Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Scaffold24
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: 3006277
ACGTcount: A:0.30, C:0.13, G:0.13, T:0.30
Warning! 383161 characters in sequence are not A, C, G, or T
File 19 of 19
Found at i:2879267 original size:42 final size:43
Alignment explanation
Indices: 2879184--2879284 Score: 186
Period size: 42 Copynumber: 2.4 Consensus size: 43
2879174 AAAAGGGAAG
2879184 AAGTCAAATTCTATTTGGTAATGGTAGCTAAGACTTAGTTTCC
1 AAGTCAAATTCTATTTGGTAATGGTAGCTAAGACTTAGTTTCC
*
2879227 AAGTCAAATTCTATTTGGT-ATGGTAGCTAAGACTTGGTTTCC
1 AAGTCAAATTCTATTTGGTAATGGTAGCTAAGACTTAGTTTCC
2879269 AAGTCAAATTCTATTT
1 AAGTCAAATTCTATTT
2879285 TGGCTGGATA
Statistics
Matches: 57, Mismatches: 1, Indels: 1
0.97 0.02 0.02
Matches are distributed among these distances:
42 38 0.67
43 19 0.33
ACGTcount: A:0.30, C:0.14, G:0.18, T:0.39
Consensus pattern (43 bp):
AAGTCAAATTCTATTTGGTAATGGTAGCTAAGACTTAGTTTCC
Found at i:2880325 original size:22 final size:22
Alignment explanation
Indices: 2880282--2880327 Score: 58
Period size: 22 Copynumber: 2.1 Consensus size: 22
2880272 ATCTAATATT
**
2880282 AAATAAATATATAAATTTCAAA
1 AAATAAATATATAAATAACAAA
2880304 AAATAAAT-TATTAAATAACAAA
1 AAATAAATATA-TAAATAACAAA
2880326 AA
1 AA
2880328 GATTTAGATT
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
21 2 0.10
22 19 0.90
ACGTcount: A:0.67, C:0.04, G:0.00, T:0.28
Consensus pattern (22 bp):
AAATAAATATATAAATAACAAA
Found at i:2880381 original size:42 final size:41
Alignment explanation
Indices: 2880296--2880388 Score: 114
Period size: 42 Copynumber: 2.2 Consensus size: 41
2880286 AAATATATAA
* * *
2880296 ATTTCAAAAAATAAATTATTAAATAACAAAAAGATTTAGATT
1 ATTTC-AAAAATAAATTATCAAATAACAAAAAGAATCAGATT
** *
2880338 ATTTCAAAAATCAAATTATCAAATAACAAAACTAATCATATT
1 ATTTCAAAAAT-AAATTATCAAATAACAAAAAGAATCAGATT
2880380 ATTTCAAAA
1 ATTTCAAAA
2880389 TTATTTTTTC
Statistics
Matches: 44, Mismatches: 6, Indels: 2
0.85 0.12 0.04
Matches are distributed among these distances:
41 6 0.14
42 38 0.86
ACGTcount: A:0.56, C:0.10, G:0.02, T:0.32
Consensus pattern (41 bp):
ATTTCAAAAATAAATTATCAAATAACAAAAAGAATCAGATT
Found at i:2880675 original size:38 final size:38
Alignment explanation
Indices: 2880552--2880680 Score: 118
Period size: 38 Copynumber: 3.4 Consensus size: 38
2880542 TCTAAACTTG
* * * * *
2880552 TAGCATGATTCGAAATAAAAATTACTATTTTCAACTGA
1 TAGCATAATTTGAAACAAAAACTACTATTTTCAACCGA
* * * *
2880590 TGGCATAATTTAAAAC-AAAACTACTATTTTTAATCG-
1 TAGCATAATTTGAAACAAAAACTACTATTTTCAACCGA
* * *
2880626 GAGATATAATTTGAAACAAAAACTACTATTATCAACCGA
1 TAG-CATAATTTGAAACAAAAACTACTATTTTCAACCGA
*
2880665 TAGCACAATTTGAAAC
1 TAGCATAATTTGAAAC
2880681 TGATTTCTAT
Statistics
Matches: 69, Mismatches: 19, Indels: 6
0.73 0.20 0.06
Matches are distributed among these distances:
36 1 0.01
37 27 0.39
38 39 0.57
39 2 0.03
ACGTcount: A:0.44, C:0.15, G:0.10, T:0.31
Consensus pattern (38 bp):
TAGCATAATTTGAAACAAAAACTACTATTTTCAACCGA
Found at i:2881952 original size:2 final size:2
Alignment explanation
Indices: 2881945--2881973 Score: 58
Period size: 2 Copynumber: 14.5 Consensus size: 2
2881935 ATGTCGGTTT
2881945 AC AC AC AC AC AC AC AC AC AC AC AC AC AC A
1 AC AC AC AC AC AC AC AC AC AC AC AC AC AC A
2881974 AATACCCATC
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 27 1.00
ACGTcount: A:0.52, C:0.48, G:0.00, T:0.00
Consensus pattern (2 bp):
AC
Found at i:2889166 original size:5 final size:5
Alignment explanation
Indices: 2889150--2889184 Score: 52
Period size: 5 Copynumber: 7.0 Consensus size: 5
2889140 AAACTAGCTG
* *
2889150 CTATA CTGTA CTATA CTATA CTATG CTATA CTATA
1 CTATA CTATA CTATA CTATA CTATA CTATA CTATA
2889185 TGCAATAAAC
Statistics
Matches: 26, Mismatches: 4, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
5 26 1.00
ACGTcount: A:0.34, C:0.20, G:0.06, T:0.40
Consensus pattern (5 bp):
CTATA
Found at i:2890164 original size:2 final size:2
Alignment explanation
Indices: 2890157--2890182 Score: 52
Period size: 2 Copynumber: 13.0 Consensus size: 2
2890147 AGCCCTAAGT
2890157 TA TA TA TA TA TA TA TA TA TA TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA
2890183 GAGGGAATAA
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 24 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
TA
Found at i:2898340 original size:1 final size:1
Alignment explanation
Indices: 2898334--2898361 Score: 56
Period size: 1 Copynumber: 28.0 Consensus size: 1
2898324 ATAAAAGAGA
2898334 CCCCCCCCCCCCCCCCCCCCCCCCCCCC
1 CCCCCCCCCCCCCCCCCCCCCCCCCCCC
2898362 AAAAAAAAAA
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
1 27 1.00
ACGTcount: A:0.00, C:1.00, G:0.00, T:0.00
Consensus pattern (1 bp):
C
Found at i:2910739 original size:51 final size:51
Alignment explanation
Indices: 2910681--2910781 Score: 193
Period size: 51 Copynumber: 2.0 Consensus size: 51
2910671 CTGATTCTAA
*
2910681 TCTCATTATTTATGAGAATCCTATTCTATAATCAAATTTTCTAACTTCCTC
1 TCTCATTATTTATGAGAATCCTATCCTATAATCAAATTTTCTAACTTCCTC
2910732 TCTCATTATTTATGAGAATCCTATCCTATAATCAAATTTTCTAACTTCCT
1 TCTCATTATTTATGAGAATCCTATCCTATAATCAAATTTTCTAACTTCCT
2910782 AAACTAGTTA
Statistics
Matches: 49, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
51 49 1.00
ACGTcount: A:0.30, C:0.22, G:0.04, T:0.45
Consensus pattern (51 bp):
TCTCATTATTTATGAGAATCCTATCCTATAATCAAATTTTCTAACTTCCTC
Found at i:2922658 original size:25 final size:26
Alignment explanation
Indices: 2922630--2922688 Score: 93
Period size: 25 Copynumber: 2.3 Consensus size: 26
2922620 ATCACTTAGG
2922630 ATGCTAATTAAAATCACAATC-AAAT
1 ATGCTAATTAAAATCACAATCAAAAT
*
2922655 ATGCTAATTAAAATCATAATCAAAAAT
1 ATGCTAATTAAAATCACAATC-AAAAT
2922682 ATGCTAA
1 ATGCTAA
2922689 GGATGCTGAT
Statistics
Matches: 31, Mismatches: 1, Indels: 2
0.91 0.03 0.06
Matches are distributed among these distances:
25 20 0.65
27 11 0.35
ACGTcount: A:0.53, C:0.14, G:0.05, T:0.29
Consensus pattern (26 bp):
ATGCTAATTAAAATCACAATCAAAAT
Found at i:2925715 original size:3 final size:3
Alignment explanation
Indices: 2925707--2925742 Score: 72
Period size: 3 Copynumber: 12.0 Consensus size: 3
2925697 CAATTAAGTT
2925707 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA
2925743 ATAAATTAAT
Statistics
Matches: 33, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 33 1.00
ACGTcount: A:0.33, C:0.00, G:0.00, T:0.67
Consensus pattern (3 bp):
TTA
Found at i:2926464 original size:23 final size:24
Alignment explanation
Indices: 2926432--2926486 Score: 76
Period size: 24 Copynumber: 2.3 Consensus size: 24
2926422 AATATCTATT
* *
2926432 TTTTACTTAA-AAAACTATTTACC
1 TTTTACTTAATAAAACTACTTACA
*
2926455 TTTTATTTAATAAAACTACTTACA
1 TTTTACTTAATAAAACTACTTACA
2926479 TTTTACTT
1 TTTTACTT
2926487 TTACATGGAA
Statistics
Matches: 27, Mismatches: 4, Indels: 1
0.84 0.12 0.03
Matches are distributed among these distances:
23 9 0.33
24 18 0.67
ACGTcount: A:0.36, C:0.15, G:0.00, T:0.49
Consensus pattern (24 bp):
TTTTACTTAATAAAACTACTTACA
Found at i:2927317 original size:2 final size:2
Alignment explanation
Indices: 2927310--2927362 Score: 97
Period size: 2 Copynumber: 26.5 Consensus size: 2
2927300 AATTCAGAAA
*
2927310 AG AG AG AG AG AG AG AG AG GG AG AG AG AG AG AG AG AG AG AG AG
1 AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG
2927352 AG AG AG AG AG A
1 AG AG AG AG AG A
2927363 AAGATTGTTA
Statistics
Matches: 49, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
2 49 1.00
ACGTcount: A:0.49, C:0.00, G:0.51, T:0.00
Consensus pattern (2 bp):
AG
Found at i:2932055 original size:17 final size:18
Alignment explanation
Indices: 2932035--2932072 Score: 51
Period size: 17 Copynumber: 2.2 Consensus size: 18
2932025 AACAAATATC
*
2932035 AAAATCAAATAGAAA-AG
1 AAAAACAAATAGAAATAG
*
2932052 AAAAAGAAATAGAAATAG
1 AAAAACAAATAGAAATAG
2932070 AAA
1 AAA
2932073 CAGAAATAGG
Statistics
Matches: 18, Mismatches: 2, Indels: 1
0.86 0.10 0.05
Matches are distributed among these distances:
17 13 0.72
18 5 0.28
ACGTcount: A:0.74, C:0.03, G:0.13, T:0.11
Consensus pattern (18 bp):
AAAAACAAATAGAAATAG
Found at i:2932071 original size:18 final size:17
Alignment explanation
Indices: 2932041--2932081 Score: 64
Period size: 18 Copynumber: 2.4 Consensus size: 17
2932031 TATCAAAATC
2932041 AAATAGAAAAGAAAAAG
1 AAATAGAAAAGAAAAAG
*
2932058 AAATAGAAATAGAAACAG
1 AAATAGAAA-AGAAAAAG
2932076 AAATAG
1 AAATAG
2932082 GAATCACATT
Statistics
Matches: 22, Mismatches: 1, Indels: 1
0.92 0.04 0.04
Matches are distributed among these distances:
17 9 0.41
18 13 0.59
ACGTcount: A:0.71, C:0.02, G:0.17, T:0.10
Consensus pattern (17 bp):
AAATAGAAAAGAAAAAG
Found at i:2934774 original size:6 final size:6
Alignment explanation
Indices: 2934765--2934789 Score: 50
Period size: 6 Copynumber: 4.2 Consensus size: 6
2934755 GAGGTAGATG
2934765 CTTGCA CTTGCA CTTGCA CTTGCA C
1 CTTGCA CTTGCA CTTGCA CTTGCA C
2934790 ACTGTGCATG
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 19 1.00
ACGTcount: A:0.16, C:0.36, G:0.16, T:0.32
Consensus pattern (6 bp):
CTTGCA
Found at i:2935303 original size:2 final size:2
Alignment explanation
Indices: 2935296--2935330 Score: 70
Period size: 2 Copynumber: 17.5 Consensus size: 2
2935286 AAACGTGAGA
2935296 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
2935331 ATAGGCCACA
Statistics
Matches: 33, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 33 1.00
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (2 bp):
AT
Found at i:2953591 original size:9 final size:9
Alignment explanation
Indices: 2953577--2953613 Score: 65
Period size: 9 Copynumber: 4.1 Consensus size: 9
2953567 GTTCAACAAA
2953577 AAAAAAAAG
1 AAAAAAAAG
2953586 AAAAAAAAG
1 AAAAAAAAG
2953595 AAAAAAAAG
1 AAAAAAAAG
*
2953604 AAAGAAAAG
1 AAAAAAAAG
2953613 A
1 A
2953614 GAGAAGAAAT
Statistics
Matches: 27, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
9 27 1.00
ACGTcount: A:0.86, C:0.00, G:0.14, T:0.00
Consensus pattern (9 bp):
AAAAAAAAG
Found at i:2953618 original size:13 final size:13
Alignment explanation
Indices: 2953574--2953610 Score: 51
Period size: 12 Copynumber: 2.9 Consensus size: 13
2953564 AAGGTTCAAC
2953574 AAAAAAAA-AAAG
1 AAAAAAAAGAAAG
2953586 AAAAAAAAGAAA-
1 AAAAAAAAGAAAG
2953598 AAAAAGAAAGAAA
1 AAAAA-AAAGAAA
2953611 AGAGAGAAGA
Statistics
Matches: 23, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
12 13 0.57
13 10 0.43
ACGTcount: A:0.89, C:0.00, G:0.11, T:0.00
Consensus pattern (13 bp):
AAAAAAAAGAAAG
Found at i:2953618 original size:22 final size:22
Alignment explanation
Indices: 2953574--2953646 Score: 69
Period size: 22 Copynumber: 3.3 Consensus size: 22
2953564 AAGGTTCAAC
* *
2953574 AAAAAAAA-AAAGAAAAAAAAG
1 AAAAAAAAGAAAGAAAAGAGAG
2953595 AAAAAAAAGAAAGAAAAGAGAG
1 AAAAAAAAGAAAGAAAAGAGAG
* * *
2953617 AAGAAATAGAAA-CAAAGAGGTAG
1 AAAAAAAAGAAAGAAAAGA-G-AG
2953640 AAAAAAA
1 AAAAAAA
2953647 GGCTAGTTTT
Statistics
Matches: 42, Mismatches: 7, Indels: 4
0.79 0.13 0.08
Matches are distributed among these distances:
21 13 0.31
22 22 0.52
23 7 0.17
ACGTcount: A:0.78, C:0.01, G:0.18, T:0.03
Consensus pattern (22 bp):
AAAAAAAAGAAAGAAAAGAGAG
Found at i:2955493 original size:97 final size:97
Alignment explanation
Indices: 2955326--2955552 Score: 289
Period size: 97 Copynumber: 2.3 Consensus size: 97
2955316 CTCTAACCTT
* *
2955326 ATTCCTCCGATGGG-ATATTCCAACCCCGCTTTCAAACACATCAAAGTTTAAATCTTATTCTCAC
1 ATTCCTCCGA-GGGAATACTCCAACCCCGCTTTTAAACACATCAAAGTTTAAATCTTATTCTCAC
* * *
2955390 TTAAATTGTCATCATC-GAGGACACTCCAACCCT
65 TCAAATTGTCATCATCAG-GGACACTCAAACCCC
* * *
2955423 ATTCTTCTGAGGGAATACTCCAACCCCGCTTTTAAATACA-CTAAAGTTTAAATCTTATTCTCAC
1 ATTCCTCCGAGGGAATACTCCAACCCCGCTTTTAAACACATC-AAAGTTTAAATCTTATTCTCAC
*
2955487 TCAAATTGTCATTATCAGGGACACTCAAACCCC
65 TCAAATTGTCATCATCAGGGACACTCAAACCCC
** * *
2955520 ATTCCTCCGAGGGGTTACTCCAAGCCCGTTTTT
1 ATTCCTCCGAGGGAATACTCCAACCCCGCTTTT
2955553 CAATGAAAAA
Statistics
Matches: 112, Mismatches: 15, Indels: 6
0.84 0.11 0.05
Matches are distributed among these distances:
96 4 0.04
97 107 0.96
98 1 0.01
ACGTcount: A:0.29, C:0.29, G:0.12, T:0.31
Consensus pattern (97 bp):
ATTCCTCCGAGGGAATACTCCAACCCCGCTTTTAAACACATCAAAGTTTAAATCTTATTCTCACT
CAAATTGTCATCATCAGGGACACTCAAACCCC
Found at i:2957650 original size:13 final size:13
Alignment explanation
Indices: 2957634--2957659 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
2957624 TATGGTATAA
2957634 TGTATCGATACAT
1 TGTATCGATACAT
2957647 TGTATCGATACAT
1 TGTATCGATACAT
2957660 GAAGAAATGT
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:2957651 original size:20 final size:20
Alignment explanation
Indices: 2957614--2957651 Score: 58
Period size: 20 Copynumber: 1.9 Consensus size: 20
2957604 TATCACTATT
*
2957614 TGTATCGATATATGGTATAA
1 TGTATCGATACATGGTATAA
*
2957634 TGTATCGATACATTGTAT
1 TGTATCGATACATGGTAT
2957652 CGATACATGA
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
20 16 1.00
ACGTcount: A:0.32, C:0.08, G:0.18, T:0.42
Consensus pattern (20 bp):
TGTATCGATACATGGTATAA
Found at i:2963866 original size:13 final size:13
Alignment explanation
Indices: 2963848--2963874 Score: 54
Period size: 13 Copynumber: 2.1 Consensus size: 13
2963838 ACAATATTCC
2963848 TTGTATCGATACA
1 TTGTATCGATACA
2963861 TTGTATCGATACA
1 TTGTATCGATACA
2963874 T
1 T
2963875 AAGGTACTAT
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 14 1.00
ACGTcount: A:0.30, C:0.15, G:0.15, T:0.41
Consensus pattern (13 bp):
TTGTATCGATACA
Found at i:2966383 original size:13 final size:13
Alignment explanation
Indices: 2966365--2966391 Score: 54
Period size: 13 Copynumber: 2.1 Consensus size: 13
2966355 ACATCTTGCT
2966365 TTGTATCGATACA
1 TTGTATCGATACA
2966378 TTGTATCGATACA
1 TTGTATCGATACA
2966391 T
1 T
2966392 GATCATTGTA
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 14 1.00
ACGTcount: A:0.30, C:0.15, G:0.15, T:0.41
Consensus pattern (13 bp):
TTGTATCGATACA
Found at i:2966429 original size:20 final size:20
Alignment explanation
Indices: 2966376--2966431 Score: 71
Period size: 19 Copynumber: 2.9 Consensus size: 20
2966366 TGTATCGATA
2966376 CATTGTATCGATACAT-GAT
1 CATTGTATCGATACATGGAT
*
2966395 CATTGTATCAATACATGGA-
1 CATTGTATCGATACATGGAT
*
2966414 CAATTGTATCGGTACATG
1 C-ATTGTATCGATACATG
2966432 AAACTGGCAG
Statistics
Matches: 32, Mismatches: 3, Indels: 3
0.84 0.08 0.08
Matches are distributed among these distances:
19 16 0.50
20 16 0.50
ACGTcount: A:0.32, C:0.16, G:0.18, T:0.34
Consensus pattern (20 bp):
CATTGTATCGATACATGGAT
Found at i:2966497 original size:13 final size:13
Alignment explanation
Indices: 2966476--2966539 Score: 68
Period size: 13 Copynumber: 5.4 Consensus size: 13
2966466 CGATACATGG
*
2966476 TACAATGTATCGA
1 TACATTGTATCGA
2966489 TACATTGTATCGA
1 TACATTGTATCGA
*
2966502 TACA-TG-A-AGA
1 TACATTGTATCGA
2966512 -A-A-TGTATCGA
1 TACATTGTATCGA
2966522 TACATTGTATCGA
1 TACATTGTATCGA
2966535 TACAT
1 TACAT
2966540 GAAGAAATGT
Statistics
Matches: 43, Mismatches: 3, Indels: 10
0.77 0.05 0.18
Matches are distributed among these distances:
8 3 0.07
9 2 0.05
10 4 0.09
11 2 0.05
12 3 0.07
13 29 0.67
ACGTcount: A:0.38, C:0.14, G:0.16, T:0.33
Consensus pattern (13 bp):
TACATTGTATCGA
Found at i:2966502 original size:33 final size:32
Alignment explanation
Indices: 2966460--2966555 Score: 149
Period size: 33 Copynumber: 2.9 Consensus size: 32
2966450 CTATCACTAT
2966460 TTGTATCGATACATG-GTACAATGTATCGATACA
1 TTGTATCGATACATGAG-A-AATGTATCGATACA
2966493 TTGTATCGATACATGAAGAAATGTATCGATACA
1 TTGTATCGATACATG-AGAAATGTATCGATACA
2966526 TTGTATCGATACATGAAGAAATGTATCGAT
1 TTGTATCGATACATG-AGAAATGTATCGAT
2966556 GCATAGCTTG
Statistics
Matches: 61, Mismatches: 0, Indels: 4
0.94 0.00 0.06
Matches are distributed among these distances:
33 59 0.97
34 1 0.02
35 1 0.02
ACGTcount: A:0.36, C:0.12, G:0.19, T:0.32
Consensus pattern (32 bp):
TTGTATCGATACATGAGAAATGTATCGATACA
Found at i:2966519 original size:20 final size:20
Alignment explanation
Indices: 2966494--2966555 Score: 75
Period size: 20 Copynumber: 3.5 Consensus size: 20
2966484 ATCGATACAT
2966494 TGTATCGATACATGAAGAAA
1 TGTATCGATACATGAAGAAA
2966514 TGTATCGATACAT-------
1 TGTATCGATACATGAAGAAA
2966527 TGTATCGATACATGAAGAAA
1 TGTATCGATACATGAAGAAA
2966547 TGTATCGAT
1 TGTATCGAT
2966556 GCATAGCTTG
Statistics
Matches: 35, Mismatches: 0, Indels: 14
0.71 0.00 0.29
Matches are distributed among these distances:
13 13 0.37
20 22 0.63
ACGTcount: A:0.39, C:0.11, G:0.19, T:0.31
Consensus pattern (20 bp):
TGTATCGATACATGAAGAAA
Found at i:2970857 original size:24 final size:25
Alignment explanation
Indices: 2970822--2970868 Score: 69
Period size: 24 Copynumber: 1.9 Consensus size: 25
2970812 TTTTAATTGG
* *
2970822 AAAAAACTAAAATAAGAAGAAAAAC
1 AAAAAACTAAAAAAAAAAGAAAAAC
2970847 AAAAAAC-AAAAAAAAAAGAAAA
1 AAAAAACTAAAAAAAAAAGAAAA
2970869 GAGAGTGAAT
Statistics
Matches: 20, Mismatches: 2, Indels: 1
0.87 0.09 0.04
Matches are distributed among these distances:
24 13 0.65
25 7 0.35
ACGTcount: A:0.83, C:0.06, G:0.06, T:0.04
Consensus pattern (25 bp):
AAAAAACTAAAAAAAAAAGAAAAAC
Found at i:2971885 original size:58 final size:58
Alignment explanation
Indices: 2971799--2972002 Score: 178
Period size: 58 Copynumber: 3.6 Consensus size: 58
2971789 TTATGCAAAA
* * * *
2971799 TTCATACATTTTGATGTCATTTATGTCATTTTCCATAATATAGGGACTTTGGTGTAAT
1 TTCATAAATTTTGATGTTATTTAAGTCATTTTCCATAATATAGGGACTTTGATGTAAT
* * * * * *
2971857 TTTATAAATTTTGATGTTATTCAAGTCATTTTTCATGATTTAGGGACTTTTATGTAAT
1 TTCATAAATTTTGATGTTATTTAAGTCATTTTCCATAATATAGGGACTTTGATGTAAT
* * * * * * * * *
2971915 TTCATATATATTGGTGTTATTTAAGTAATTTTTCATGATCT--GGACTTTTATGCAAT
1 TTCATAAATTTTGATGTTATTTAAGTCATTTTCCATAATATAGGGACTTTGATGTAAT
* * ***
2971971 TTCATATATTTTAAAAATATTTAAGTCATTTT
1 TTCATAAATTTTGATGTTATTTAAGTCATTTT
2972003 TCATGACTTA
Statistics
Matches: 121, Mismatches: 25, Indels: 2
0.82 0.17 0.01
Matches are distributed among these distances:
56 39 0.32
58 82 0.68
ACGTcount: A:0.28, C:0.09, G:0.13, T:0.50
Consensus pattern (58 bp):
TTCATAAATTTTGATGTTATTTAAGTCATTTTCCATAATATAGGGACTTTGATGTAAT
Found at i:2971975 original size:56 final size:57
Alignment explanation
Indices: 2971767--2971979 Score: 167
Period size: 58 Copynumber: 3.7 Consensus size: 57
2971757 TTTTGGGGTC
* * * * * * * * * *
2971767 ATTTTACACGATCTAAGGACTTTTATGCAAAATTCATACATTTTGATGTCATTTATGTC
1 ATTTTTCATGATCT-AGGACTTTTATGC-AATTTCATATATATTGGTGTTATTCAAGTA
* * * ** * * * * * *
2971826 ATTTTCCATAATATAGGGACTTTGGTGTAATTTTATAAATTTTGATGTTATTCAAGTC
1 ATTTTTCATGATCTA-GGACTTTTATGCAATTTCATATATATTGGTGTTATTCAAGTA
* * *
2971884 ATTTTTCATGATTTAGGGACTTTTATGTAATTTCATATATATTGGTGTTATTTAAGTA
1 ATTTTTCATGATCTA-GGACTTTTATGCAATTTCATATATATTGGTGTTATTCAAGTA
2971942 ATTTTTCATGATCT-GGACTTTTATGCAATTTCATATAT
1 ATTTTTCATGATCTAGGACTTTTATGCAATTTCATATAT
2971980 TTTAAAAATA
Statistics
Matches: 127, Mismatches: 26, Indels: 5
0.80 0.16 0.03
Matches are distributed among these distances:
56 23 0.18
58 85 0.67
59 19 0.15
ACGTcount: A:0.29, C:0.10, G:0.14, T:0.47
Consensus pattern (57 bp):
ATTTTTCATGATCTAGGACTTTTATGCAATTTCATATATATTGGTGTTATTCAAGTA
Found at i:2971992 original size:56 final size:57
Alignment explanation
Indices: 2971874--2972008 Score: 164
Period size: 56 Copynumber: 2.4 Consensus size: 57
2971864 ATTTTGATGT
* * * *****
2971874 TATTCAAGTCATTTTTCATGATTTAGGGACTTTTATGTAATTTCATATATATTGGTGT
1 TATTTAAGTCATTTTTCATGATCTA-GGACTTTTATGCAATTTCATATATATTAAAAA
* *
2971932 TATTTAAGTAATTTTTCATGATCT-GGACTTTTATGCAATTTCATATATTTTAAAAA
1 TATTTAAGTCATTTTTCATGATCTAGGACTTTTATGCAATTTCATATATATTAAAAA
2971988 TATTTAAGTCATTTTTCATGA
1 TATTTAAGTCATTTTTCATGA
2972009 CTTAGAAATT
Statistics
Matches: 66, Mismatches: 11, Indels: 2
0.84 0.14 0.03
Matches are distributed among these distances:
56 45 0.68
58 21 0.32
ACGTcount: A:0.30, C:0.09, G:0.12, T:0.50
Consensus pattern (57 bp):
TATTTAAGTCATTTTTCATGATCTAGGACTTTTATGCAATTTCATATATATTAAAAA
Found at i:2981367 original size:2 final size:2
Alignment explanation
Indices: 2981360--2981387 Score: 56
Period size: 2 Copynumber: 14.0 Consensus size: 2
2981350 TTACACTTGA
2981360 CT CT CT CT CT CT CT CT CT CT CT CT CT CT
1 CT CT CT CT CT CT CT CT CT CT CT CT CT CT
2981388 GTTCTGTTCA
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 26 1.00
ACGTcount: A:0.00, C:0.50, G:0.00, T:0.50
Consensus pattern (2 bp):
CT
Found at i:2984211 original size:161 final size:162
Alignment explanation
Indices: 2983940--2984269 Score: 509
Period size: 161 Copynumber: 2.0 Consensus size: 162
2983930 TCAATACGAT
* * * *
2983940 TTACGATAATGGTAAGTTAACAATCAAAGACCCAATCCCAATCCATGGTTAATTACGTCCCTAAC
1 TTACGATAATGATAAGTGAACAATCAAAAACCCAATCCCAATCCAGGGTTAATTACGTCCCTAAC
* *
2984005 AACAGATTAAGTCAATCTTTTTTCGGATTCTCTGAACCCATTACCT-AAATCTAGGGCCACTATC
66 AACAGATCAAGTCAATCTTTCTTCGGATTCTCTGAACCCATTACCTAAAATCTAGGGCCACTATC
2984069 ATCCAAAATTACAAGCATCTTCTTAAAATCAG
131 ATCCAAAATTACAAGCATCTTCTTAAAATCAG
* * * * *
2984101 TTACGATAATGATAAGTGAACAATGAAAAACCCACTCCCAATCTAGGGTTAATTACGTCCTTTAC
1 TTACGATAATGATAAGTGAACAATCAAAAACCCAATCCCAATCCAGGGTTAATTACGTCCCTAAC
* *
2984166 AACAGGTCAAGTCAATCTTTCTTCGGATTCTCTGAACCTATTACCTGCAAAATCTAGGGCCACTA
66 AACAGATCAAGTCAATCTTTCTTCGGATTCTCTGAACCCATTACCT--AAAATCTAGGGCCACTA
*
2984231 TCATCCAAAATTACAAGCATCTTCTTAAAATCAT
129 TCATCCAAAATTACAAGCATCTTCTTAAAATCAG
2984265 TTACG
1 TTACG
2984270 TGTAATTATT
Statistics
Matches: 152, Mismatches: 14, Indels: 3
0.90 0.08 0.02
Matches are distributed among these distances:
161 98 0.64
164 54 0.36
ACGTcount: A:0.35, C:0.24, G:0.12, T:0.29
Consensus pattern (162 bp):
TTACGATAATGATAAGTGAACAATCAAAAACCCAATCCCAATCCAGGGTTAATTACGTCCCTAAC
AACAGATCAAGTCAATCTTTCTTCGGATTCTCTGAACCCATTACCTAAAATCTAGGGCCACTATC
ATCCAAAATTACAAGCATCTTCTTAAAATCAG
Found at i:2990186 original size:21 final size:20
Alignment explanation
Indices: 2990160--2990198 Score: 60
Period size: 21 Copynumber: 1.9 Consensus size: 20
2990150 GTTGGGACCT
*
2990160 TGTATCGATATATTCTAGAAA
1 TGTATCGATACATT-TAGAAA
2990181 TGTATCGATACATTTAGA
1 TGTATCGATACATTTAGA
2990199 TAAAAATGCA
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
20 4 0.24
21 13 0.76
ACGTcount: A:0.36, C:0.10, G:0.15, T:0.38
Consensus pattern (20 bp):
TGTATCGATACATTTAGAAA
Found at i:2993019 original size:13 final size:13
Alignment explanation
Indices: 2993001--2993043 Score: 59
Period size: 13 Copynumber: 3.3 Consensus size: 13
2992991 AGTTAACTGG
2993001 TCAAAGTCAATAA
1 TCAAAGTCAATAA
*
2993014 TCAAAGTCAATAG
1 TCAAAGTCAATAA
* *
2993027 TCAAAGCCAATTA
1 TCAAAGTCAATAA
2993040 TCAA
1 TCAA
2993044 TGTAGTCAAA
Statistics
Matches: 26, Mismatches: 4, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
13 26 1.00
ACGTcount: A:0.49, C:0.19, G:0.09, T:0.23
Consensus pattern (13 bp):
TCAAAGTCAATAA
Found at i:2995010 original size:36 final size:36
Alignment explanation
Indices: 2994958--2995028 Score: 106
Period size: 36 Copynumber: 2.0 Consensus size: 36
2994948 TTTTTTTATA
* * *
2994958 CTTTTGAACTTAGCTTGATAGCCCAGCTCATAAAAG
1 CTTTTGAACTTAGCTTGAAACCCCAACTCATAAAAG
*
2994994 CTTTTGAACTTGGCTTGAAACCCCAACTCATAAAA
1 CTTTTGAACTTAGCTTGAAACCCCAACTCATAAAA
2995029 ACGTTTAGTT
Statistics
Matches: 31, Mismatches: 4, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
36 31 1.00
ACGTcount: A:0.32, C:0.24, G:0.14, T:0.30
Consensus pattern (36 bp):
CTTTTGAACTTAGCTTGAAACCCCAACTCATAAAAG
Found at i:3001261 original size:14 final size:14
Alignment explanation
Indices: 3001244--3001271 Score: 56
Period size: 14 Copynumber: 2.0 Consensus size: 14
3001234 TAGGACTTAG
3001244 GATTTAAAGTTTAA
1 GATTTAAAGTTTAA
3001258 GATTTAAAGTTTAA
1 GATTTAAAGTTTAA
3001272 AGTTTTTTTA
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 14 1.00
ACGTcount: A:0.43, C:0.00, G:0.14, T:0.43
Consensus pattern (14 bp):
GATTTAAAGTTTAA
Found at i:3001399 original size:14 final size:14
Alignment explanation
Indices: 3001382--3001452 Score: 56
Period size: 14 Copynumber: 5.1 Consensus size: 14
3001372 GGTTTTGAGC
3001382 TTAGGGTTTAA-AGT
1 TTAGGGTTTAAGA-T
*
3001396 TTAGGGTATAAGAT
1 TTAGGGTTTAAGAT
* *
3001410 TTAGGGTTTGAGCT
1 TTAGGGTTTAAGAT
* *
3001424 TTGGGGTCTAA-AGT
1 TTAGGGTTTAAGA-T
*
3001438 TTAGGGTTTGAGAT
1 TTAGGGTTTAAGAT
3001452 T
1 T
3001453 CAATGTATAC
Statistics
Matches: 43, Mismatches: 11, Indels: 6
0.72 0.18 0.10
Matches are distributed among these distances:
14 41 0.95
15 2 0.05
ACGTcount: A:0.24, C:0.03, G:0.32, T:0.41
Consensus pattern (14 bp):
TTAGGGTTTAAGAT
Found at i:3001430 original size:28 final size:27
Alignment explanation
Indices: 3001382--3001449 Score: 75
Period size: 28 Copynumber: 2.4 Consensus size: 27
3001372 GGTTTTGAGC
*
3001382 TTAGGGTTTAAAGTTTAGGGTAT-AAGAT
1 TTAGGGTTT-GAGTTTAGGGTATAAAG-T
* *
3001410 TTAGGGTTTGAGCTTTGGGGTCTAAAGT
1 TTAGGGTTTGAG-TTTAGGGTATAAAGT
3001438 TTAGGGTTTGAG
1 TTAGGGTTTGAG
3001450 ATTCAATGTA
Statistics
Matches: 35, Mismatches: 3, Indels: 4
0.83 0.07 0.10
Matches are distributed among these distances:
27 2 0.06
28 30 0.86
29 3 0.09
ACGTcount: A:0.24, C:0.03, G:0.34, T:0.40
Consensus pattern (27 bp):
TTAGGGTTTGAGTTTAGGGTATAAAGT
Found at i:3001591 original size:13 final size:14
Alignment explanation
Indices: 3001566--3001594 Score: 51
Period size: 13 Copynumber: 2.1 Consensus size: 14
3001556 TTTAAAGGGT
3001566 TTAGGGTTTTGGGG
1 TTAGGGTTTTGGGG
3001580 TTAGGG-TTTGGGG
1 TTAGGGTTTTGGGG
3001593 TT
1 TT
3001595 CGAGGTTCGA
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
13 9 0.60
14 6 0.40
ACGTcount: A:0.07, C:0.00, G:0.48, T:0.45
Consensus pattern (14 bp):
TTAGGGTTTTGGGG
Found at i:3001641 original size:7 final size:7
Alignment explanation
Indices: 3001631--3001682 Score: 50
Period size: 7 Copynumber: 7.4 Consensus size: 7
3001621 TTTAGGGATT
*
3001631 GGGATTG
1 GGGATCG
3001638 GGGATCG
1 GGGATCG
* *
3001645 TGGATTG
1 GGGATCG
*
3001652 CGGATCG
1 GGGATCG
*
3001659 AGGATCG
1 GGGATCG
3001666 GGGATCG
1 GGGATCG
*
3001673 GGGTTCG
1 GGGATCG
3001680 GGG
1 GGG
3001683 TTTCAGGGTT
Statistics
Matches: 37, Mismatches: 8, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
7 37 1.00
ACGTcount: A:0.13, C:0.12, G:0.54, T:0.21
Consensus pattern (7 bp):
GGGATCG
Found at i:3001663 original size:21 final size:20
Alignment explanation
Indices: 3001625--3001670 Score: 56
Period size: 21 Copynumber: 2.2 Consensus size: 20
3001615 TTAGGGTTTA
* *
3001625 GGGATTGGGATTGGGGATCG
1 GGGATTGGGATCGAGGATCG
*
3001645 TGGATTGCGGATCGAGGATCG
1 GGGATTG-GGATCGAGGATCG
3001666 GGGAT
1 GGGAT
3001671 CGGGGTTCGG
Statistics
Matches: 21, Mismatches: 4, Indels: 1
0.81 0.15 0.04
Matches are distributed among these distances:
20 6 0.29
21 15 0.71
ACGTcount: A:0.17, C:0.09, G:0.50, T:0.24
Consensus pattern (20 bp):
GGGATTGGGATCGAGGATCG
Found at i:3001707 original size:6 final size:7
Alignment explanation
Indices: 3001670--3004615 Score: 1461
Period size: 7 Copynumber: 409.7 Consensus size: 7
3001660 GGATCGGGGA
*
3001670 TCGGGGT
1 TCGGGTT
3001677 TCGGGGTT
1 TC-GGGTT
3001685 TCAGGGTT
1 TC-GGGTT
3001693 TCGGGGTT
1 TC-GGGTT
3001701 T-GGGTT
1 TCGGGTT
*
3001707 TCGGGTC
1 TCGGGTT
3001714 TCGGGTT
1 TCGGGTT
* *
3001721 TTGGGGT
1 TCGGGTT
*
3001728 TCGGGTC
1 TCGGGTT
*
3001735 TCGGGTC
1 TCGGGTT
3001742 TCGAGGTT
1 TCG-GGTT
*
3001750 T-GGGGT
1 TCGGGTT
3001756 TCGGG-T
1 TCGGGTT
*
3001762 TCGGGGT
1 TCGGGTT
*
3001769 TCGGGGGT
1 TC-GGGTT
3001777 TCGGGTT
1 TCGGGTT
*
3001784 TTGGGTT
1 TCGGGTT
*
3001791 TCGGGGT
1 TCGGGTT
3001798 TCGAGGTT
1 TCG-GGTT
3001806 TCGGGTT
1 TCGGGTT
3001813 TCGGGTT
1 TCGGGTT
*
3001820 TCGGGTC
1 TCGGGTT
* *
3001827 T-AGGTC
1 TCGGGTT
*
3001833 TAGGGTT
1 TCGGGTT
*
3001840 T-AGGTT
1 TCGGGTT
* *
3001846 TAGGGTC
1 TCGGGTT
*
3001853 TAGGGTCT
1 TCGGGT-T
3001861 T-GGG-T
1 TCGGGTT
*
3001866 TCGGGGT
1 TCGGGTT
*
3001873 TCGGGGT
1 TCGGGTT
3001880 TCGGGGTTT
1 TC-GGG-TT
*
3001889 TAGGG-T
1 TCGGGTT
*
3001895 TCGGGGT
1 TCGGGTT
*
3001902 TCGGGGT
1 TCGGGTT
*
3001909 TCGGGGT
1 TCGGGTT
*
3001916 TCGGGGT
1 TCGGGTT
*
3001923 TCGGGGT
1 TCGGGTT
3001930 TCGGGTT
1 TCGGGTT
*
3001937 TGGGGTT
1 TCGGGTT
*
3001944 TGGGGTT
1 TCGGGTT
*
3001951 TGGGGTT
1 TCGGGTT
*
3001958 TAGGGTT
1 TCGGGTT
*
3001965 TGGGGTT
1 TCGGGTT
*
3001972 TGGGGTT
1 TCGGGTT
*
3001979 TGGGGTT
1 TCGGGTT
*
3001986 TGGGGTT
1 TCGGGTT
*
3001993 TGGGGTT
1 TCGGGTT
*
3002000 TGGGGTT
1 TCGGGTT
*
3002007 TAGGGTT
1 TCGGGTT
*
3002014 TAGGGTT
1 TCGGGTT
**
3002021 TAAGGTT
1 TCGGGTT
*
3002028 TAGGGTT
1 TCGGGTT
*
3002035 TAGGGTT
1 TCGGGTT
*
3002042 TAGGGTT
1 TCGGGTT
** *
3002049 TAAGGTC
1 TCGGGTT
***
3002056 TAAAGTT
1 TCGGGTT
*
3002063 TAGGGTT
1 TCGGGTT
* *
3002070 T-GAGAT
1 TCGGGTT
**
3002076 TCAATGTAT
1 TC-GGGT-T
* *
3002085 AC-GATT
1 TCGGGTT
* *
3002091 T-AGGAT
1 TCGGGTT
*
3002097 TCAGGGGT
1 TC-GGGTT
*
3002105 TAGGGTT
1 TCGGGTT
* *
3002112 T-AGGAT
1 TCGGGTT
*
3002118 TCAAGGTTT
1 TC--GGGTT
*
3002127 TTGGG-T
1 TCGGGTT
3002133 TCGGGGTT
1 TC-GGGTT
*
3002141 TGGGGTT
1 TCGGGTT
*
3002148 TGGGGTT
1 TCGGGTT
*
3002155 TGGGGGTT
1 T-CGGGTT
*
3002163 GGTTGGG-T
1 --TCGGGTT
*
3002171 T-GGGGT
1 TCGGGTT
*
3002177 TGGGGTT
1 TCGGGTT
*
3002184 TGGGGTT
1 TCGGGTT
3002191 T-GGGTT
1 TCGGGTT
*
3002197 TGGGGTT
1 TCGGGTT
*
3002204 TGGGGTT
1 TCGGGTT
3002211 T-GGGTT
1 TCGGGTT
*
3002217 TGGGGTT
1 TCGGGTT
*
3002224 TGGGGTT
1 TCGGGTT
*
3002231 TGGGGTT
1 TCGGGTT
*
3002238 TGGGGTT
1 TCGGGTT
*
3002245 TGGGGTT
1 TCGGGTT
*
3002252 TGGGGTT
1 TCGGGTT
*
3002259 TGGGGTGGGT
1 TCGGGT---T
*
3002269 TGGGGTT
1 TCGGGTT
*
3002276 TGGGGTT
1 TCGGGTT
*
3002283 TGGGGTT
1 TCGGGTT
3002290 T-GGGTT
1 TCGGGTT
3002296 T-GGGTT
1 TCGGGTT
*
3002302 TGGGGTT
1 TCGGGTT
*
3002309 TGGGGTT
1 TCGGGTT
*
3002316 TGGGGTT
1 TCGGGTT
*
3002323 T-GGGGT
1 TCGGGTT
* *
3002329 TGGGGGT
1 TCGGGTT
3002336 T-GGGTT
1 TCGGGTT
3002342 T-GGGTT
1 TCGGGTT
*
3002348 TGGGGTT
1 TCGGGTT
*
3002355 TGGGGTT
1 TCGGGTT
*
3002362 T-GGGGT
1 TCGGGTT
3002368 T-GGGTT
1 TCGGGTT
*
3002374 TGGGGTT
1 TCGGGTT
* *
3002381 TTGGGGT
1 TCGGGTT
*
3002388 TGGGGTT
1 TCGGGTT
**
3002395 GAGGGTT
1 TCGGGTT
*
3002402 TGGGAGTT
1 TCGG-GTT
*
3002410 TGGGGTT
1 TCGGGTT
*
3002417 TGGGGTT
1 TCGGGTT
3002424 TCTGGGGTT
1 TC--GGGTT
**
3002433 GGGGGTT
1 TCGGGTT
*
3002440 TGGGGTT
1 TCGGGTT
3002447 T-GGGTT
1 TCGGGTT
*
3002453 T-GGGGT
1 TCGGGTT
* *
3002459 TGGGGGT
1 TCGGGTT
*
3002466 TGGGGTT
1 TCGGGTT
*
3002473 T---TTT
1 TCGGGTT
3002477 TCGGGTT
1 TCGGGTT
3002484 GTC-GGTT
1 -TCGGGTT
3002491 TCGGGTT
1 TCGGGTT
*
3002498 TCGGGTGG
1 TCGGGT-T
*
3002506 TCGGATT
1 TCGGGTT
3002513 TC-GGTT
1 TCGGGTT
3002519 TCGGGTT
1 TCGGGTT
3002526 TCGGGTT
1 TCGGGTT
*
3002533 TAGGGTT
1 TCGGGTT
*
3002540 TAGGGTT
1 TCGGGTT
*
3002547 TAGGG-T
1 TCGGGTT
*
3002553 TAGGGTT
1 TCGGGTT
3002560 TCGGGTT
1 TCGGGTT
*
3002567 TAGGG-T
1 TCGGGTT
3002573 TCGGG-T
1 TCGGGTT
*
3002579 TCATGGTT
1 TC-GGGTT
*
3002587 TAGGGTTT
1 TCGGG-TT
3002595 TCGGGTT
1 TCGGGTT
*
3002602 AT-AGGTT
1 -TCGGGTT
*
3002609 TAAGGGTT
1 T-CGGGTT
* *
3002617 TCTGATT
1 TCGGGTT
*
3002624 AATCGAAGTT
1 --TCG-GGTT
*
3002634 TCGATGTT
1 TCG-GGTT
3002642 TCGGGTT
1 TCGGGTT
*
3002649 GCGGGTT
1 TCGGGTT
3002656 GTCGGGTTT
1 -TCGGG-TT
3002665 TCGGGTT
1 TCGGGTT
*
3002672 TAGGGTT
1 TCGGGTT
*
3002679 T-AGGTT
1 TCGGGTT
*
3002685 TAGGGTGT
1 TCGGGT-T
***
3002693 AATGGTT
1 TCGGGTT
*
3002700 TAGGGTT
1 TCGGGTT
3002707 TCGGGTT
1 TCGGGTT
*
3002714 TAGGGGTT
1 T-CGGGTT
3002722 TCGGGTT
1 TCGGGTT
*
3002729 TAGGGTT
1 TCGGGTT
*
3002736 TAGAGGTTT
1 TCG-GG-TT
*
3002745 TAGGGTT
1 TCGGGTT
*
3002752 TAGGGTT
1 TCGGGTT
*
3002759 ATAGGGTT
1 -TCGGGTT
* *
3002767 TAGGGTG
1 TCGGGTT
3002774 TCGGGTTT
1 TCGGG-TT
*
3002782 TAGGGTT
1 TCGGGTT
3002789 TCGGGTT
1 TCGGGTT
*
3002796 TAGGGTTT
1 TCGGG-TT
*
3002804 TAGGGTTT
1 TCGGG-TT
3002812 TGCGGGTT
1 T-CGGGTT
*
3002820 TAGGGTT
1 TCGGGTT
*
3002827 TGGGGTT
1 TCGGGTT
*
3002834 TGGGGTT
1 TCGGGTT
*
3002841 TGGGGTT
1 TCGGGTT
3002848 T-GGGTT
1 TCGGGTT
3002854 T-GGGTT
1 TCGGGTT
*
3002860 TGGGGTT
1 TCGGGTT
*
3002867 TGGGGTT
1 TCGGGTT
*
3002874 CTGGGGTT
1 -TCGGGTT
*
3002882 TGGGGTT
1 TCGGGTT
* *
3002889 TGGGGTG
1 TCGGGTT
*
3002896 TGGGTGTT
1 TCGG-GTT
*
3002904 TGGGGTT
1 TCGGGTT
*
3002911 TGGGGTT
1 TCGGGTT
*
3002918 TGGGGTATT
1 TCGGG--TT
*
3002927 TGGGGTT
1 TCGGGTT
*
3002934 TGGGGTTT
1 TCGGG-TT
*
3002942 TGGGGTT
1 TCGGGTT
*
3002949 TGGGGTT
1 TCGGGTT
*
3002956 T-GATGTT
1 TCG-GGTT
*
3002963 TGGGGTT
1 TCGGGTT
*
3002970 TTGGGTT
1 TCGGGTT
*
3002977 TGGGGTT
1 TCGGGTT
*
3002984 TGGGGTT
1 TCGGGTT
3002991 T-GTAGGTT
1 TCG--GGTT
**
3002999 GGGGGTT
1 TCGGGTT
*
3003006 TGGGGGTT
1 T-CGGGTT
*
3003014 TGGGGTT
1 TCGGGTT
*
3003021 TGGGGTTT
1 TCGGG-TT
* **
3003029 TGGGGGG
1 TCGGGTT
*
3003036 TGGGGTT
1 TCGGGTT
*
3003043 TGGGGTTAT
1 TCGGG-T-T
* *
3003052 TAGGGGT
1 TCGGGTT
*
3003059 TGGGGTT
1 TCGGGTT
*
3003066 TGAGGGTT
1 T-CGGGTT
*
3003074 T-GGGGT
1 TCGGGTT
*
3003080 TGGGGTT
1 TCGGGTT
3003087 T-GGGATT
1 TCGGG-TT
*
3003094 TGGGGTT
1 TCGGGTT
*
3003101 ATGGGGTT
1 -TCGGGTT
*
3003109 CTGGAGGTT
1 -TCG-GGTT
*
3003118 TGGGGTAT
1 TCGGGT-T
*
3003126 ATAGGGGTT
1 -T-CGGGTT
*
3003135 TGGGAGTT
1 TCGG-GTT
* *
3003143 TGGGGGTA
1 T-CGGGTT
3003151 T-GAGGTT
1 TCG-GGTT
*
3003158 TGGGGTT
1 TCGGGTT
3003165 T-GGGTT
1 TCGGGTT
*
3003171 TGGGGTT
1 TCGGGTT
*
3003178 TAGGGGTAT
1 T-CGGGT-T
3003187 ATCGGGTT
1 -TCGGGTT
3003195 TCCGGGTT
1 T-CGGGTT
3003203 TCGGGTT
1 TCGGGTT
3003210 TCGGGTT
1 TCGGGTT
3003217 TCGGGTT
1 TCGGGTT
3003224 TCGGGTT
1 TCGGGTT
3003231 TC-GGTT
1 TCGGGTT
3003237 TCGGGTT
1 TCGGGTT
3003244 TCGGGTT
1 TCGGGTT
3003251 TCAGGGTGT
1 TC-GGGT-T
3003260 TCGGGTT
1 TCGGGTT
*
3003267 TCGGGTG
1 TCGGGTT
3003274 TCGGG-T
1 TCGGGTT
3003280 TCGGGTT
1 TCGGGTT
*
3003287 ACGGGTT
1 TCGGGTT
*
3003294 GCCGGGTTT
1 -TCGGG-TT
3003303 TCCGGGTT
1 T-CGGGTT
* *
3003311 TAGGGGT
1 TCGGGTT
3003318 TCGGGTT
1 TCGGGTT
3003325 TCGGGTT
1 TCGGGTT
3003332 TCGGG-T
1 TCGGGTT
3003338 TCGGGTT
1 TCGGGTT
**
3003345 AAGGGTT
1 TCGGGTT
3003352 TCGAGGTTT
1 TCG-GG-TT
*
3003361 TCTGGTATT
1 TC-GG-GTT
3003370 ATGCGGGATT
1 -T-CGGG-TT
*
3003380 TC-GGTA
1 TCGGGTT
3003386 TCGGGTT
1 TCGGGTT
3003393 TCGGG-T
1 TCGGGTT
3003399 TCGGG--
1 TCGGGTT
3003404 TCGGGTAT
1 TCGGGT-T
3003412 TCGGGTT
1 TCGGGTT
3003419 TC--GTT
1 TCGGGTT
3003424 TCGGGTT
1 TCGGGTT
3003431 TCGGGTT
1 TCGGGTT
3003438 TCGGG-T
1 TCGGGTT
3003444 TCGGGTT
1 TCGGGTT
3003451 TC-GGTT
1 TCGGGTT
3003457 TACGGGTT
1 T-CGGGTT
3003465 TCGGGTT
1 TCGGGTT
3003472 TCGGGTT
1 TCGGGTT
3003479 TCGAGGTT
1 TCG-GGTT
3003487 TCGGGTTT
1 TCGGG-TT
*
3003495 TC-GGTG
1 TCGGGTT
3003501 TCGGGTT
1 TCGGGTT
*
3003508 GCGGGTT
1 TCGGGTT
3003515 ATCGGGTT
1 -TCGGGTT
3003523 TC-GGTT
1 TCGGGTT
3003529 TCGGGTT
1 TCGGGTT
3003536 TCGGGTT
1 TCGGGTT
3003543 TC-GGTT
1 TCGGGTT
3003549 TCGGGTT
1 TCGGGTT
3003556 TCGGGTT
1 TCGGGTT
*
3003563 TCGGGAT
1 TCGGGTT
3003570 TC-GGTT
1 TCGGGTT
3003576 TCGGAGTT
1 TCGG-GTT
3003584 TCGGGTT
1 TCGGGTT
*
3003591 TCGGGGT
1 TCGGGTT
3003598 TCGGGTT
1 TCGGGTT
3003605 TCGGGCTT
1 TCGGG-TT
3003613 TC-GG-T
1 TCGGGTT
3003618 TCGGGTT
1 TCGGGTT
3003625 TCGGG-T
1 TCGGGTT
3003631 TCGGGTT
1 TCGGGTT
3003638 TCGAGGTT
1 TCG-GGTT
3003646 TC-GGTT
1 TCGGGTT
3003652 TCGGGTTT
1 TCGGG-TT
3003660 TCGGGTTT
1 TCGGG-TT
3003668 ATCAGGGATTT
1 -TC-GGG--TT
3003679 TCGGGTT
1 TCGGGTT
3003686 TC-GGTT
1 TCGGGTT
3003692 TC-GGTT
1 TCGGGTT
3003698 TCGGGGTT
1 TC-GGGTT
3003706 TCGAGGTT
1 TCG-GGTT
3003714 TCGGGTT
1 TCGGGTT
**
3003721 T--TTTT
1 TCGGGTT
3003726 TCGGG-T
1 TCGGGTT
3003732 TC--GTT
1 TCGGGTT
* *
3003737 TAGAGGGT
1 TCG-GGTT
3003745 TCGAGGTT
1 TCG-GGTT
3003753 TCGGGTT
1 TCGGGTT
3003760 TCGGGTT
1 TCGGGTT
3003767 GTCGGGTT
1 -TCGGGTT
3003775 TC-GG-T
1 TCGGGTT
3003780 TCGGGTT
1 TCGGGTT
*
3003787 TCGGGGT
1 TCGGGTT
3003794 TCGGGTTT
1 TCGGG-TT
3003802 TCAGGGTT
1 TC-GGGTT
3003810 TCCGGG-T
1 T-CGGGTT
3003817 TCGGGATT
1 TCGGG-TT
*
3003825 TCTGGTT
1 TCGGGTT
3003832 TCGGGTAT
1 TCGGGT-T
3003840 TCGGGTT
1 TCGGGTT
* *
3003847 GCGGGAT
1 TCGGGTT
3003854 TCGGG-T
1 TCGGGTT
3003860 TCGGG-T
1 TCGGGTT
*
3003866 TCGGTTT
1 TCGGGTT
*
3003873 TCGGTTT
1 TCGGGTT
3003880 TCGGGTT
1 TCGGGTT
3003887 TC-GGTT
1 TCGGGTT
3003893 TCGGGTT
1 TCGGGTT
3003900 TCGGGTT
1 TCGGGTT
3003907 TCGGG-T
1 TCGGGTT
3003913 TCGGGGTT
1 TC-GGGTT
3003921 TCGGG-T
1 TCGGGTT
3003927 TCGGGTT
1 TCGGGTT
3003934 TCGGGTT
1 TCGGGTT
3003941 TCGGGTAT
1 TCGGGT-T
3003949 TCGGGTTT
1 TCGGG-TT
3003957 TCGGGTT
1 TCGGGTT
3003964 TCGGGTGT
1 TCGGGT-T
*
3003972 TCGGGTA
1 TCGGGTT
3003979 TC-GGTT
1 TCGGGTT
3003985 ATACGGGTT
1 -T-CGGGTT
3003994 TCGGGTT
1 TCGGGTT
3004001 TCGGGTT
1 TCGGGTT
3004008 TCGGGTT
1 TCGGGTT
3004015 TCGGGTTT
1 TCGGG-TT
3004023 TCCGGGGTT
1 T-C-GGGTT
3004032 TCGGAGTT
1 TCGG-GTT
3004040 TCGGGTT
1 TCGGGTT
3004047 TCAGGGTT
1 TC-GGGTT
3004055 ATCGGGATT
1 -TCGGG-TT
3004064 GTCAGGGTTT
1 -TC-GGG-TT
3004074 TCGGGTT
1 TCGGGTT
*
3004081 TAGGGGTTT
1 T-CGGG-TT
3004090 TCGGGTAT
1 TCGGGT-T
3004098 T-GGGTT
1 TCGGGTT
3004104 TCGGGTT
1 TCGGGTT
3004111 TCGGGTT
1 TCGGGTT
3004118 TCGAGAGTATT
1 TCG-G-G--TT
3004129 TCGGG-T
1 TCGGGTT
*
3004135 TCGGGGT
1 TCGGGTT
3004142 TCAGGGTT
1 TC-GGGTT
3004150 TCGGGTT
1 TCGGGTT
3004157 TCAGGGTT
1 TC-GGGTT
3004165 TC-GGTAT
1 TCGGGT-T
3004172 TCGGGTTT
1 TCGGG-TT
3004180 TCCGGGTT
1 T-CGGGTT
3004188 TCGGGTT
1 TCGGGTT
3004195 TCGGGTT
1 TCGGGTT
3004202 TCGGGTATT
1 TCGGG--TT
**
3004211 TCAAGGGGC
1 TC--GGGTT
** *
3004220 AAGGATT
1 TCGGGTT
*
3004227 GCAGGGTT
1 TC-GGGTT
3004235 TCGGGTT
1 TCGGGTT
*
3004242 GCGGGTT
1 TCGGGTT
*
3004249 CTCTGGGGT
1 -TC-GGGTT
**
3004258 T-GGGGG
1 TCGGGTT
**
3004264 AAGGGTTT
1 TCGGG-TT
3004272 TCGGGTTT
1 TCGGG-TT
*
3004280 TC-GATT
1 TCGGGTT
3004286 TCGGGTT
1 TCGGGTT
3004293 ATCGGGGTTT
1 -TC-GGG-TT
3004303 TCGAGGTCT
1 TCG-GGT-T
*
3004312 TCGGTATT
1 TCGG-GTT
3004320 TCAAGGGTT
1 TC--GGGTT
3004329 TCGGGTT
1 TCGGGTT
* *
3004336 GCGGTTT
1 TCGGGTT
*
3004343 TAGGCGTT
1 TCGG-GTT
*
3004351 GCGGG-T
1 TCGGGTT
3004357 TCGAGGTTT
1 TCG-GG-TT
3004366 TCGGGTT
1 TCGGGTT
*
3004373 TCGGGGT
1 TCGGGTT
3004380 TCGGGGTT
1 TC-GGGTT
3004388 TC-GGTT
1 TCGGGTT
3004394 TCGGG-T
1 TCGGGTT
3004400 TCGGGTT
1 TCGGGTT
3004407 TCGAAGAGTT
1 TCG--G-GTT
3004417 TCGGGAATGT
1 TCGGG--T-T
3004427 TACGGGTT
1 T-CGGGTT
3004435 TCGGGTT
1 TCGGGTT
*
3004442 TC-TGTT
1 TCGGGTT
3004448 TCGGGTT
1 TCGGGTT
3004455 TCGGGTT
1 TCGGGTT
*
3004462 TCGGGTA
1 TCGGGTT
*
3004469 TCGGGTG
1 TCGGGTT
3004476 TCGGGTT
1 TCGGGTT
*
3004483 TGCGGATTT
1 T-CGG-GTT
3004492 TCGGGTT
1 TCGGGTT
3004499 TCGGGTT
1 TCGGGTT
3004506 TCGGGTTT
1 TCGGG-TT
3004514 TCGGGTT
1 TCGGGTT
3004521 TCCGGGTT
1 T-CGGGTT
3004529 TCGGGTT
1 TCGGGTT
*
3004536 GCGGGTT
1 TCGGGTT
*
3004543 TCGGTTT
1 TCGGGTT
3004550 TC-GGTT
1 TCGGGTT
3004556 TCGGGTT
1 TCGGGTT
3004563 TCGGGTT
1 TCGGGTT
*
3004570 ATAGGGGTT
1 -T-CGGGTT
3004579 T-GGGTT
1 TCGGGTT
*
3004585 TGGCGGTT
1 TCG-GGTT
*
3004593 T-GGGGT
1 TCGGGTT
*
3004599 TGGGGTT
1 TCGGGTT
3004606 T-GGG-T
1 TCGGGTT
3004611 TCGGG
1 TCGGG
3004616 GGTTTGGCGG
Statistics
Matches: 2445, Mismatches: 251, Indels: 487
0.77 0.08 0.15
Matches are distributed among these distances:
4 4 0.00
5 28 0.01
6 351 0.14
7 1357 0.56
8 495 0.20
9 146 0.06
10 48 0.02
11 16 0.01
ACGTcount: A:0.06, C:0.09, G:0.45, T:0.40
Consensus pattern (7 bp):
TCGGGTT
Found at i:3004503 original size:37 final size:37
Alignment explanation
Indices: 3003188--3004569 Score: 797
Period size: 34 Copynumber: 38.0 Consensus size: 37
3003178 TAGGGGTATA
3003188 TCGGGTTTCCGGGTT-TCGGGTTT-CGGGTTTCGGGTT
1 TCGGGTTT-CGGGTTGTCGGGTTTCCGGGTTTCGGGTT
3003224 TCGGGTTTC-GGTT-TCGGGTTT-CGGGTTTCAGGGTGT
1 TCGGGTTTCGGGTTGTCGGGTTTCCGGGTTTC-GGGT-T
*
3003260 TCGGGTTTCGGG-TGTCGGG-TT-CGGGTTACGGGTT
1 TCGGGTTTCGGGTTGTCGGGTTTCCGGGTTTCGGGTT
* * *
3003294 GCCGGGTTTTCCGGGTT-TAGGGGTT-CGGGTTTCGGGTT
1 -TCGGG-TTT-CGGGTTGTCGGGTTTCCGGGTTTCGGGTT
** *
3003332 TCGGG-TTCGGGTT-AAGGGTTT-CGAGGTTTTCTGGTATT
1 TCGGGTTTCGGGTTGTCGGGTTTCCG-GG-TTTC-GG-GTT
*
3003370 ATGCGGGATTTC-GG-TATCGGGTTT-CGGG-TTCGGG--
1 -T-CGGG-TTTCGGGTTGTCGGGTTTCCGGGTTTCGGGTT
3003404 TCGGGTATTCGGGTT-TC--GTTT-CGGGTTTCGGGTT
1 TCGGGT-TTCGGGTTGTCGGGTTTCCGGGTTTCGGGTT
*
3003438 TCGGG-TTCGGGTT-TC-GGTTTACGGGTTTCGGGTT
1 TCGGGTTTCGGGTTGTCGGGTTTCCGGGTTTCGGGTT
* *
3003472 TCGGGTTTCGAGGTT-TCGGGTTTTC-GGTGTCGGGTT
1 TCGGGTTTCG-GGTTGTCGGGTTTCCGGGTTTCGGGTT
*
3003508 GCGGGTTATCGGGTT-TC-GGTTT-CGGGTTTCGGGTT
1 TCGGGTT-TCGGGTTGTCGGGTTTCCGGGTTTCGGGTT
*
3003543 TC-GGTTTCGGGTT-TCGGGTTT-CGGGATTC-GGTT
1 TCGGGTTTCGGGTTGTCGGGTTTCCGGGTTTCGGGTT
*
3003576 TCGGAGTTTCGGGTT-TCGGGGTT-CGGGTTTCGGGCTT
1 TCGG-GTTTCGGGTTGTCGGGTTTCCGGGTTTCGGG-TT
3003613 TC-GG-TTCGGGTT-TCGGG-TT-CGGGTTTCGAGGTT
1 TCGGGTTTCGGGTTGTCGGGTTTCCGGGTTTCG-GGTT
* *
3003646 TC-GGTTTCGGGTTTTCGGGTTTATCAGGGATTTTCGGGTT
1 TCGGGTTTCGGGTTGTCGGG-TT-TCCGGG--TTTCGGGTT
3003686 TC-GGTTTC-GGTT-TCGGGGTTT-CGAGGTTTCGGGTT
1 TCGGGTTTCGGGTTGTC-GGGTTTCCG-GGTTTCGGGTT
** * *
3003721 T--TTTTTCGGG-T-TC--GTTT-AGAGGGTTCGAGGTT
1 TCGGGTTTCGGGTTGTCGGGTTTCCG-GGTTTCG-GGTT
3003753 TCGGGTTTCGGGTTGTCGGGTTT-C-GG-TTCGGGTT
1 TCGGGTTTCGGGTTGTCGGGTTTCCGGGTTTCGGGTT
* *
3003787 TCGGGGTTCGGGTTTTCAGGGTTTCCGGG-TTCGGGATT
1 TCGGGTTTCGGGTTGTC-GGGTTTCCGGGTTTCGGG-TT
* * *
3003825 TCTGGTTTCGGGTAT-TCGGG-TTGCGGGATTCGGG-T
1 TCGGGTTTCGGGT-TGTCGGGTTTCCGGGTTTCGGGTT
* *
3003860 TCGGG-TTC-GGTTTTC-GGTTTTCGGGTTTC-GGTT
1 TCGGGTTTCGGGTTGTCGGGTTTCCGGGTTTCGGGTT
*
3003893 TCGGGTTTCGGGTT-TCGGG-TTCGGGGTTTCGGG-T
1 TCGGGTTTCGGGTTGTCGGGTTTCCGGGTTTCGGGTT
3003927 TCGGGTTTCGGGTT-TCGGGTATT-CGGGTTTTCGGGTT
1 TCGGGTTTCGGGTTGTCGGGT-TTCCGGG-TTTCGGGTT
* *
3003964 TCGGGTGTTCGGG-TATC-GGTTATACGGGTTTCGGGTT
1 TCGGGT-TTCGGGTTGTCGGGTT-TCCGGGTTTCGGGTT
3004001 TCGGGTTTCGGGTT-TCGGGTTTTCCGGGGTTTCGGAGTT
1 TCGGGTTTCGGGTTGTCGGG-TTTCC-GGGTTTCGG-GTT
* *
3004040 TCGGGTTTCAGGGTTATCGGGATTGTCAGGGTTTTCGGGTT
1 TCGGGTTTC-GGGTTGTCGGG-TT-TCCGGG-TTTCGGGTT
*
3004081 TAGGGGTTTTCGGGTAT-T-GGGTTT-CGGGTTTCGGGTT
1 T-CGGG-TTTCGGGT-TGTCGGGTTTCCGGGTTTCGGGTT
* *
3004118 TCGAGAGTATTTCGGG-T-TCGGGGTTCAGGGTTTCGGGTT
1 TCG-G-G--TTTCGGGTTGTCGGGTTTCCGGGTTTCGGGTT
3004157 TCAGGGTTTC-GGTAT-TCGGGTTTTCCGGGTTTCGGGTT
1 TC-GGGTTTCGGGT-TGTCGGG-TTTCCGGGTTTCGGGTT
* * * * *
3004195 TCGGGTTTCGGGTATTTCAAGGG--GCAAGGATTGCAGGGTT
1 TCGGGTTTCGGGT-TGTC--GGGTTTC-CGGGTTTC-GGGTT
* * * ****
3004235 TCGGGTTGCGGGTTCTCTGGGGTT--GGGGGAAGGGTTT
1 TCGGGTTTCGGGTTGTC-GGGTTTCCGGGTTTCGGG-TT
* *
3004272 TCGGGTTTTC-GATT-TCGGGTTATCGGGGTTTTCGAGGTCT
1 TCGGG-TTTCGGGTTGTCGGGTT-TCCGGG-TTTCG-GGT-T
* * * *
3004312 TCGGTATTTCAAGGGTT-TCGGG-TTGCGGTTTTAGGCGTT
1 TCGG-GTTTC--GGGTTGTCGGGTTTCCGGGTTTCGG-GTT
* * *
3004351 GCGGG-TTCGAGGTTTTCGGGTTT-CGGGGTTCGGGGTT
1 TCGGGTTTCG-GGTTGTCGGGTTTCCGGGTTTC-GGGTT
3004388 TC-GGTTTCGGG-T-TCGGGTTT-CGAAGAGTTTCGGGAATGT
1 TCGGGTTTCGGGTTGTCGGGTTTCCG--G-GTTTCGGG--T-T
*
3004427 TACGGGTTTCGGGTT-TC-TGTTT-CGGGTTTCGGGTT
1 T-CGGGTTTCGGGTTGTCGGGTTTCCGGGTTTCGGGTT
* * *
3004462 TCGGGTATCGGG-TGTCGGGTTTGCGGATTTTCGGGTT
1 TCGGGTTTCGGGTTGTCGGGTTTCCGG-GTTTCGGGTT
*
3004499 TCGGGTTTCGGGTTTTCGGGTTTCCGGGTTTCGGGTT
1 TCGGGTTTCGGGTTGTCGGGTTTCCGGGTTTCGGGTT
* *
3004536 GCGGGTTTC-GGTTTTC-GGTTT-CGGGTTTCGGGTT
1 TCGGGTTTCGGGTTGTCGGGTTTCCGGGTTTCGGGTT
3004570 ATAGGGGTTT
Statistics
Matches: 1117, Mismatches: 92, Indels: 276
0.75 0.06 0.19
Matches are distributed among these distances:
31 21 0.02
32 33 0.03
33 62 0.06
34 205 0.18
35 125 0.11
36 130 0.12
37 189 0.17
38 134 0.12
39 67 0.06
40 62 0.06
41 53 0.05
42 23 0.02
43 13 0.01
ACGTcount: A:0.05, C:0.14, G:0.41, T:0.40
Consensus pattern (37 bp):
TCGGGTTTCGGGTTGTCGGGTTTCCGGGTTTCGGGTT
Found at i:3004606 original size:57 final size:57
Alignment explanation
Indices: 3003160--3004585 Score: 561
Period size: 57 Copynumber: 24.6 Consensus size: 57
3003150 ATGAGGTTTG
* * * * *
3003160 GGGTTT-GGGTTTGGGGTTTAGGGGTATATCGGGTTTCCGGGTTTCGGGTTTCGGGTTTC
1 GGGTTTCGGGTTTCGGGTTTACGGGT-T-TCGGGTTT-CGGGTTGCGGGTTGCGGTTTTC
* * * *
3003219 GGGTTTCGGGTTTC-GGTTT-CGGGTTTCGGGTTTCAGGGTGTTCGGGTTTCGGGTGTC
1 GGGTTTCGGGTTTCGGGTTTACGGGTTTCGGGTTTC-GGGT-TGCGGGTTGCGGTTTTC
* ** * * *
3003276 GGG-TTCGGGTTACGGGTTGCCGGGTTTTCCGGGTTTAGGGGTT-CGGGTTTCGGGTTTC
1 GGGTTTCGGGTTTCGGGTTTACGGG-TTT-CGGGTTT-CGGGTTGCGGGTTGCGGTTTTC
** * * *
3003334 GGG-TTCGGGTTAAGGGTTT-CGAGGTTTTCTGGTATTATGCGGGATTTC-GGTAT-CGGGTTTC
1 GGGTTTCGGGTTTCGGGTTTACG-GG-TTTC-GG-GTT-T-CGGG-TTGCGGGT-TGCGGTTTTC
* * *
3003395 GGG-TTCGGG--TCGGGTATT-CGGGTTTC--GTTTCGGGTTTCGGGTTTCGG-GTTC
1 GGGTTTCGGGTTTCGGGT-TTACGGGTTTCGGGTTTCGGGTTGCGGGTTGCGGTTTTC
* * *
3003446 GGGTTTC-GGTTTACGGGTTT-CGGGTTTCGGGTTTCGAGGTTTCGGGTTTTCGG-TGTC
1 GGGTTTCGGGTTT-CGGGTTTACGGGTTTCGGGTTTCG-GGTTGCGGG-TTGCGGTTTTC
* * * *
3003503 GGGTTGCGGGTTATCGGGTTT-C-GGTTTCGGGTTTCGGGTTTC-GGTTTCGGGTTTC
1 GGGTTTCGGGTT-TCGGGTTTACGGGTTTCGGGTTTCGGGTTGCGGGTTGCGGTTTTC
* * *
3003558 GGGTTTCGGGATTC-GGTTT-CGGAGTTTCGGGTTTCGGGGTT-CGGGTTTCGGGCTTTC
1 GGGTTTCGGGTTTCGGGTTTACGG-GTTTCGGGTTTC-GGGTTGCGGGTTGC-GGTTTTC
* *
3003615 -GG-TTCGGGTTTCGGG-TT-CGGGTTTCGAGGTTTC-GGTTTCGGGTTTTCGGGTTTATC
1 GGGTTTCGGGTTTCGGGTTTACGGGTTTCG-GGTTTCGGGTTGCGGG-TTGC-GGTTT-TC
* **
3003671 AGGGATTTTCGGGTTTC-GGTTT-C-GGTTTCGGGGTTTCGAGGTTTCGGGTT--TTTTTTC
1 -GGG--TTTCGGGTTTCGGGTTTACGGGTTTC-GGGTTTCG-GGTTGCGGGTTGCGGTTTTC
* * *
3003728 GGG-TTC--GTTTAGAGGGTT-CGAGGTTTCGGGTTTCGGGTTGTCGGGTTTCGG--TTC
1 GGGTTTCGGGTTTCG-GGTTTACG-GGTTTCGGGTTTCGGGTTG-CGGGTTGCGGTTTTC
* * * * * *
3003782 GGGTTTCGGGGTTCGGGTTTTCAGGGTTTCCGGG-TTCGGGATTTCTGGTTTCGGGTATTC
1 GGGTTTCGGGTTTCGGGTTTAC-GGGTTT-CGGGTTTCGGG-TTGCGGGTTGC-GGTTTTC
* * * * * *
3003842 GGGTTGCGGGATTCGGG-TT-CGGG-TTCGGTTTTCGGTTTTCGGGTTTCGG-TTTC
1 GGGTTTCGGGTTTCGGGTTTACGGGTTTCGGGTTTCGGGTTGCGGGTTGCGGTTTTC
* * *
3003895 GGGTTTCGGGTTTCGGG-TT-CGGGGTTTCGGG-TTCGGGTTTCGGGTTTCGGGTATTC
1 GGGTTTCGGGTTTCGGGTTTAC-GGGTTTCGGGTTTCGGGTTGCGGGTTGC-GGTTTTC
* * * *
3003951 GGGTTTTCGGGTTTCGGGTGTT-CGGGTATC-GGTTATACGGGTTTCGGGTTTCGGGTTTC
1 GGG-TTTCGGGTTTCGGGT-TTACGGGTTTCGGGTT-T-CGGGTTGCGGGTTGCGGTTTTC
*
3004010 GGGTTTCGGGTTTTCCGGGGTTT-CGGAGTTTCGGGTTTCAGGGTTATCGGGATTGTCAGGGTTT
1 GGGTTTCGGG-TTT-C-GGGTTTACGG-GTTTCGGGTTTC-GGGTT-GCGGG-TTG-C--GGTTT
3004074 TC
56 TC
* * * *
3004076 GGGTTTAGGGGTTTTCGGGTATT--GGGTTTCGGGTTTCGGGTTTCGAGAGTATTTCGG-GTTC
1 GGGTTT-CGGG-TTTCGGGT-TTACGGGTTTCGGGTTTCGGGTTGCG-G-G--TTGCGGTTTTC
* * * *
3004137 GGGGTTCAGGGTTTCGGGTTT-CAGGGTTTC-GGTATTCGGGTTTTCCGGGTTTCGGGTTTC
1 GGGTTTC-GGGTTTCGGGTTTAC-GGGTTTCGGGT-TTCGGG--TTGCGGGTTGCGGTTTTC
** * * * * **
3004197 GGGTTTCGGGTATTTCAAGGG-GCAAGGATTGCAGGGTTTCGGGTTGCGGGTTCTCTGGGGTT-
1 GGGTTTCGGG--TTTC--GGGTTTACGGGTTTC-GGGTTTCGGGTTGCGGGTT-GC-GGTTTTC
**** * * * *
3004259 GGGGGAAGGGTTTTCGGGTTTTC-GATTTCGGGTTATCGGGGTTTTCGAGGTCTTCGGTATTTC
1 GGGTTTCGGG-TTTCGGGTTTACGGGTTTCGGGTT-TC-GGG-TTGCG-GGT-TGCGGT-TTTC
* * * * * **
3004322 AAGGGTTTCGGGTTGCGGTTTTA-GGCGTTGCGGG-TTCGAGGTTTTCGGGTTTCGGGGTTC
1 --GGGTTTCGGGTTTCGGGTTTACGG-GTTTCGGGTTTCG-GG-TTGCGGGTTGCGGTTTTC
* * *
3004382 GGGGTTTC-GGTTTCGGG-TT-CGGGTTTCGAAGAGTTTCGGGAAT----GTTACGGGTTTC
1 -GGGTTTCGGGTTTCGGGTTTACGGGTTTCG--G-GTTTCGGG-TTGCGGGTTGCGGTTTTC
* *
3004437 GGGTTTC-TGTTTCGGGTTT-CGGGTTTCGGGTATCGGG-TGTCGGGTTTGCGGATTTTC
1 GGGTTTCGGGTTTCGGGTTTACGGGTTTCGGGTTTCGGGTTG-CGGG-TTGCGG-TTTTC
* *
3004494 GGGTTTCGGGTTTCGGGTTTTCGGGTTTCCGGGTTTCGGGTTGCGGGTTTCGGTTTTC
1 GGGTTTCGGGTTTCGGGTTTACGGGTTT-CGGGTTTCGGGTTGCGGGTTGCGGTTTTC
*
3004552 -GGTTTCGGGTTTCGGGTTATAGGGGTTT-GGGTTT
1 GGGTTTCGGGTTTCGGGTT-TACGGGTTTCGGGTTT
3004586 GGCGGTTTGG
Statistics
Matches: 1118, Mismatches: 110, Indels: 281
0.74 0.07 0.19
Matches are distributed among these distances:
50 1 0.00
51 17 0.02
52 20 0.02
53 56 0.05
54 82 0.07
55 115 0.10
56 89 0.08
57 138 0.12
58 128 0.11
59 85 0.08
60 123 0.11
61 106 0.09
62 50 0.04
63 37 0.03
64 28 0.03
65 21 0.02
66 15 0.01
67 7 0.01
ACGTcount: A:0.05, C:0.13, G:0.41, T:0.40
Consensus pattern (57 bp):
GGGTTTCGGGTTTCGGGTTTACGGGTTTCGGGTTTCGGGTTGCGGGTTGCGGTTTTC
Found at i:3004665 original size:9 final size:8
Alignment explanation
Indices: 3004565--3004703 Score: 81
Period size: 8 Copynumber: 18.5 Consensus size: 8
3004555 TTCGGGTTTC
3004565 GGGTTATAG
1 GGGTTAT-G
3004574 GGGTT-T-
1 GGGTTATG
3004580 GGGTT-TG
1 GGGTTATG
3004587 GCGGTT-TG
1 G-GGTTATG
3004595 GGG-T-TG
1 GGGTTATG
3004601 GGGTT-T-
1 GGGTTATG
**
3004607 GGGTTCGG
1 GGGTTATG
3004615 GGGTT-TG
1 GGGTTATG
3004622 GCGGTT-TG
1 G-GGTTATG
3004630 GGGTT-TG
1 GGGTTATG
*
3004637 GGGTTTTG
1 GGGTTATG
*
3004645 GGGTTTTG
1 GGGTTATG
3004653 GGGTATATG
1 GGGT-TATG
3004662 GGGTTATG
1 GGGTTATG
3004670 GGGTT-TG
1 GGGTTATG
3004677 GGGTT-TG
1 GGGTTATG
* *
3004684 AGGGTCATT
1 -GGGTTATG
3004693 GGGTT-TG
1 GGGTTATG
3004700 GGGT
1 GGGT
3004704 CTTGGAGGAT
Statistics
Matches: 113, Mismatches: 7, Indels: 22
0.80 0.05 0.15
Matches are distributed among these distances:
6 17 0.15
7 32 0.28
8 51 0.45
9 13 0.12
ACGTcount: A:0.05, C:0.03, G:0.53, T:0.40
Consensus pattern (8 bp):
GGGTTATG
Found at i:3005168 original size:17 final size:14
Alignment explanation
Indices: 3004494--3005787 Score: 630
Period size: 15 Copynumber: 84.9 Consensus size: 14
3004484 GCGGATTTTC
*
3004494 GGGTTTCGGGTTTCG
1 GGGTTTGGGGTTT-G
* * *
3004509 GGTTTTCGGGTTTCC
1 GGGTTTGGGGTTT-G
*
3004524 GGGTTTCGGG-TTG
1 GGGTTTGGGGTTTG
* *
3004537 CGGGTTT-CGGTTTT
1 -GGGTTTGGGGTTTG
* * *
3004551 CGGTTTCGGGTTTC
1 GGGTTTGGGGTTTG
3004565 GGGTTATAGGGGTTT-
1 GGGTT-T-GGGGTTTG
3004580 GGGTTTGGCGGTTTG
1 GGGTTTGG-GGTTTG
3004595 GGG-TTGGGGTTT-
1 GGGTTTGGGGTTTG
*
3004607 GGGTTCGGGGGTTTG
1 GGGTT-TGGGGTTTG
3004622 GCGGTTTGGGGTTTG
1 G-GGTTTGGGGTTTG
3004637 GGGTTTTGGGGTTTTG
1 GGG-TTTGGGG-TTTG
3004653 GGGTATATGGGGTTATG
1 GGGT-T-TGGGGTT-TG
3004670 GGGTTTGGGGTTTG
1 GGGTTTGGGGTTTG
3004684 AGGGTCATT-GGGTTTG
1 -GGGT--TTGGGGTTTG
3004700 GGGTCTTGGAGGATTTG
1 GGGT-TTGG-GG-TTTG
3004717 GGGATTTGGCGGGTTTAGG
1 GGG-TTT-G-GGGTTT--G
3004736 GGAGATGTTGGGGTTTG
1 GG-G-T-TTGGGGTTTG
3004753 GGAGTTTGGGGTTTG
1 GG-GTTTGGGGTTTG
3004768 GGGTTTGGGGTTACTAATGG
1 GGGTTTGGGG-T--T--T-G
3004788 GGAGTTGATAGGGGATTTG
1 GG-GTT--T-GGGG-TTTG
3004807 GGGTTTGCGGGTATTAG
1 GGGTTTG-GGGT-TT-G
*
3004824 GAGGTGTGGGGGTTTG
1 G-GGT-TTGGGGTTTG
3004840 GGGTTT-GGGTTTG
1 GGGTTTGGGGTTTG
3004853 CGAGGTTTAGGGGTTTG
1 -G-GGTTT-GGGGTTTG
*
3004870 GAGGATT-GGGTTATG
1 G-GGTTTGGGGTT-TG
3004885 GGGATTT-GGG-TTG
1 GGG-TTTGGGGTTTG
*
3004898 AGGGTTTTGGCGTTTG
1 -GGG-TTTGGGGTTTG
3004914 GGGTTTGAGGGTTTTG
1 GGGTTTG-GGG-TTTG
3004930 GGGTTTGGGG-TTG
1 GGGTTTGGGGTTTG
3004943 GGGTTTGGGG-TT-
1 GGGTTTGGGGTTTG
*
3004955 -GGTTAGAGGGTTT-
1 GGGTTTG-GGGTTTG
*
3004968 GGGTATTTGGGTTTCG
1 GGGT-TTGGGGTTT-G
3004984 GGGATTTTGGGGTTTG
1 GGG--TTTGGGGTTTG
*
3005000 AGG-TTGAGGGTTTTGG
1 GGGTTTG-GGG-TTT-G
*
3005016 GGTGTTTGGGATTATTTAG
1 GG-GTTTGGG---GTTT-G
3005035 GGGTTTGGGGTTTG
1 GGGTTTGGGGTTTG
*
3005049 GGGTTTTGGG-TTG
1 GGGTTTGGGGTTTG
*
3005062 GGGTTTGGGGTGTCG
1 GGGTTTGGGGT-TTG
*
3005077 GGGTTGGGGGTTTTG
1 GGGTTTGGGG-TTTG
*
3005092 GGAAGTATTGGGG-GTG
1 GG--GT-TTGGGGTTTG
3005108 GGGTTTGGGGTTTG
1 GGGTTTGGGGTTTG
*
3005122 GGG-TTGGGGTTTC
1 GGGTTTGGGGTTTG
3005135 GGGTTTGGGGTTTG
1 GGGTTTGGGGTTTG
3005149 GGGTTTGGAGGTACTTG
1 GGGTTTGG-GGT--TTG
*
3005166 GGGTTTGGGGTTTTT
1 GGGTTTGGGG-TTTG
* *
3005181 GGGATTGGGGTTTT
1 GGGTTTGGGGTTTG
3005195 GGGTTTGGGGGTAATTGTCG
1 GGGTTT-GGGG---TT-T-G
*
3005215 GGAGTTTATGGGTTTG
1 GG-GTTT-GGGGTTTG
*
3005231 GGGTTGGGGGTTTG
1 GGGTTTGGGGTTTG
3005245 GGGTTTGGGGTATTAG
1 GGGTTTGGGGT-TT-G
* *
3005261 GGGATT-GCGTTTG
1 GGGTTTGGGGTTTG
*
3005274 GTGTTTGGGGATTTG
1 GGGTTTGGGG-TTTG
3005289 GGGTTT-GGGTTTG
1 GGGTTTGGGGTTTG
3005302 GGCAG-TTGGGGTTTG
1 GG--GTTTGGGGTTTG
3005317 GGGTTTTTGGGGTTT-
1 GGG--TTTGGGGTTTG
3005332 GGGTTTGAGAGGTTT-
1 GGGTTTG-G-GGTTTG
3005347 GGGTTT--GGTATTG
1 GGGTTTGGGGT-TTG
3005360 GGGTTATGGGGATTTG
1 GGGTT-TGGGG-TTTG
3005376 GGGCTTTGGGGTTTGG
1 GGG-TTTGGGGTTT-G
3005392 CGGGTTT-GGGTTTG
1 -GGGTTTGGGGTTTG
3005406 GGGATTTGAGGGTTTG
1 GGG-TTTG-GGGTTTG
3005422 GGGTCTTGGGGTTCTTG
1 GGGT-TTGGGG-T-TTG
3005439 GCGGTTTGGGG-TTG
1 G-GGTTTGGGGTTTG
3005453 CGGGTATTGGGGTTTG
1 -GGGT-TTGGGGTTTG
3005469 GGGTTTGGGAGTTTG
1 GGGTTTGGG-GTTTG
3005484 GGGACTTTAAGGAGGTTTG
1 GGG--TTT--GG-GGTTTG
3005503 GGGTTT-GGGTTT-
1 GGGTTTGGGGTTTG
*
3005515 -GGTCTTAGGGTTTG
1 GGGT-TTGGGGTTTG
*
3005529 GGGTATTGGGGTTTCTC
1 GGGT-TTGGGG-TT-TG
* *
3005546 GGGTATT-GGGTGTA
1 GGGT-TTGGGGTTTG
*
3005560 GGGTCTTGGGGTATG
1 GGGT-TTGGGGTTTG
*
3005575 GGGGTTGGGG-TTG
1 GGGTTTGGGGTTTG
*
3005588 GACGTTTACCAAGGGGTTTTG
1 G-GGTTT-----GGGG-TTTG
*
3005609 GGGAGTTGGGGTTTG
1 GGG-TTTGGGGTTTG
3005624 GGG-TTGGGGTCTT-
1 GGGTTTGGGGT-TTG
*
3005637 GGGTTTGCGGTTT-
1 GGGTTTGGGGTTTG
3005650 GGGTTATGAGGGATTTG
1 GGGTT-TG-GGG-TTTG
*
3005667 GGGTTTATAGGGGTTTTT
1 GGG-TT-T-GGGG-TTTG
3005685 GGGTTTGGGGTTTG
1 GGGTTTGGGGTTTG
3005699 GGGTTTGGGGTATTTG
1 GGGTTTGGGG--TTTG
* **
3005715 GGG-TTGAGGTAGG
1 GGGTTTGGGGTTTG
*
3005728 GGTGTTTGGGCTTTG
1 GG-GTTTGGGGTTTG
3005743 GGG-TTGGGGTATTG
1 GGGTTTGGGGT-TTG
3005757 GGGTTTGGGAGTTTTG
1 GGGTTTGGG-G-TTTG
3005773 GAGGTTTCGGGGTTT
1 G-GGTTT-GGGGTTT
3005788 ATAGGGGTAT
Statistics
Matches: 1035, Mismatches: 83, Indels: 321
0.72 0.06 0.22
Matches are distributed among these distances:
11 11 0.01
12 10 0.01
13 139 0.13
14 216 0.21
15 267 0.26
16 154 0.15
17 110 0.11
18 53 0.05
19 38 0.04
20 12 0.01
21 18 0.02
22 1 0.00
23 1 0.00
24 5 0.00
ACGTcount: A:0.07, C:0.04, G:0.50, T:0.39
Consensus pattern (14 bp):
GGGTTTGGGGTTTG
Found at i:3005693 original size:6 final size:7
Alignment explanation
Indices: 3001672--3005787 Score: 1173
Period size: 7 Copynumber: 561.0 Consensus size: 7
3001662 ATCGGGGATC
*
3001672 GGGGTTC
1 GGGGTTT
3001679 GGGGTTT
1 GGGGTTT
*
3001686 CAGGGTTT
1 -GGGGTTT
3001694 CGGGGTTT
1 -GGGGTTT
3001702 -GGGTTT
1 GGGGTTT
* *
3001708 CGGGTCTC
1 GGGGT-TT
*
3001716 GGGTTTT
1 GGGGTTT
3001723 GGGG-TT
1 GGGGTTT
* *
3001729 CGGGTCT
1 GGGGTTT
* *
3001736 CGGGTCTC
1 GGGGT-TT
*
3001744 GAGGTTT
1 GGGGTTT
3001751 GGGG-TT
1 GGGGTTT
* *
3001757 CGGGTTC
1 GGGGTTT
*
3001764 GGGGTTC
1 GGGGTTT
*
3001771 GGGGGTT
1 GGGGTTT
*
3001778 CGGGTTT
1 GGGGTTT
*
3001785 TGGGTTT
1 GGGGTTT
*
3001792 CGGGGTTC
1 -GGGGTTT
*
3001800 GAGGTTT
1 GGGGTTT
*
3001807 CGGGTTT
1 GGGGTTT
*
3001814 CGGGTTT
1 GGGGTTT
* *
3001821 CGGGTCT
1 GGGGTTT
* *
3001828 -AGGTCT
1 GGGGTTT
*
3001834 AGGGTTT
1 GGGGTTT
*
3001841 -AGGTTT
1 GGGGTTT
* *
3001847 AGGGTCT
1 GGGGTTT
*
3001854 AGGGTCTT
1 GGGGT-TT
*
3001862 -GGGTTC
1 GGGGTTT
*
3001868 GGGGTTC
1 GGGGTTT
*
3001875 GGGGTTC
1 GGGGTTT
3001882 GGGGTTTT
1 GGGG-TTT
* *
3001890 AGGGTTC
1 GGGGTTT
*
3001897 GGGGTTC
1 GGGGTTT
*
3001904 GGGGTTC
1 GGGGTTT
*
3001911 GGGGTTC
1 GGGGTTT
*
3001918 GGGGTTC
1 GGGGTTT
3001925 GGGG-TT
1 GGGGTTT
*
3001931 CGGGTTT
1 GGGGTTT
3001938 GGGGTTT
1 GGGGTTT
3001945 GGGGTTT
1 GGGGTTT
3001952 GGGGTTT
1 GGGGTTT
*
3001959 AGGGTTT
1 GGGGTTT
3001966 GGGGTTT
1 GGGGTTT
3001973 GGGGTTT
1 GGGGTTT
3001980 GGGGTTT
1 GGGGTTT
3001987 GGGGTTT
1 GGGGTTT
3001994 GGGGTTT
1 GGGGTTT
3002001 GGGGTTT
1 GGGGTTT
*
3002008 AGGGTTT
1 GGGGTTT
*
3002015 AGGGTTT
1 GGGGTTT
**
3002022 AAGGTTT
1 GGGGTTT
*
3002029 AGGGTTT
1 GGGGTTT
*
3002036 AGGGTTT
1 GGGGTTT
*
3002043 AGGGTTT
1 GGGGTTT
** *
3002050 AAGGTCT
1 GGGGTTT
***
3002057 AAAGTTT
1 GGGGTTT
*
3002064 AGGGTTT
1 GGGGTTT
* * *
3002071 GAGATTC
1 GGGGTTT
*** *
3002078 AATGTAT
1 GGGGTTT
** *
3002085 ACGATTT
1 GGGGTTT
* * *
3002092 AGGATTCA
1 GGGGTT-T
3002100 GGGG-TT
1 GGGGTTT
*
3002106 AGGGTTT
1 GGGGTTT
* * *
3002113 AGGATTCA
1 GGGGTT-T
* *
3002121 AGGTTTT
1 GGGGTTT
* *
3002128 TGGGTTC
1 GGGGTTT
3002135 GGGGTTT
1 GGGGTTT
3002142 GGGGTTT
1 GGGGTTT
3002149 GGGGTTT
1 GGGGTTT
*
3002156 GGGGGTT
1 GGGGTTT
*
3002163 GGTTGGGTT
1 GG--GGTTT
3002172 GGGG-TT
1 GGGGTTT
3002178 GGGGTTT
1 GGGGTTT
3002185 GGGGTTT
1 GGGGTTT
3002192 -GGGTTT
1 GGGGTTT
3002198 GGGGTTT
1 GGGGTTT
3002205 GGGGTTT
1 GGGGTTT
3002212 -GGGTTT
1 GGGGTTT
3002218 GGGGTTT
1 GGGGTTT
3002225 GGGGTTT
1 GGGGTTT
3002232 GGGGTTT
1 GGGGTTT
3002239 GGGGTTT
1 GGGGTTT
3002246 GGGGTTT
1 GGGGTTT
3002253 GGGGTTT
1 GGGGTTT
3002260 GGGGTGGGTT
1 GGGGT---TT
3002270 GGGGTTT
1 GGGGTTT
3002277 GGGGTTT
1 GGGGTTT
3002284 GGGGTTT
1 GGGGTTT
3002291 -GGGTTT
1 GGGGTTT
3002297 -GGGTTT
1 GGGGTTT
3002303 GGGGTTT
1 GGGGTTT
3002310 GGGGTTT
1 GGGGTTT
3002317 GGGGTTT
1 GGGGTTT
3002324 GGGG-TT
1 GGGGTTT
*
3002330 GGGGGTT
1 GGGGTTT
3002337 -GGGTTT
1 GGGGTTT
3002343 -GGGTTT
1 GGGGTTT
3002349 GGGGTTT
1 GGGGTTT
3002356 GGGGTTT
1 GGGGTTT
3002363 GGGG-TT
1 GGGGTTT
3002369 -GGGTTT
1 GGGGTTT
3002375 GGGGTTTT
1 GGGG-TTT
3002383 GGGG-TT
1 GGGGTTT
3002389 GGGG-TT
1 GGGGTTT
3002395 GAGGGTTT
1 G-GGGTTT
3002403 GGGAGTTT
1 GGG-GTTT
3002411 GGGGTTT
1 GGGGTTT
3002418 GGGGTTTCT
1 GGGG-TT-T
*
3002427 GGGGTTG
1 GGGGTTT
3002434 GGGGTTT
1 GGGGTTT
3002441 GGGGTTT
1 GGGGTTT
3002448 -GGGTTT
1 GGGGTTT
3002454 GGGG-TT
1 GGGGTTT
*
3002460 GGGGGTT
1 GGGGTTT
3002467 GGGGTTT
1 GGGGTTT
*
3002474 ---TTTT
1 GGGGTTT
*
3002478 CGGG-TT
1 GGGGTTT
*
3002484 GTCGGTTT
1 G-GGGTTT
*
3002492 CGGGTTT
1 GGGGTTT
* *
3002499 CGGGTGGT
1 GGGGT-TT
* *
3002507 CGGATTT
1 GGGGTTT
*
3002514 -CGGTTT
1 GGGGTTT
*
3002520 CGGGTTT
1 GGGGTTT
*
3002527 CGGGTTT
1 GGGGTTT
*
3002534 AGGGTTT
1 GGGGTTT
*
3002541 AGGGTTT
1 GGGGTTT
*
3002548 AGGG-TT
1 GGGGTTT
*
3002554 AGGGTTT
1 GGGGTTT
*
3002561 CGGGTTT
1 GGGGTTT
*
3002568 AGGG-TT
1 GGGGTTT
* *
3002574 CGGGTTC
1 GGGGTTT
**
3002581 ATGGTTT
1 GGGGTTT
*
3002588 AGGGTTTT
1 -GGGGTTT
*
3002596 CGGGTTAT
1 GGGGTT-T
*
3002604 -AGGTTT
1 GGGGTTT
*
3002610 AAGGGTTT
1 -GGGGTTT
** *
3002618 CTGATTAAT
1 GGGGTT--T
**
3002627 CGAAGTTT
1 -GGGGTTT
**
3002635 CGATGTTT
1 -GGGGTTT
*
3002643 CGGG-TT
1 GGGGTTT
3002649 GCGGGTTGT
1 G-GGGTT-T
*
3002658 CGGGTTTT
1 -GGGGTTT
*
3002666 CGGGTTT
1 GGGGTTT
*
3002673 AGGGTTT
1 GGGGTTT
*
3002680 -AGGTTT
1 GGGGTTT
* *
3002686 AGGGTGTA
1 GGGGT-TT
**
3002694 ATGGTTT
1 GGGGTTT
*
3002701 AGGGTTT
1 GGGGTTT
*
3002708 CGGGTTT
1 GGGGTTT
3002715 AGGGGTTT
1 -GGGGTTT
*
3002723 CGGGTTT
1 GGGGTTT
*
3002730 AGGGTTT
1 GGGGTTT
*
3002737 AGAGGTTTT
1 -G-GGGTTT
*
3002746 AGGGTTT
1 GGGGTTT
*
3002753 AGGGTTAT
1 GGGGTT-T
*
3002761 AGGGTTT
1 GGGGTTT
* *
3002768 AGGGTGTC
1 GGGGT-TT
*
3002776 GGGTTTT
1 GGGGTTT
*
3002783 AGGGTTT
1 GGGGTTT
*
3002790 CGGGTTT
1 GGGGTTT
*
3002797 AGGGTTTT
1 -GGGGTTT
*
3002805 AGGGTTTT
1 -GGGGTTT
3002813 GCGGGTTT
1 G-GGGTTT
*
3002821 AGGGTTT
1 GGGGTTT
3002828 GGGGTTT
1 GGGGTTT
3002835 GGGGTTT
1 GGGGTTT
3002842 GGGGTTT
1 GGGGTTT
3002849 -GGGTTT
1 GGGGTTT
3002855 -GGGTTT
1 GGGGTTT
3002861 GGGGTTT
1 GGGGTTT
3002868 GGGGTTCT
1 GGGGTT-T
3002876 GGGGTTT
1 GGGGTTT
3002883 GGGGTTT
1 GGGGTTT
*
3002890 GGGGTGT
1 GGGGTTT
3002897 GGGTGTTT
1 GGG-GTTT
3002905 GGGGTTT
1 GGGGTTT
3002912 GGGGTTT
1 GGGGTTT
3002919 GGGGTATTT
1 GGGG--TTT
3002928 GGGGTTT
1 GGGGTTT
3002935 GGGGTTTT
1 GGGG-TTT
3002943 GGGGTTT
1 GGGGTTT
3002950 GGGGTTT
1 GGGGTTT
**
3002957 GATGTTT
1 GGGGTTT
3002964 GGGGTTT
1 GGGGTTT
*
3002971 TGGGTTT
1 GGGGTTT
3002978 GGGGTTT
1 GGGGTTT
3002985 GGGGTTT
1 GGGGTTT
* *
3002992 GTAGGTTG
1 G-GGGTTT
3003000 GGGGTTT
1 GGGGTTT
3003007 GGGGGTTT
1 -GGGGTTT
3003015 GGGGTTT
1 GGGGTTT
3003022 GGGGTTTT
1 GGGG-TTT
**
3003030 GGGGGGT
1 GGGGTTT
3003037 GGGGTTT
1 GGGGTTT
3003044 GGGGTTATT
1 GGGG-T-TT
3003053 AGGGG-TT
1 -GGGGTTT
3003060 GGGGTTT
1 GGGGTTT
3003067 GAGGGTTT
1 G-GGGTTT
3003075 GGGG-TT
1 GGGGTTT
3003081 GGGGTTT
1 GGGGTTT
*
3003088 GGGATTT
1 GGGGTTT
3003095 GGGGTTAT
1 GGGGTT-T
3003103 GGGGTTCT
1 GGGGTT-T
3003111 GGAGGTTT
1 GG-GGTTT
3003119 GGGGTATAT
1 GGGGT-T-T
3003128 AGGGGTTT
1 -GGGGTTT
3003136 GGGAGTTT
1 GGG-GTTT
*
3003144 GGGGGTAT
1 -GGGGTTT
*
3003152 GAGGTTT
1 GGGGTTT
3003159 GGGGTTT
1 GGGGTTT
3003166 -GGGTTT
1 GGGGTTT
3003172 GGGGTTT
1 GGGGTTT
3003179 AGGGGTATAT
1 -GGGGT-T-T
*
3003189 CGGGTTT
1 GGGGTTT
*
3003196 CCGGGTTT
1 -GGGGTTT
*
3003204 CGGGTTT
1 GGGGTTT
*
3003211 CGGGTTT
1 GGGGTTT
*
3003218 CGGGTTT
1 GGGGTTT
*
3003225 CGGGTTT
1 GGGGTTT
*
3003232 -CGGTTT
1 GGGGTTT
*
3003238 CGGGTTT
1 GGGGTTT
*
3003245 CGGGTTT
1 GGGGTTT
*
3003252 CAGGGTGTT
1 -GGGGT-TT
*
3003261 CGGGTTT
1 GGGGTTT
* *
3003268 CGGGTGT
1 GGGGTTT
*
3003275 CGGG-TT
1 GGGGTTT
* *
3003281 CGGGTTA
1 GGGGTTT
*
3003288 CGGG-TT
1 GGGGTTT
3003294 GCCGGGTTTT
1 G--GGG-TTT
*
3003304 CCGGGTTT
1 -GGGGTTT
3003312 AGGGG-TT
1 -GGGGTTT
*
3003319 CGGGTTT
1 GGGGTTT
*
3003326 CGGGTTT
1 GGGGTTT
*
3003333 CGGG-TT
1 GGGGTTT
* *
3003339 CGGGTTA
1 GGGGTTT
*
3003346 AGGGTTT
1 GGGGTTT
*
3003353 CGAGGTTTTCT
1 -G-GG-GTT-T
**
3003364 GGTATTAT
1 GGGGTT-T
3003372 GCGGGATTT
1 G-GGG-TTT
* *
3003381 -CGGTAT
1 GGGGTTT
*
3003387 CGGGTTT
1 GGGGTTT
*
3003394 CGGG-TT
1 GGGGTTT
*
3003400 CGGG--T
1 GGGGTTT
*
3003405 CGGGTATT
1 GGGGT-TT
*
3003413 CGGGTTT
1 GGGGTTT
*
3003420 --CGTTT
1 GGGGTTT
*
3003425 CGGGTTT
1 GGGGTTT
*
3003432 CGGGTTT
1 GGGGTTT
*
3003439 CGGG-TT
1 GGGGTTT
*
3003445 CGGGTTT
1 GGGGTTT
*
3003452 -CGGTTT
1 GGGGTTT
*
3003458 ACGGGTTT
1 -GGGGTTT
*
3003466 CGGGTTT
1 GGGGTTT
*
3003473 CGGGTTT
1 GGGGTTT
*
3003480 CGAGGTTT
1 -GGGGTTT
*
3003488 CGGGTTT
1 GGGGTTT
** *
3003495 TCGGTGT
1 GGGGTTT
*
3003502 CGGG-TT
1 GGGGTTT
3003508 GCGGGTTAT
1 G-GGGTT-T
*
3003517 CGGGTTT
1 GGGGTTT
*
3003524 -CGGTTT
1 GGGGTTT
*
3003530 CGGGTTT
1 GGGGTTT
*
3003537 CGGGTTT
1 GGGGTTT
*
3003544 -CGGTTT
1 GGGGTTT
*
3003550 CGGGTTT
1 GGGGTTT
*
3003557 CGGGTTT
1 GGGGTTT
* *
3003564 CGGGATT
1 GGGGTTT
*
3003571 -CGGTTT
1 GGGGTTT
*
3003577 CGGAGTTT
1 -GGGGTTT
*
3003585 CGGGTTT
1 GGGGTTT
3003592 CGGGG-TT
1 -GGGGTTT
*
3003599 CGGGTTT
1 GGGGTTT
*
3003606 CGGGCTTT
1 -GGGGTTT
*
3003614 -CGG-TT
1 GGGGTTT
*
3003619 CGGGTTT
1 GGGGTTT
*
3003626 CGGG-TT
1 GGGGTTT
*
3003632 CGGGTTT
1 GGGGTTT
*
3003639 CGAGGTTT
1 -GGGGTTT
*
3003647 -CGGTTT
1 GGGGTTT
*
3003653 CGGGTTTT
1 -GGGGTTT
*
3003661 CGGGTTTAT
1 -GGGGTT-T
*
3003670 CAGGGATTTT
1 --GGG-GTTT
*
3003680 CGGGTTT
1 GGGGTTT
*
3003687 -CGGTTT
1 GGGGTTT
*
3003693 -CGGTTT
1 GGGGTTT
3003699 CGGGGTTT
1 -GGGGTTT
*
3003707 CGAGGTTT
1 -GGGGTTT
*
3003715 CGGGTTT
1 GGGGTTT
**
3003722 --TTTTT
1 GGGGTTT
3003727 CGGGTTCGTTT
1 -GGG---GTTT
*
3003738 AGAGGGTTC
1 -G-GGGTTT
*
3003747 GAGGTTT
1 GGGGTTT
*
3003754 CGGGTTT
1 GGGGTTT
*
3003761 CGGGTTGT
1 GGGGTT-T
*
3003769 CGGGTTT
1 GGGGTTT
*
3003776 -CGG-TT
1 GGGGTTT
*
3003781 CGGGTTT
1 GGGGTTT
*
3003788 CGGGGTTC
1 -GGGGTTT
*
3003796 GGGTTTT
1 GGGGTTT
*
3003803 CAGGGTTT
1 -GGGGTTT
* *
3003811 CCGGGTTC
1 -GGGGTTT
*
3003819 GGGATTT
1 GGGGTTT
**
3003826 CTGGTTT
1 GGGGTTT
*
3003833 CGGGTATT
1 GGGGT-TT
*
3003841 CGGG-TT
1 GGGGTTT
*
3003847 GCGGGATT
1 G-GGGTTT
*
3003855 CGGG-TT
1 GGGGTTT
*
3003861 CGGG-TT
1 GGGGTTT
* *
3003867 CGGTTTT
1 GGGGTTT
* *
3003874 CGGTTTT
1 GGGGTTT
*
3003881 CGGGTTT
1 GGGGTTT
*
3003888 -CGGTTT
1 GGGGTTT
*
3003894 CGGGTTT
1 GGGGTTT
*
3003901 CGGGTTT
1 GGGGTTT
* *
3003908 CGGGTTC
1 GGGGTTT
3003915 GGGGTTT
1 GGGGTTT
*
3003922 CGGG-TT
1 GGGGTTT
*
3003928 CGGGTTT
1 GGGGTTT
*
3003935 CGGGTTT
1 GGGGTTT
*
3003942 CGGGTATT
1 GGGGT-TT
*
3003950 CGGGTTTT
1 -GGGGTTT
*
3003958 CGGGTTT
1 GGGGTTT
*
3003965 CGGGTGTT
1 GGGGT-TT
* *
3003973 CGGGTAT
1 GGGGTTT
*
3003980 -CGGTTAT
1 GGGGTT-T
*
3003987 ACGGGTTT
1 -GGGGTTT
*
3003995 CGGGTTT
1 GGGGTTT
*
3004002 CGGGTTT
1 GGGGTTT
*
3004009 CGGGTTT
1 GGGGTTT
*
3004016 CGGGTTTT
1 -GGGGTTT
3004024 CCGGGGTTT
1 --GGGGTTT
*
3004033 CGGAGTTT
1 -GGGGTTT
*
3004041 CGGGTTT
1 GGGGTTT
*
3004048 CAGGGTTAT
1 -GGGGTT-T
*
3004057 CGGGATTGT
1 -GGGGTT-T
*
3004066 CAGGGTTTT
1 --GGGGTTT
*
3004075 CGGGTTT
1 GGGGTTT
3004082 AGGGGTTTT
1 -GGGG-TTT
*
3004091 CGGGTATT
1 GGGGT-TT
3004099 -GGGTTT
1 GGGGTTT
*
3004105 CGGGTTT
1 GGGGTTT
*
3004112 CGGGTTT
1 GGGGTTT
*
3004119 CGAGAGTATTT
1 -G-G-G-GTTT
* *
3004130 CGGGTTC
1 GGGGTTT
*
3004137 GGGGTTC
1 GGGGTTT
*
3004144 AGGGTTT
1 GGGGTTT
*
3004151 CGGGTTT
1 GGGGTTT
*
3004158 CAGGGTTT
1 -GGGGTTT
*
3004166 -CGGTATT
1 GGGGT-TT
*
3004173 CGGGTTTT
1 -GGGGTTT
*
3004181 CCGGGTTT
1 -GGGGTTT
*
3004189 CGGGTTT
1 GGGGTTT
*
3004196 CGGGTTT
1 GGGGTTT
*
3004203 CGGGTATTT
1 -GGG-GTTT
*
3004212 CAAGGGG--C
1 ---GGGGTTT
** *
3004220 AAGGATT
1 GGGGTTT
3004227 GCAGGGTTT
1 G--GGGTTT
*
3004236 CGGG-TT
1 GGGGTTT
3004242 GCGGGTTCTCT
1 G-GGG-T-T-T
3004253 GGGG-TT
1 GGGGTTT
***
3004259 GGGGGAA
1 GGGGTTT
*
3004266 GGGTTTT
1 GGGGTTT
*
3004273 CGGGTTT
1 GGGGTTT
** *
3004280 TCGATTT
1 GGGGTTT
*
3004287 CGGGTTAT
1 GGGGTT-T
3004295 CGGGGTTTT
1 -GGGG-TTT
*
3004304 CGAGGTCTT
1 -GGGGT-TT
**
3004313 CGGTATTT
1 -GGGGTTT
*
3004321 CAAGGGTTT
1 --GGGGTTT
*
3004330 CGGG-TT
1 GGGGTTT
*
3004336 GCGGTTTT
1 G-GGGTTT
*
3004344 AGGCG-TT
1 -GGGGTTT
*
3004351 GCGGGTTC
1 G-GGGTTT
*
3004359 GAGGTTTT
1 G-GGGTTT
*
3004367 CGGGTTT
1 GGGGTTT
*
3004374 CGGGGTTC
1 -GGGGTTT
3004382 GGGGTTT
1 GGGGTTT
*
3004389 -CGGTTT
1 GGGGTTT
*
3004395 CGGG-TT
1 GGGGTTT
*
3004401 CGGGTTT
1 GGGGTTT
*
3004408 CGAAGAGTTT
1 -G--GGGTTT
*
3004418 CGGGAATGTTA
1 -GGG---GTTT
*
3004429 CGGGTTT
1 GGGGTTT
*
3004436 CGGGTTT
1 GGGGTTT
**
3004443 -CTGTTT
1 GGGGTTT
*
3004449 CGGGTTT
1 GGGGTTT
*
3004456 CGGGTTT
1 GGGGTTT
* *
3004463 CGGGTAT
1 GGGGTTT
* *
3004470 CGGGTGT
1 GGGGTTT
*
3004477 CGGGTTT
1 GGGGTTT
*
3004484 GCGGATTTT
1 G-GG-GTTT
*
3004493 CGGGTTT
1 GGGGTTT
*
3004500 CGGGTTT
1 GGGGTTT
*
3004507 CGGGTTTT
1 -GGGGTTT
*
3004515 CGGGTTT
1 GGGGTTT
*
3004522 CCGGGTTT
1 -GGGGTTT
*
3004530 CGGG-TT
1 GGGGTTT
3004536 GCGGGTTT
1 G-GGGTTT
*
3004544 -CGGTTT
1 GGGGTTT
**
3004550 TCGGTTT
1 GGGGTTT
*
3004557 CGGGTTT
1 GGGGTTT
*
3004564 CGGGTTAT
1 GGGGTT-T
3004572 AGGGGTTT
1 -GGGGTTT
3004580 -GGGTTT
1 GGGGTTT
3004586 GGCGGTTT
1 GG-GGTTT
3004594 GGGG-TT
1 GGGGTTT
3004600 GGGGTTT
1 GGGGTTT
*
3004607 -GGGTTCG
1 GGGGTT-T
3004614 GGGGTTT
1 GGGGTTT
3004621 GGCGGTTT
1 GG-GGTTT
3004629 GGGGTTT
1 GGGGTTT
3004636 GGGGTTTT
1 GGGG-TTT
3004644 GGGGTTTT
1 GGGG-TTT
3004652 GGGGTATAT
1 GGGGT-T-T
3004661 GGGGTTAT
1 GGGGTT-T
3004669 GGGGTTT
1 GGGGTTT
3004676 GGGGTTT
1 GGGGTTT
3004683 GAGGGTCATT
1 G-GGGT--TT
3004693 -GGGTTT
1 GGGGTTT
3004699 GGGGTCTT
1 GGGGT-TT
3004707 GGAGGATTT
1 GG-GG-TTT
3004716 GGGGATTT
1 GGGG-TTT
3004724 GGCGGGTTT
1 -G-GGGTTT
3004733 AGGGGAGATGTT
1 --GGG-G-T-TT
3004745 GGGGTTT
1 GGGGTTT
3004752 GGGAGTTT
1 GGG-GTTT
3004760 GGGGTTT
1 GGGGTTT
3004767 GGGGTTT
1 GGGGTTT
3004774 GGGGTTACTAAT
1 GGGG-T--T--T
3004786 GGGGAGTTGAT
1 -GGG-GTT--T
3004797 AGGGGATTT
1 -GGGG-TTT
3004806 GGGGTTT
1 GGGGTTT
3004813 GCGGGTATT
1 G-GGGT-TT
*
3004822 AGGAGGTGTG
1 -GG-GGT-TT
3004832 GGGGTTT
1 GGGGTTT
3004839 GGGGTTT
1 GGGGTTT
3004846 -GGGTTT
1 GGGGTTT
3004852 GCGAGGTTT
1 G-G-GGTTT
3004861 AGGGGTTT
1 -GGGGTTT
*
3004869 GGAGGATT
1 GG-GGTTT
3004877 -GGGTTAT
1 GGGGTT-T
3004884 GGGGATTT
1 GGGG-TTT
3004892 -GGG-TT
1 GGGGTTT
3004897 GAGGGTTTT
1 G-GGG-TTT
*
3004906 GGCGTTT
1 GGGGTTT
3004913 GGGGTTT
1 GGGGTTT
3004920 GAGGGTTTT
1 G-GGG-TTT
3004929 GGGGTTT
1 GGGGTTT
3004936 GGGG-TT
1 GGGGTTT
3004942 GGGGTTT
1 GGGGTTT
3004949 GGGG-TT
1 GGGGTTT
*
3004955 --GGTTA
1 GGGGTTT
3004960 GAGGGTTT
1 G-GGGTTT
3004968 -GGGTATT
1 GGGGT-TT
*
3004975 TGGGTTT
1 GGGGTTT
3004982 CGGGGATTTT
1 -GGGG--TTT
3004992 GGGGTTT
1 GGGGTTT
*
3004999 GAGG-TT
1 GGGGTTT
3005005 GAGGGTTTT
1 G-GGG-TTT
3005014 GGGGTGTTT
1 -GGG-GTTT
*
3005023 GGGATTATTT
1 GGG---GTTT
3005033 AGGGGTTT
1 -GGGGTTT
3005041 GGGGTTT
1 GGGGTTT
3005048 GGGGTTT
1 GGGGTTT
*
3005055 TGGG-TT
1 GGGGTTT
3005061 GGGGTTT
1 GGGGTTT
*
3005068 GGGGTGTC
1 GGGGT-TT
*
3005076 GGGGTTG
1 GGGGTTT
3005083 GGGGTTTT
1 GGGG-TTT
3005091 GGGAAGTATT
1 GGG--GT-TT
*
3005101 GGGG-GT
1 GGGGTTT
3005107 GGGGTTT
1 GGGGTTT
3005114 GGGGTTT
1 GGGGTTT
3005121 GGGG-TT
1 GGGGTTT
3005127 GGGGTTT
1 GGGGTTT
*
3005134 CGGGTTT
1 GGGGTTT
3005141 GGGGTTT
1 GGGGTTT
3005148 GGGGTTT
1 GGGGTTT
3005155 GGAGGTACTT
1 GG-GGT--TT
3005165 GGGGTTT
1 GGGGTTT
3005172 GGGGTTTT
1 GGGG-TTT
* *
3005180 TGGGATT
1 GGGGTTT
3005187 GGGGTTT
1 GGGGTTT
*
3005194 TGGGTTT
1 GGGGTTT
3005201 GGGGGTAATTGT
1 -GGGG---TT-T
3005213 CGGGAGTTT
1 -GGG-GTTT
*
3005222 ATGGGTTT
1 -GGGGTTT
*
3005230 GGGGTTG
1 GGGGTTT
3005237 GGGGTTT
1 GGGGTTT
3005244 GGGGTTT
1 GGGGTTT
3005251 GGGGTATT
1 GGGGT-TT
*
3005259 AGGGGATT
1 -GGGGTTT
*
3005267 -GCGTTT
1 GGGGTTT
*
3005273 GGTGTTT
1 GGGGTTT
3005280 GGGGATTT
1 GGGG-TTT
3005288 GGGGTTT
1 GGGGTTT
3005295 -GGGTTT
1 GGGGTTT
3005301 GGGCAG-TT
1 GGG--GTTT
3005309 GGGGTTT
1 GGGGTTT
3005316 GGGGTTTTT
1 GGGG--TTT
3005325 GGGGTTT
1 GGGGTTT
3005332 -GGGTTT
1 GGGGTTT
3005338 GAGAGGTTT
1 G-G-GGTTT
3005347 -GGGTTT
1 GGGGTTT
3005353 --GGTATT
1 GGGGT-TT
3005359 GGGGTTAT
1 GGGGTT-T
3005367 GGGGATTT
1 GGGG-TTT
3005375 GGGGCTTT
1 GGGG-TTT
3005383 GGGGTTT
1 GGGGTTT
3005390 GGCGGGTTT
1 -G-GGGTTT
3005399 -GGGTTT
1 GGGGTTT
3005405 GGGGATTT
1 GGGG-TTT
3005413 GAGGGTTT
1 G-GGGTTT
3005421 GGGGTCTT
1 GGGGT-TT
3005429 GGGGTTCTT
1 GGGG-T-TT
3005438 GGCGGTTT
1 GG-GGTTT
3005446 GGGG-TT
1 GGGGTTT
3005452 GCGGGTATT
1 G-GGGT-TT
3005461 GGGGTTT
1 GGGGTTT
3005468 GGGGTTT
1 GGGGTTT
3005475 GGGAGTTT
1 GGG-GTTT
3005483 GGGGACTTT
1 GGGG--TTT
3005492 AAGGAGGTTT
1 --GG-GGTTT
3005502 GGGGTTT
1 GGGGTTT
3005509 -GGGTTT
1 GGGGTTT
3005515 --GGTCTT
1 GGGGT-TT
*
3005521 AGGGTTT
1 GGGGTTT
3005528 GGGGTATT
1 GGGGT-TT
3005536 GGGGTTTCT
1 GGGG-TT-T
*
3005545 CGGGTATT
1 GGGGT-TT
*
3005553 -GGGTGT
1 GGGGTTT
*
3005559 AGGGTCTT
1 GGGGT-TT
*
3005567 GGGGTAT
1 GGGGTTT
*
3005574 GGGGGTT
1 GGGGTTT
3005581 GGGG-TT
1 GGGGTTT
*
3005587 GGACGTTT
1 GG-GGTTT
3005595 ACCAAGGGGTTTT
1 -----GGGG-TTT
*
3005608 GGGGAGTT
1 GGGG-TTT
3005616 GGGGTTT
1 GGGGTTT
3005623 GGGG-TT
1 GGGGTTT
3005629 GGGGTCTT
1 GGGGT-TT
3005637 -GGGTTT
1 GGGGTTT
*
3005643 GCGGTTT
1 GGGGTTT
3005650 -GGGTTAT
1 GGGGTT-T
3005657 GAGGGATTT
1 G-GGG-TTT
3005666 GGGGTTTAT
1 GGGG-TT-T
3005675 AGGGGTTTT
1 -GGGG-TTT
*
3005684 TGGGTTT
1 GGGGTTT
3005691 GGGGTTT
1 GGGGTTT
3005698 GGGGTTT
1 GGGGTTT
3005705 GGGGTATTT
1 GGGG--TTT
3005714 GGGG-TT
1 GGGGTTT
* **
3005720 GAGGTAG
1 GGGGTTT
3005727 GGGTGTTT
1 GGG-GTTT
*
3005735 GGGCTTT
1 GGGGTTT
3005742 GGGG-TT
1 GGGGTTT
3005748 GGGGTATT
1 GGGGT-TT
3005756 GGGGTTT
1 GGGGTTT
3005763 GGGAGTTTT
1 GGG-G-TTT
3005772 GGAGGTTT
1 GG-GGTTT
3005780 CGGGGTTT
1 -GGGGTTT
3005788 ATAGGGGTAT
Statistics
Matches: 3245, Mismatches: 483, Indels: 761
0.72 0.11 0.17
Matches are distributed among these distances:
4 5 0.00
5 30 0.01
6 437 0.13
7 1661 0.51
8 696 0.21
9 250 0.08
10 108 0.03
11 35 0.01
12 12 0.00
13 10 0.00
14 1 0.00
ACGTcount: A:0.06, C:0.07, G:0.47, T:0.40
Consensus pattern (7 bp):
GGGGTTT
Found at i:3005697 original size:48 final size:48
Alignment explanation
Indices: 3005635--3005760 Score: 148
Period size: 48 Copynumber: 2.5 Consensus size: 48
3005625 GGTTGGGGTC
* * *
3005635 TTGGGTTTGCGGTTTGGGTTATGAGGG-ATTTGGGGTTTA-TAGGGGTTT
1 TTGGGTTTGGGGTTTGGGTT-TG-GGGTATTTGGGGTTGAGTAGGGGTGT
3005683 TTGGGTTTGGGGTTTGGGGTTTGGGGTATTTGGGGTTGAGGTAGGGGTGT
1 TTGGGTTTGGGGTTT-GGGTTTGGGGTATTTGGGGTTGA-GTAGGGGTGT
*
3005733 TTGGGCTTTGGGGTTGGGGTATTGGGGT
1 TTGGG-TTTGGGGTTTGGGT-TTGGGGT
3005761 TTGGGAGTTT
Statistics
Matches: 68, Mismatches: 4, Indels: 9
0.84 0.05 0.11
Matches are distributed among these distances:
47 3 0.04
48 27 0.40
49 5 0.07
50 17 0.25
51 16 0.24
ACGTcount: A:0.07, C:0.02, G:0.50, T:0.41
Consensus pattern (48 bp):
TTGGGTTTGGGGTTTGGGTTTGGGGTATTTGGGGTTGAGTAGGGGTGT
Found at i:3005911 original size:7 final size:7
Alignment explanation
Indices: 3005899--3005939 Score: 57
Period size: 7 Copynumber: 5.9 Consensus size: 7
3005889 TAGGGATATC
3005899 TGGGGTT
1 TGGGGTT
3005906 TGGGGTT
1 TGGGGTT
3005913 TGGGAGTT
1 TGGG-GTT
3005921 TGGGGTT
1 TGGGGTT
*
3005928 TGGTG-T
1 TGGGGTT
3005934 TGGGGT
1 TGGGGT
3005940 GAGGGATTGG
Statistics
Matches: 30, Mismatches: 2, Indels: 4
0.83 0.06 0.11
Matches are distributed among these distances:
6 5 0.17
7 18 0.60
8 7 0.23
ACGTcount: A:0.02, C:0.00, G:0.56, T:0.41
Consensus pattern (7 bp):
TGGGGTT
Found at i:3005923 original size:15 final size:14
Alignment explanation
Indices: 3005899--3005939 Score: 57
Period size: 15 Copynumber: 2.9 Consensus size: 14
3005889 TAGGGATATC
3005899 TGGGGTTTGGGGTT
1 TGGGGTTTGGGGTT
3005913 TGGGAGTTTGGGGTT
1 TGGG-GTTTGGGGTT
*
3005928 TGGTG-TTGGGGT
1 TGGGGTTTGGGGT
3005940 GAGGGATTGG
Statistics
Matches: 25, Mismatches: 1, Indels: 3
0.86 0.03 0.10
Matches are distributed among these distances:
13 7 0.28
14 5 0.20
15 13 0.52
ACGTcount: A:0.02, C:0.00, G:0.56, T:0.41
Consensus pattern (14 bp):
TGGGGTTTGGGGTT
Found at i:3006018 original size:7 final size:7
Alignment explanation
Indices: 3005979--3006274 Score: 242
Period size: 7 Copynumber: 41.4 Consensus size: 7
3005969 GGGTTTTAGT
3005979 GGGTTT-
1 GGGTTTC
3005985 GGGTTTC
1 GGGTTTC
3005992 -GGTTTC
1 GGGTTTC
3005998 GTGG-TTC
1 G-GGTTTC
3006005 GGCGTTTTC
1 GG-G-TTTC
3006014 -GGTTTCC
1 GGGTTT-C
3006021 GGGTTTTC
1 GGG-TTTC
3006029 -GGTTTC
1 GGGTTTC
3006035 GGGTTTC
1 GGGTTTC
*
3006042 GAGGTTGC
1 G-GGTTTC
3006050 -GGTTTC
1 GGGTTTC
3006056 GGGTTTC
1 GGGTTTC
3006063 GGGTTTC
1 GGGTTTC
*
3006070 GGGATTGC
1 GGG-TTTC
3006078 GGGTTTC
1 GGGTTTC
3006085 GGGTTTC
1 GGGTTTC
*
3006092 GGTTTTC
1 GGGTTTC
3006099 GGG-TTC
1 GGGTTTC
3006105 GGGTTTC
1 GGGTTTC
3006112 GGGGTTTC
1 -GGGTTTC
3006120 GGGTGTTC
1 GGGT-TTC
3006128 GGGTTTC
1 GGGTTTC
3006135 GGG-TTC
1 GGGTTTC
3006141 GGG-TTC
1 GGGTTTC
3006147 GGGTTTC
1 GGGTTTC
3006154 -GGTTTC
1 GGGTTTC
3006160 GGGTTTC
1 GGGTTTC
3006167 GGGTATTC
1 GGGT-TTC
3006175 GGGTTTC
1 GGGTTTC
3006182 GAGGTTTC
1 G-GGTTTC
3006190 GGGTTTC
1 GGGTTTC
*
3006197 AATGG-TTC
1 --GGGTTTC
3006205 GAGGTTTTC
1 G-GG-TTTC
3006214 GGG-TTC
1 GGGTTTC
**
3006220 GGCGTGGC
1 GG-GTTTC
3006228 GGAGTTTC
1 GG-GTTTC
3006236 GGAGTTTC
1 GG-GTTTC
*
3006244 GGG-TAC
1 GGGTTTC
*
3006250 GGGTTCC
1 GGGTTTC
3006257 GAGGATTTC
1 G-GG-TTTC
3006266 GGG-TTC
1 GGGTTTC
3006272 GGG
1 GGG
3006275 GGG
Statistics
Matches: 244, Mismatches: 16, Indels: 60
0.76 0.05 0.19
Matches are distributed among these distances:
6 65 0.27
7 93 0.38
8 70 0.29
9 16 0.07
ACGTcount: A:0.04, C:0.15, G:0.42, T:0.39
Consensus pattern (7 bp):
GGGTTTC
Found at i:3006177 original size:15 final size:14
Alignment explanation
Indices: 3005979--3006274 Score: 242
Period size: 15 Copynumber: 20.7 Consensus size: 14
3005969 GGGTTTTAGT
3005979 GGGTTT-GGGTTTC
1 GGGTTTCGGGTTTC
3005992 -GGTTTCGTGG-TTC
1 GGGTTTCG-GGTTTC
3006005 GGCGTTTTC-GGTTTCC
1 GG-G-TTTCGGGTTT-C
3006021 GGGTTTTC-GGTTTC
1 GGG-TTTCGGGTTTC
*
3006035 GGGTTTCGAGGTTGC
1 GGGTTTCG-GGTTTC
3006050 -GGTTTCGGGTTTC
1 GGGTTTCGGGTTTC
*
3006063 GGGTTTCGGGATTGC
1 GGGTTTCGGG-TTTC
3006078 GGGTTTCGGGTTTC
1 GGGTTTCGGGTTTC
*
3006092 GGTTTTCGGG-TTC
1 GGGTTTCGGGTTTC
3006105 GGGTTTCGGGGTTTC
1 GGGTTTC-GGGTTTC
3006120 GGGTGTTCGGGTTTC
1 GGGT-TTCGGGTTTC
3006135 GGG-TTCGGG-TTC
1 GGGTTTCGGGTTTC
3006147 GGGTTTC-GGTTTC
1 GGGTTTCGGGTTTC
3006160 GGGTTTCGGGTATTC
1 GGGTTTCGGGT-TTC
3006175 GGGTTTCGAGGTTTC
1 GGGTTTCG-GGTTTC
*
3006190 GGGTTTCAATGG-TTC
1 GGGTTTC--GGGTTTC
3006205 GAGGTTTTCGGG-TTC
1 G-GG-TTTCGGGTTTC
**
3006220 GGCGTGGCGGAGTTTC
1 GG-GTTTCGG-GTTTC
*
3006236 GGAGTTTCGGG-TAC
1 GG-GTTTCGGGTTTC
*
3006250 GGGTTCCGAGGATTTC
1 GGGTTTCG-GG-TTTC
3006266 GGG-TTCGGG
1 GGGTTTCGGG
3006275 GGG
Statistics
Matches: 237, Mismatches: 17, Indels: 57
0.76 0.05 0.18
Matches are distributed among these distances:
12 13 0.05
13 46 0.19
14 56 0.24
15 86 0.36
16 32 0.14
17 4 0.02
ACGTcount: A:0.04, C:0.15, G:0.42, T:0.39
Consensus pattern (14 bp):
GGGTTTCGGGTTTC
Done.