGGCTTTGAAGAAAAGAAAAAGGTGCCACGGAGT
1 TGTGGGCTTTGAAGAAAAGAAAAAGGTGCCACGGAGT
*
691041 TGTTGGCTTTGAAGAAAAGAAAAAGGTGCCACGGAGT
1 TGTGGGCTTTGAAGAAAAGAAAAAGGTGCCACGGAGT
691078 TGTGGGCTTTGAAGAAAAGAAAAAGGTGCCACGGAGT
1 TGTGGGCTTTGAAGAAAAGAAAAAGGTGCCACGGAGT
691115 TGTGGGCTTTGAAGAAAAGAAAAAGGTGCCACGGAGT
1 TGTGGGCTTTGAAGAAAAGAAAAAGGTGCCACGGAGT
691152 TGTGGGCTTTGAAGAAAAGAAAAAGGTGCCACGGAGT
1 TGTGGGCTTTGAAGAAAAGAAAAAGGTGCCACGGAGT
691189 TGTGGGCTTTGA
1 TGTGGGCTTTGA
691201 GACAAAATGC
Statistics
Matches: 158, Mismatches: 2, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
37 158 1.00
ACGTcount: A:0.34, C:0.11, G:0.35, T:0.21
Consensus pattern (37 bp):
TGTGGGCTTTGAAGAAAAGAAAAAGGTGCCACGGAGT
Found at i:691246 original size:31 final size:30
Alignment explanation
Indices: 691178--691387 Score: 255
Period size: 31 Copynumber: 6.9 Consensus size: 30
691168 AAGAAAAAGG
* *
691178 TGCCACGGAGTTGTGGGCTTTGAGACA-AAA
1 TGCCACTGAGTCGTGGGCTTTGAGA-AGAAA
*
691208 TGCCACTGAGTCGTGGGCTTTGAGAAGAGAT
1 TGCCACTGAGTCGTGGGCTTTGAGAAGA-AA
*
691239 TGCCACTGAGTCGTGGACTTTGAGACA-AAA
1 TGCCACTGAGTCGTGGGCTTTGAGA-AGAAA
* *
691269 TGCCACTGAATCGTGGGCTTTGAGAAGAGAT
1 TGCCACTGAGTCGTGGGCTTTGAGAAGA-AA
*
691300 TGCCACTGAGTCGTGGACTTTGAGACA-AAA
1 TGCCACTGAGTCGTGGGCTTTGAGA-AGAAA
* *
691330 TGCCACTGAATCGTGGGCTTTGAGAAGAGAT
1 TGCCACTGAGTCGTGGGCTTTGAGAAGA-AA
*
691361 TGCCACTGAGTCGTGGACTTTGAGAAG
1 TGCCACTGAGTCGTGGGCTTTGAGAAG
691388 GTATTTGTAG
Statistics
Matches: 156, Mismatches: 16, Indels: 15
0.83 0.09 0.08
Matches are distributed among these distances:
29 3 0.02
30 74 0.47
31 77 0.49
32 2 0.01
ACGTcount: A:0.26, C:0.18, G:0.31, T:0.25
Consensus pattern (30 bp):
TGCCACTGAGTCGTGGGCTTTGAGAAGAAA
Found at i:691273 original size:61 final size:61
Alignment explanation
Indices: 691178--691385 Score: 380
Period size: 61 Copynumber: 3.4 Consensus size: 61
691168 AAGAAAAAGG
* * * *
691178 TGCCACGGAGTTGTGGGCTTTGAGACAAAATGCCACTGAGTCGTGGGCTTTGAGAAGAGAT
1 TGCCACTGAGTCGTGGACTTTGAGACAAAATGCCACTGAATCGTGGGCTTTGAGAAGAGAT
691239 TGCCACTGAGTCGTGGACTTTGAGACAAAATGCCACTGAATCGTGGGCTTTGAGAAGAGAT
1 TGCCACTGAGTCGTGGACTTTGAGACAAAATGCCACTGAATCGTGGGCTTTGAGAAGAGAT
691300 TGCCACTGAGTCGTGGACTTTGAGACAAAATGCCACTGAATCGTGGGCTTTGAGAAGAGAT
1 TGCCACTGAGTCGTGGACTTTGAGACAAAATGCCACTGAATCGTGGGCTTTGAGAAGAGAT
691361 TGCCACTGAGTCGTGGACTTTGAGA
1 TGCCACTGAGTCGTGGACTTTGAGA
691386 AGGTATTTGT
Statistics
Matches: 143, Mismatches: 4, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
61 143 1.00
ACGTcount: A:0.26, C:0.18, G:0.31, T:0.25
Consensus pattern (61 bp):
TGCCACTGAGTCGTGGACTTTGAGACAAAATGCCACTGAATCGTGGGCTTTGAGAAGAGAT
Found at i:692343 original size:11 final size:12
Alignment explanation
Indices: 692329--692357 Score: 51
Period size: 11 Copynumber: 2.5 Consensus size: 12
692319 TTTCTTCCCT
692329 TTTTTTTTTTG-
1 TTTTTTTTTTGC
692340 TTTTTTTTTTGC
1 TTTTTTTTTTGC
692352 TTTTTT
1 TTTTTT
692358 GTGTTGGGAA
Statistics
Matches: 17, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
11 11 0.65
12 6 0.35
ACGTcount: A:0.00, C:0.03, G:0.07, T:0.90
Consensus pattern (12 bp):
TTTTTTTTTTGC
Found at i:698290 original size:12 final size:11
Alignment explanation
Indices: 698269--698338 Score: 70
Period size: 12 Copynumber: 5.9 Consensus size: 11
698259 CCTTTGCACC
698269 ACAAAAAAAACA
1 ACAAAAAAAA-A
698281 ACAAATAAAAGAA
1 ACAAA-AAAA-AA
698294 A-AAACAAAAAA
1 ACAAA-AAAAAA
698305 ACAAAAAAAAA
1 ACAAAAAAAAA
698316 ACAAGAAAAAATA
1 ACAA-AAAAAA-A
*
698329 GCAAAAAAAA
1 ACAAAAAAAA
698339 TAGAAAGGGG
Statistics
Matches: 51, Mismatches: 2, Indels: 10
0.81 0.03 0.16
Matches are distributed among these distances:
11 13 0.25
12 27 0.53
13 10 0.20
14 1 0.02
ACGTcount: A:0.83, C:0.10, G:0.04, T:0.03
Consensus pattern (11 bp):
ACAAAAAAAAA
Found at i:698297 original size:19 final size:19
Alignment explanation
Indices: 698271--698325 Score: 67
Period size: 19 Copynumber: 2.8 Consensus size: 19
698261 TTTGCACCAC
*
698271 AAAAAAAACAACAAATA-AA
1 AAAAAAAACAA-AAAAACAA
*
698290 AGAAAAAACAAAAAAACAA
1 AAAAAAAACAAAAAAACAA
698309 AAAAAAAACAAGAAAAA
1 AAAAAAAACAA-AAAAA
698326 ATAGCAAAAA
Statistics
Matches: 31, Mismatches: 3, Indels: 3
0.84 0.08 0.08
Matches are distributed among these distances:
18 4 0.13
19 22 0.71
20 5 0.16
ACGTcount: A:0.85, C:0.09, G:0.04, T:0.02
Consensus pattern (19 bp):
AAAAAAAACAAAAAAACAA
Found at i:699596 original size:28 final size:28
Alignment explanation
Indices: 699556--699854 Score: 409
Period size: 28 Copynumber: 10.5 Consensus size: 28
699546 TGTTCATCTC
*
699556 TTCAAAGCCCACAAGTTAGTGGCACCCT
1 TTCAAAGCCCACAAGTCAGTGGCACCCT
699584 TTCAAAGCCCACAAGTCAGTGGCACCCT
1 TTCAAAGCCCACAAGTCAGTGGCACCCT
*
699612 TCCAAAGCCCACAAGTCAGTGGCACCCT
1 TTCAAAGCCCACAAGTCAGTGGCACCCT
* *
699640 TCCAAAGCCCACAAGTCAGTGGCATCCT
1 TTCAAAGCCCACAAGTCAGTGGCACCCT
*
699668 TTCAAAGCCCACGAGTCAGTGGCACCCT
1 TTCAAAGCCCACAAGTCAGTGGCACCCT
*
699696 TTCAAAGCCCACGAGTCAGTGGCACCCT
1 TTCAAAGCCCACAAGTCAGTGGCACCCT
* *
699724 TTCAAAGCCCACGAGTCAGTGGCATCCT
1 TTCAAAGCCCACAAGTCAGTGGCACCCT
*
699752 TTCAAAGCCCACAAGTCAGTGGCATCCT
1 TTCAAAGCCCACAAGTCAGTGGCACCCT
* * *
699780 TTCAAAGCCCATAAGTCGGTGGCAACTCTT
1 TTCAAAGCCCACAAGTCAGTGGC-AC-CCT
* * *
699810 TTGAAAGCCCACACAAGTCGGTGGCAACTCTT
1 TTCAAAG-CC-CACAAGTCAGTGGC-AC-CCT
699842 TTCAAAGCCCACA
1 TTCAAAGCCCACA
699855 CAAGTTAATG
Statistics
Matches: 252, Mismatches: 15, Indels: 6
0.92 0.05 0.02
Matches are distributed among these distances:
28 209 0.83
29 1 0.00
30 12 0.05
31 4 0.02
32 26 0.10
ACGTcount: A:0.28, C:0.33, G:0.19, T:0.20
Consensus pattern (28 bp):
TTCAAAGCCCACAAGTCAGTGGCACCCT
Found at i:700000 original size:45 final size:46
Alignment explanation
Indices: 699936--700058 Score: 131
Period size: 49 Copynumber: 2.6 Consensus size: 46
699926 CTGTCTGACA
* * *
699936 TCGCTAGCATTGAATCAGCATATTGGCACCTTT-ATTAGCCCAATG
1 TCGCTGGCCTTGAATCAGCACATTGGCACCTTTCATTAGCCCAATG
* * *
699981 TCGCTGGCCTTGAATCAGCACATTGGTACACTTTTCCCTTAGCCCATTG
1 TCGCTGGCCTTGAATCAGCACATTGG--CACCTTT-CATTAGCCCAATG
* **
700030 TCGCTGACCTTGAATTGGCACATTGGCAC
1 TCGCTGGCCTTGAATCAGCACATTGGCAC
700059 TCCTCTCATC
Statistics
Matches: 65, Mismatches: 9, Indels: 6
0.81 0.11 0.08
Matches are distributed among these distances:
45 23 0.35
47 9 0.14
49 33 0.51
ACGTcount: A:0.22, C:0.28, G:0.20, T:0.31
Consensus pattern (46 bp):
TCGCTGGCCTTGAATCAGCACATTGGCACCTTTCATTAGCCCAATG
Found at i:700792 original size:20 final size:20
Alignment explanation
Indices: 700736--700792 Score: 80
Period size: 20 Copynumber: 2.9 Consensus size: 20
700726 ATGTATCGTT
* *
700736 ATGTATCGATACATGT-ATGA
1 ATGTATCGATACAT-TCTTCA
700756 ATGTATCGATACATTCTTCA
1 ATGTATCGATACATTCTTCA
700776 ATGTATCGATACATTCT
1 ATGTATCGATACATTCT
700793 GTCTTTTTAC
Statistics
Matches: 34, Mismatches: 2, Indels: 2
0.89 0.05 0.05
Matches are distributed among these distances:
19 1 0.03
20 33 0.97
ACGTcount: A:0.32, C:0.16, G:0.14, T:0.39
Consensus pattern (20 bp):
ATGTATCGATACATTCTTCA
Found at i:704135 original size:51 final size:50
Alignment explanation
Indices: 704059--704194 Score: 166
Period size: 51 Copynumber: 2.7 Consensus size: 50
704049 TTTTAACTAG
*
704059 ATGTATCGATACATTATTCAATGTATCGATACATCTAGGTAAAAAGACAAA
1 ATGTATCGATACATTA-TAAATGTATCGATACATCTAGGTAAAAAGACAAA
* * *
704110 ATGTATCGATACATTGA-AGAATGTATCGATACATCTGGGTAGAAAGACATA
1 ATGTATCGATACATT-ATA-AATGTATCGATACATCTAGGTAAAAAGACAAA
* * *
704161 ATATATCAATACATTCATACATGTATCGATACAT
1 ATGTATCGATACATT-ATAAATGTATCGATACAT
704195 TGAAAAATGT
Statistics
Matches: 74, Mismatches: 8, Indels: 6
0.84 0.09 0.07
Matches are distributed among these distances:
51 72 0.97
52 2 0.03
ACGTcount: A:0.41, C:0.14, G:0.15, T:0.30
Consensus pattern (50 bp):
ATGTATCGATACATTATAAATGTATCGATACATCTAGGTAAAAAGACAAA
Found at i:704190 original size:71 final size:72
Alignment explanation
Indices: 704110--704287 Score: 261
Period size: 71 Copynumber: 2.5 Consensus size: 72
704100 AAAAGACAAA
* * * *
704110 ATGTATCGATACATTGAAGAATGTATCGATACATCTGGG-TAGAAAGACATAATATATCAATACA
1 ATGTATCGATACATTGAAAAATGTATCGATACATCTGGGCAAAAAAGACAGAATATATCAATACA
704174 TTCATAC
66 TTCATAC
* * *
704181 ATGTATCGATACATTGAAAAATGTATCGATACATGTGGGCAAAAAAGACAGAATGTATCGATACA
1 ATGTATCGATACATTGAAAAATGTATCGATACATCTGGGCAAAAAAGACAGAATATATCAATACA
704246 TTCATAC
66 TTCATAC
* *
704253 ATGTATTGATACATT-AAAAATGTATCGATATATCT
1 ATGTATCGATACATTGAAAAATGTATCGATACATCT
704288 AAGTAAAAAT
Statistics
Matches: 96, Mismatches: 10, Indels: 2
0.89 0.09 0.02
Matches are distributed among these distances:
71 55 0.57
72 41 0.43
ACGTcount: A:0.41, C:0.13, G:0.16, T:0.30
Consensus pattern (72 bp):
ATGTATCGATACATTGAAAAATGTATCGATACATCTGGGCAAAAAAGACAGAATATATCAATACA
TTCATAC
Found at i:704192 original size:20 final size:20
Alignment explanation
Indices: 704164--704214 Score: 66
Period size: 20 Copynumber: 2.5 Consensus size: 20
704154 AGACATAATA
* * *
704164 TATCAATACATTCATACATG
1 TATCGATACATTCAAAAATG
*
704184 TATCGATACATTGAAAAATG
1 TATCGATACATTCAAAAATG
704204 TATCGATACAT
1 TATCGATACAT
704215 GTGGGCAAAA
Statistics
Matches: 27, Mismatches: 4, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
20 27 1.00
ACGTcount: A:0.41, C:0.16, G:0.10, T:0.33
Consensus pattern (20 bp):
TATCGATACATTCAAAAATG
Found at i:704258 original size:20 final size:19
Alignment explanation
Indices: 704232--704282 Score: 66
Period size: 20 Copynumber: 2.6 Consensus size: 19
704222 AAAAAGACAG
*
704232 AATGTATCGATACATTCATA
1 AATGTATCGATACATT-AAA
* *
704252 CATGTATTGATACATTAAA
1 AATGTATCGATACATTAAA
704271 AATGTATCGATA
1 AATGTATCGATA
704283 TATCTAAGTA
Statistics
Matches: 26, Mismatches: 5, Indels: 1
0.81 0.16 0.03
Matches are distributed among these distances:
19 12 0.46
20 14 0.54
ACGTcount: A:0.41, C:0.12, G:0.12, T:0.35
Consensus pattern (19 bp):
AATGTATCGATACATTAAA
Found at i:709579 original size:18 final size:19
Alignment explanation
Indices: 709539--709579 Score: 75
Period size: 19 Copynumber: 2.2 Consensus size: 19
709529 ACATAAATTC
709539 TTTGATGAATGAAATTATG
1 TTTGATGAATGAAATTATG
709558 TTTGATGAATGAAATT-TG
1 TTTGATGAATGAAATTATG
709576 TTTG
1 TTTG
709580 TCTTGCTATT
Statistics
Matches: 22, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
18 6 0.27
19 16 0.73
ACGTcount: A:0.32, C:0.00, G:0.22, T:0.46
Consensus pattern (19 bp):
TTTGATGAATGAAATTATG
Found at i:710508 original size:33 final size:34
Alignment explanation
Indices: 710446--710509 Score: 103
Period size: 33 Copynumber: 1.9 Consensus size: 34
710436 ACACCCAGAT
*
710446 GTATCGATACATATTGCTTAGTATTGATACATTG
1 GTATCGATACATATTGCTTAGTATCGATACATTG
*
710480 GTATCGATACATGTT-CTTAGTATCGATACA
1 GTATCGATACATATTGCTTAGTATCGATACA
710510 CAATTAATTG
Statistics
Matches: 28, Mismatches: 2, Indels: 1
0.90 0.06 0.03
Matches are distributed among these distances:
33 14 0.50
34 14 0.50
ACGTcount: A:0.30, C:0.14, G:0.17, T:0.39
Consensus pattern (34 bp):
GTATCGATACATATTGCTTAGTATCGATACATTG
Found at i:710601 original size:20 final size:20
Alignment explanation
Indices: 710564--710622 Score: 75
Period size: 20 Copynumber: 3.0 Consensus size: 20
710554 ACTCAGTATC
*
710564 GATACATTGTAT-GATACAT
1 GATAAATTGTATCGATACAT
*
710583 GATGAATTGTATCGATACAT
1 GATAAATTGTATCGATACAT
* *
710603 GGTAAAATGTATCGATACAT
1 GATAAATTGTATCGATACAT
710623 TGATCCTAAT
Statistics
Matches: 34, Mismatches: 5, Indels: 1
0.85 0.12 0.03
Matches are distributed among these distances:
19 10 0.29
20 24 0.71
ACGTcount: A:0.37, C:0.10, G:0.19, T:0.34
Consensus pattern (20 bp):
GATAAATTGTATCGATACAT
Found at i:711922 original size:50 final size:52
Alignment explanation
Indices: 711800--711936 Score: 172
Period size: 50 Copynumber: 2.7 Consensus size: 52
711790 AATAGCCTAC
* * *
711800 ATGTATCGATACATTGA-AGAATGTATTGATACATTTGGGTCAAAAACCCAGA
1 ATGTATCGATACAATGAGA-AATGTATCGATACATTTGAGTCAAAAACCCAGA
* * * *
711852 ATGCATCGATACAATAAGAAATGTATCGATACATTT-AGT-TAAAACCCCGA
1 ATGTATCGATACAATGAGAAATGTATCGATACATTTGAGTCAAAAACCCAGA
*
711902 ATGTATCGATATAATGAGAAATGTATCGATACATT
1 ATGTATCGATACAATGAGAAATGTATCGATACATT
711937 GCAAGCATGT
Statistics
Matches: 74, Mismatches: 10, Indels: 4
0.84 0.11 0.05
Matches are distributed among these distances:
50 41 0.55
51 2 0.03
52 30 0.41
53 1 0.01
ACGTcount: A:0.40, C:0.14, G:0.17, T:0.29
Consensus pattern (52 bp):
ATGTATCGATACAATGAGAAATGTATCGATACATTTGAGTCAAAAACCCAGA
Found at i:712050 original size:21 final size:20
Alignment explanation
Indices: 712000--712054 Score: 74
Period size: 20 Copynumber: 2.7 Consensus size: 20
711990 ACATCATAAA
*
712000 CATCTATCGATAAATTCACT
1 CATCTATCGATACATTCACT
712020 CATCTATCGATACATTCACT
1 CATCTATCGATACATTCACT
* *
712040 TATTGTATCGATACA
1 CA-TCTATCGATACA
712055 AATTATAAAA
Statistics
Matches: 31, Mismatches: 3, Indels: 1
0.89 0.09 0.03
Matches are distributed among these distances:
20 20 0.65
21 11 0.35
ACGTcount: A:0.33, C:0.24, G:0.07, T:0.36
Consensus pattern (20 bp):
CATCTATCGATACATTCACT
Found at i:712692 original size:70 final size:70
Alignment explanation
Indices: 712574--713367 Score: 545
Period size: 69 Copynumber: 11.0 Consensus size: 70
712564 AAGTAGATAT
* * * * * *
712574 GTGCCACCAACTTATGTAGGCTTTGAGAAAGAAAAA-GAGTCCTGCTCTTTGACGAC-AAAAGGG
1 GTGCCACCAGCTTGTGTGGGCTTT-AAAAAGAAAAAGGCGTCCTGCTCTTTGAGGACTAAAA-GG
712637 ATAAAAG
64 ATAAAAG
* * * * *
712644 GTCCCACCAGCTTGTGGGGGCTTTAAAAAGGAAAAGGCGTCCTACTCTTTGAGGACTGAAAGGAT
1 GTGCCACCAGCTTGTGTGGGCTTTAAAAAGAAAAAGGCGTCCTGCTCTTTGAGGACTAAAAGGAT
712709 AAAAG
66 AAAAG
* * * * * * *
712714 GTGCCACTAGCATATATGGGTTTTAAAAAGAAAAAGGAAAAACGTCTTGCTATTTGAGGACTAAA
1 GTGCCACCAGCTTGTGTGGGCTTTAAAAAGAAAAAGG-----CGTCCTGCTCTTTGAGGACTAAA
*
712779 AAGATAAAAGG
61 AGGATAAAA-G
** * * * * * * *
712790 AGTGGTACCAACTTGTGTGGGCTTTAAAAAGGAAAAGACATCCCGCTCTTTGAAGACTGAAAGGA
1 -GTGCCACCAGCTTGTGTGGGCTTTAAAAAGAAAAAGGCGTCCTGCTCTTTGAGGACTAAAAGGA
*
712855 TAAAAA
65 TAAAAG
* **
712861 GTGCCACCAGCTTGTGTAGGCTTTAAAAA-AAAAAGGTATCCTGCTCTTTGAGGACTGAAAA-GA
1 GTGCCACCAGCTTGTGTGGGCTTTAAAAAGAAAAAGGCGTCCTGCTCTTTGAGGACT-AAAAGGA
*
712924 TAAAAA
65 TAAAAG
** ** * *
712930 GTGCCACCAGCTTACGTGGGCTTTAAAAAGAAAAAGGAAATGCGTTTTCCT-TTTCAAGGACTAA
1 GTGCCACCAGCTTGTGTGGGCTTTAAAAAGAAAAA-G----GCGTCCTGCTCTTT-GAGGACTAA
*
712994 ATGGATAAAAGG
60 AAGGATAAAA-G
* * * * *
713006 AGTGCCACCAACTTGTGTGGCCTTTGAAAAAGAAAAAGGAAAAGCATCTTGCTTTTTGAGGACTA
1 -GTGCCACCAGCTTGTGTGGGCTTT-AAAAAGAAAAA-G----GCGTCCTGCTCTTTGAGGACTA
*
713071 AAAAGATAAAAGG
59 AAAGGATAAAA-G
* * * * *
713084 AGTGCCACTAACTTGTGCGGGCTTTGAAAAAGAAAAAAAGAAAAGCGTCATACTCTTTGAGGAC-
1 -GTGCCACCAGCTTGTGTGGGCTTT-AAAAAG--AAAAAG----GCGTCCTGCTCTTTGAGGACT
713148 -------TAAAAG
58 AAAAGGATAAAAG
* * ** * *
713154 GTGCCACCAGCTTGTGTGGGCTTTAAAAAGAAAAAAGTGTTTTGCTTTTTGAGGACT-AAAGGGT
1 GTGCCACCAGCTTGTGTGGGCTTTAAAAAGAAAAAGGCGTCCTGCTCTTTGAGGACTAAAAGGAT
*
713218 AAAAA
66 AAAAG
* * * * * * *
713223 GTGCCACCAGCTTATGAGGGCTTTAAAAAAAAAAAGGCATCTTGCTCTTTGAAGACTGAAAGGAT
1 GTGCCACCAGCTTGTGTGGGCTTTAAAAAGAAAAAGGCGTCCTGCTCTTTGAGGACTAAAAGGAT
713288 AAAAGG
66 AAAA-G
* * * * *
713294 GTGCCTCCAGCTTGTGTGGGTTTTAAAAAGAAAAAGGCGTCCTTCTCTTTCAGGACTTAAAAAGA
1 GTGCCACCAGCTTGTGTGGGCTTTAAAAAGAAAAAGGCGTCCTGCTCTTTGAGGAC-TAAAAGGA
713359 TAAAAG
65 TAAAAG
713365 GTG
1 GTG
713368 TCGTAACGTG
Statistics
Matches: 576, Mismatches: 114, Indels: 67
0.76 0.15 0.09
Matches are distributed among these distances:
62 15 0.03
66 5 0.01
68 6 0.01
69 139 0.24
70 118 0.20
71 59 0.10
72 36 0.06
74 6 0.01
75 45 0.08
76 1 0.00
77 47 0.08
78 70 0.12
79 24 0.04
80 5 0.01
ACGTcount: A:0.37, C:0.15, G:0.24, T:0.24
Consensus pattern (70 bp):
GTGCCACCAGCTTGTGTGGGCTTTAAAAAGAAAAAGGCGTCCTGCTCTTTGAGGACTAAAAGGAT
AAAAG
Found at i:712968 original size:216 final size:217
Alignment explanation
Indices: 712574--713043 Score: 588
Period size: 216 Copynumber: 2.2 Consensus size: 217
712564 AAGTAGATAT
* * * * * *
712574 GTGCCACCAACTTATGTAGGCTTTGAGAAAGAAAAAGAGTCCTGCTCTTTGACGACAAAAGGGAT
1 GTGCCACCAACTTGTGTGGGCTTTGAAAAAGAAAAAGAATCCCGCTCTTTGAAGACAAAAGGGAT
* * * *
712639 AAAAGGTCCCACCAGCTTGTGGGGGCTTTAAAAAGGAAAAGGCGTCCTACTCTTTGAGGACTGAA
66 AAAAAGTCCCACCAGCTTGTGGAGGCTTTAAAAAGAAAAAGGCATCCTACTCTTTGAGGACTGAA
* * * * * *
712704 AGGATAAAAGGTGCCACTAGCATATATGGGTTTTAAAAAGAAAAAGGAAAAACGTCTTGCTATTT
131 AAGATAAAAAGTGCCACCAGCATACATGGGCTTTAAAAAGAAAAAGGAAAAACGTCTTCCT-TTT
*
712769 -GAGGACTAAAAAGATAAAAGGA
195 CAAGGACTAAAAAGATAAAAGGA
** * *
712791 GTGGTACCAACTTGTGTGGGCTTT-AAAAAGGAAAAGACATCCCGCTCTTTGAAGACTGAAA-GG
1 GTGCCACCAACTTGTGTGGGCTTTGAAAAAGAAAAAGA-ATCCCGCTCTTTGAAGAC-AAAAGGG
* * * *
712854 ATAAAAAGTGCCACCAGCTTGTGTAGGCTTTAAAAA-AAAAAGGTATCCTGCTCTTTGAGGACTG
64 ATAAAAAGTCCCACCAGCTTGTGGAGGCTTTAAAAAGAAAAAGGCATCCTACTCTTTGAGGACTG
* * ** *
712918 AAAAGATAAAAAGTGCCACCAGCTTACGTGGGCTTTAAAAAGAAAAAGGAAATGCGTTTTCCTTT
129 AAAAGATAAAAAGTGCCACCAGCATACATGGGCTTTAAAAAGAAAAAGGAAAAACGTCTTCCTTT
**
712983 TCAAGGACTAAATGGATAAAAGGA
194 TCAAGGACTAAAAAGATAAAAGGA
*
713007 GTGCCACCAACTTGTGTGGCCTTTGAAAAAGAAAAAG
1 GTGCCACCAACTTGTGTGGGCTTTGAAAAAGAAAAAG
713044 GAAAAGCATC
Statistics
Matches: 213, Mismatches: 36, Indels: 8
0.83 0.14 0.03
Matches are distributed among these distances:
215 3 0.01
216 127 0.60
217 80 0.38
218 3 0.01
ACGTcount: A:0.37, C:0.16, G:0.24, T:0.23
Consensus pattern (217 bp):
GTGCCACCAACTTGTGTGGGCTTTGAAAAAGAAAAAGAATCCCGCTCTTTGAAGACAAAAGGGAT
AAAAAGTCCCACCAGCTTGTGGAGGCTTTAAAAAGAAAAAGGCATCCTACTCTTTGAGGACTGAA
AAGATAAAAAGTGCCACCAGCATACATGGGCTTTAAAAAGAAAAAGGAAAAACGTCTTCCTTTTC
AAGGACTAAAAAGATAAAAGGA
Found at i:713153 original size:78 final size:78
Alignment explanation
Indices: 712904--713152 Score: 290
Period size: 78 Copynumber: 3.2 Consensus size: 78
712894 AGGTATCCTG
* * **
712904 CTCTTTGAGGACTGAAAAGATAAAA--AGTGCCACCAGCTTACGTGGGCTTT-AAAAAGAAAAAG
1 CTCTTTGAGGACTAAAAAGATAAAAGGAGTGCCACCAACTTGTGTGGGCTTTGAAAAAGAAAAAG
* * *
712966 GAAATGCGTTTTC
66 GAAAAGCGTCTTA
* ** *
712979 CT-TTTCAAGGACTAAATGGATAAAAGGAGTGCCACCAACTTGTGTGGCCTTTGAAAAAGAAAAA
1 CTCTTT-GAGGACTAAAAAGATAAAAGGAGTGCCACCAACTTGTGTGGGCTTTGAAAAAGAAAAA
* *
713043 GGAAAAGCATCTTG
65 GGAAAAGCGTCTTA
* * *
713057 CTTTTTGAGGACTAAAAAGATAAAAGGAGTGCCACTAACTTGTGCGGGCTTTGAAAAAGAAAAAA
1 CTCTTTGAGGACTAAAAAGATAAAAGGAGTGCCACCAACTTGTGTGGGCTTTGAAAAAG-AAAAA
* *
713122 AGAAAAGCGTCATA
65 GGAAAAGCGTCTTA
713136 CTCTTTGAGGACTAAAA
1 CTCTTTGAGGACTAAAA
713153 GGTGCCACCA
Statistics
Matches: 145, Mismatches: 23, Indels: 8
0.82 0.13 0.05
Matches are distributed among these distances:
74 3 0.02
75 17 0.12
77 21 0.14
78 70 0.48
79 34 0.23
ACGTcount: A:0.39, C:0.15, G:0.22, T:0.23
Consensus pattern (78 bp):
CTCTTTGAGGACTAAAAAGATAAAAGGAGTGCCACCAACTTGTGTGGGCTTTGAAAAAGAAAAAG
GAAAAGCGTCTTA
Found at i:716553 original size:13 final size:13
Alignment explanation
Indices: 716535--716559 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
716525 CAAAGATCAG
716535 TGTATCGATACAA
1 TGTATCGATACAA
716548 TGTATCGATACA
1 TGTATCGATACA
716560 TTTGAGTAAT
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:0.36, C:0.16, G:0.16, T:0.32
Consensus pattern (13 bp):
TGTATCGATACAA
Found at i:716636 original size:19 final size:19
Alignment explanation
Indices: 716612--716708 Score: 92
Period size: 19 Copynumber: 5.7 Consensus size: 19
716602 AACTGTACAT
716612 TGTATCGATACAAAACTTA
1 TGTATCGATACAAAACTTA
716631 TGTATCGATAC---A--T-
1 TGTATCGATACAAAACTTA
716644 TGTATCGATACAAAACTTA
1 TGTATCGATACAAAACTTA
716663 TGTATCGATAC---A--T-
1 TGTATCGATACAAAACTTA
*
716676 TGTATCGATACAACACTTA
1 TGTATCGATACAAAACTTA
*
716695 TGTATTGATACAAA
1 TGTATCGATACAAA
716709 TCGTTGAAAT
Statistics
Matches: 64, Mismatches: 2, Indels: 24
0.71 0.02 0.27
Matches are distributed among these distances:
13 22 0.34
14 2 0.03
16 4 0.06
18 2 0.03
19 34 0.53
ACGTcount: A:0.38, C:0.15, G:0.12, T:0.34
Consensus pattern (19 bp):
TGTATCGATACAAAACTTA
Found at i:716648 original size:32 final size:32
Alignment explanation
Indices: 716607--716706 Score: 182
Period size: 32 Copynumber: 3.1 Consensus size: 32
716597 TTCGTAACTG
716607 TACATTGTATCGATACAAAACTTATGTATCGA
1 TACATTGTATCGATACAAAACTTATGTATCGA
716639 TACATTGTATCGATACAAAACTTATGTATCGA
1 TACATTGTATCGATACAAAACTTATGTATCGA
* *
716671 TACATTGTATCGATACAACACTTATGTATTGA
1 TACATTGTATCGATACAAAACTTATGTATCGA
716703 TACA
1 TACA
716707 AATCGTTGAA
Statistics
Matches: 66, Mismatches: 2, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
32 66 1.00
ACGTcount: A:0.37, C:0.16, G:0.12, T:0.35
Consensus pattern (32 bp):
TACATTGTATCGATACAAAACTTATGTATCGA
Done.