Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Gbar_A13
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: 109233746
ACGTcount: A:0.32, C:0.17, G:0.17, T:0.32
Warning! 2708888 characters in sequence are not A, C, G, or T
File 299 of 332
Found at i:99068479 original size:22 final size:20
Alignment explanation
Indices: 99068443--99068483 Score: 64
Period size: 22 Copynumber: 1.9 Consensus size: 20
99068433 AGTGAATAAA
99068443 GGAGAAGGAAAAGAAAGAAG
1 GGAGAAGGAAAAGAAAGAAG
99068463 GGAGAAAGGAAAAAGAAAGAA
1 GGAG-AAGG-AAAAGAAAGAA
99068484 AATCTTTCAT
Statistics
Matches: 19, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
20 4 0.21
21 4 0.21
22 11 0.58
ACGTcount: A:0.63, C:0.00, G:0.37, T:0.00
Consensus pattern (20 bp):
GGAGAAGGAAAAGAAAGAAG
Found at i:99069210 original size:31 final size:31
Alignment explanation
Indices: 99069152--99069210 Score: 75
Period size: 31 Copynumber: 1.9 Consensus size: 31
99069142 ATTATCATCC
* *
99069152 TTATAATCAATCAATTTTATACGTTTATACT
1 TTATAATCAATCAATTTTACACATTTATACT
*
99069183 TTATAATCATTCAAATTTT-CACATTTAT
1 TTATAATCAATC-AATTTTACACATTTAT
99069211 GCCCTGAACT
Statistics
Matches: 24, Mismatches: 3, Indels: 2
0.83 0.10 0.07
Matches are distributed among these distances:
31 18 0.75
32 6 0.25
ACGTcount: A:0.36, C:0.14, G:0.02, T:0.49
Consensus pattern (31 bp):
TTATAATCAATCAATTTTACACATTTATACT
Found at i:99078446 original size:5 final size:5
Alignment explanation
Indices: 99078436--99078460 Score: 50
Period size: 5 Copynumber: 5.0 Consensus size: 5
99078426 GCATACATAG
99078436 TTTTA TTTTA TTTTA TTTTA TTTTA
1 TTTTA TTTTA TTTTA TTTTA TTTTA
99078461 AGAACAAGTT
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
5 20 1.00
ACGTcount: A:0.20, C:0.00, G:0.00, T:0.80
Consensus pattern (5 bp):
TTTTA
Found at i:99079335 original size:17 final size:17
Alignment explanation
Indices: 99079309--99079347 Score: 60
Period size: 17 Copynumber: 2.3 Consensus size: 17
99079299 TTTGAAAAGG
99079309 AAAACAAATGAATCTTA
1 AAAACAAATGAATCTTA
* *
99079326 AAAACGAATGAGTCTTA
1 AAAACAAATGAATCTTA
99079343 AAAAC
1 AAAAC
99079348 TTAAGAAAAG
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
17 20 1.00
ACGTcount: A:0.56, C:0.13, G:0.10, T:0.21
Consensus pattern (17 bp):
AAAACAAATGAATCTTA
Found at i:99085579 original size:18 final size:17
Alignment explanation
Indices: 99085541--99085580 Score: 71
Period size: 17 Copynumber: 2.4 Consensus size: 17
99085531 TTTTTAAAAG
99085541 AAAAACAAATGAATCTT
1 AAAAACAAATGAATCTT
*
99085558 AAAAACAAATGAGTCTT
1 AAAAACAAATGAATCTT
99085575 AAAAAC
1 AAAAAC
99085581 TTAAGAAAAG
Statistics
Matches: 22, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
17 22 1.00
ACGTcount: A:0.60, C:0.12, G:0.07, T:0.20
Consensus pattern (17 bp):
AAAAACAAATGAATCTT
Found at i:99089623 original size:40 final size:40
Alignment explanation
Indices: 99089553--99089649 Score: 144
Period size: 40 Copynumber: 2.5 Consensus size: 40
99089543 CCGTCTCCGT
*
99089553 CCAACCCAACACACC-A-TATGGGGATAAAATCAACCCAC
1 CCAACCCTACACACCAAGTATGGGGATAAAATCAACCCAC
* *
99089591 CCAACCCTACACACCAAGTATGGGGATAAAATCGACCCAT
1 CCAACCCTACACACCAAGTATGGGGATAAAATCAACCCAC
*
99089631 CCAGCCCTACACACCAAGT
1 CCAACCCTACACACCAAGT
99089650 GGTACTGTAA
Statistics
Matches: 53, Mismatches: 4, Indels: 2
0.90 0.07 0.03
Matches are distributed among these distances:
38 14 0.26
39 1 0.02
40 38 0.72
ACGTcount: A:0.38, C:0.37, G:0.12, T:0.12
Consensus pattern (40 bp):
CCAACCCTACACACCAAGTATGGGGATAAAATCAACCCAC
Found at i:99096791 original size:22 final size:22
Alignment explanation
Indices: 99096760--99096813 Score: 90
Period size: 22 Copynumber: 2.5 Consensus size: 22
99096750 TTTCACGATT
99096760 CACACGGCCTAGCCATTAAGCC
1 CACACGGCCTAGCCATTAAGCC
* *
99096782 CATACGGCCTAGCCATTGAGCC
1 CACACGGCCTAGCCATTAAGCC
99096804 CACACGGCCT
1 CACACGGCCT
99096814 GGTAATCACG
Statistics
Matches: 29, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
22 29 1.00
ACGTcount: A:0.24, C:0.41, G:0.20, T:0.15
Consensus pattern (22 bp):
CACACGGCCTAGCCATTAAGCC
Found at i:99105314 original size:16 final size:16
Alignment explanation
Indices: 99105288--99105347 Score: 63
Period size: 16 Copynumber: 3.8 Consensus size: 16
99105278 TCCTCCTATT
99105288 TTATT-TTTATTCTTA
1 TTATTATTTATTCTTA
99105303 TTATTATTTATTCTTA
1 TTATTATTTATTCTTA
* *
99105319 TTTTTGTTTTATT-TTA
1 TTATT-ATTTATTCTTA
99105335 TT-TTATTTTATTC
1 TTATTA-TTTATTC
99105348 CTGTTTTCCT
Statistics
Matches: 38, Mismatches: 3, Indels: 7
0.79 0.06 0.15
Matches are distributed among these distances:
15 13 0.34
16 19 0.50
17 6 0.16
ACGTcount: A:0.18, C:0.05, G:0.02, T:0.75
Consensus pattern (16 bp):
TTATTATTTATTCTTA
Found at i:99105333 original size:10 final size:10
Alignment explanation
Indices: 99105284--99105346 Score: 65
Period size: 10 Copynumber: 5.9 Consensus size: 10
99105274 TGAATCCTCC
99105284 TATTTTATTTT
1 TATTTTA-TTT
99105295 TATTCTTATTAT
1 TATT-TTATT-T
99105307 TA-TTTATTCT
1 TATTTTATT-T
*
99105317 TATTTTTGTTT
1 TA-TTTTATTT
99105328 TATTTTATTT
1 TATTTTATTT
99105338 TATTTTATT
1 TATTTTATT
99105347 CCTGTTTTCC
Statistics
Matches: 45, Mismatches: 3, Indels: 9
0.79 0.05 0.16
Matches are distributed among these distances:
10 24 0.53
11 10 0.22
12 11 0.24
ACGTcount: A:0.19, C:0.03, G:0.02, T:0.76
Consensus pattern (10 bp):
TATTTTATTT
Found at i:99117384 original size:237 final size:238
Alignment explanation
Indices: 99116924--99117388 Score: 680
Period size: 237 Copynumber: 2.0 Consensus size: 238
99116914 TTACTCACAA
* * * * *
99116924 ATCCATAAATGTCTAGCAGTGGTCACCATCGAACCCTCTGCCACACTGATCCATCTACTGCTGAG
1 ATCCATAAATGTCCAACAATGGTCACCATCGAACCCTCTACCACACCGATCCATCTACTGCTGAG
** * *
99116989 GATTACCTGACATAAAATAAATAAAGGGGTAAGTTTTTGCAAACTCAGTGTGTACATCCCCGCAA
66 GATTACCTGACATAAAATAAATAAAGACGTAAGTTTTTCCAAACTCAGTGTGTACATCCCCACAA
* * * * * * * *
99117054 ATAGCATGCATACAAATAAATAACAGAATATAGATATTCGTCTTTAGCCTTACAAATATCACATG
131 ACAGCATGCATAAAAACAAATAACAAAATACAGATATCCGACCTTAGCCTTACAAATATCACATG
*
99117119 CAGATCAGATCAGATATCAGAAAACAGAAATCAGAAATCATTC
196 CAGATCAAATCAGATATCAGAAAACAGAAATCAGAAATCATTC
* *
99117162 ATCCATAAATGTCCAACAATGGTCACCATCGAGCCCTCTACCATACCGATCCATCTACTGCTGAG
1 ATCCATAAATGTCCAACAATGGTCACCATCGAACCCTCTACCACACCGATCCATCTACTGCTGAG
* *
99117227 GATTATCTGACATAAAATAAATAAAGACGTGAG-TTTTCCAAACTCAGTGTGTACATCCCCACAA
66 GATTACCTGACATAAAATAAATAAAGACGTAAGTTTTTCCAAACTCAGTGTGTACATCCCCACAA
* * **
99117291 ACAGCATGCATAAAAACAGATAACAAAATACAGATATCCGACCTTAGCCTTACAGATATTGCATG
131 ACAGCATGCATAAAAACAAATAACAAAATACAGATATCCGACCTTAGCCTTACAAATATCACATG
*
99117356 CAGATCAAATCAGATATCAGAGAACAGAAATCA
196 CAGATCAAATCAGATATCAGAAAACAGAAATCA
99117389 TGCCCACCAA
Statistics
Matches: 200, Mismatches: 27, Indels: 1
0.88 0.12 0.00
Matches are distributed among these distances:
237 113 0.56
238 87 0.44
ACGTcount: A:0.38, C:0.23, G:0.15, T:0.24
Consensus pattern (238 bp):
ATCCATAAATGTCCAACAATGGTCACCATCGAACCCTCTACCACACCGATCCATCTACTGCTGAG
GATTACCTGACATAAAATAAATAAAGACGTAAGTTTTTCCAAACTCAGTGTGTACATCCCCACAA
ACAGCATGCATAAAAACAAATAACAAAATACAGATATCCGACCTTAGCCTTACAAATATCACATG
CAGATCAAATCAGATATCAGAAAACAGAAATCAGAAATCATTC
Found at i:99117468 original size:38 final size:38
Alignment explanation
Indices: 99117426--99117516 Score: 103
Period size: 40 Copynumber: 2.3 Consensus size: 38
99117416 GTCCAACCCA
*
99117426 ACACACCATGTGGGGATAAAATCGACCCACCCAGTTC-T
1 ACACACCATGTGGGGATAAAATCGACCCACCCAG-CCGT
* * *
99117464 ACACACCAAGTATAGGGATAAAATCGACCCATCCAGCCGT
1 ACACACC-A-TGTGGGGATAAAATCGACCCACCCAGCCGT
*
99117504 ACACACCAAGTGG
1 ACACACCATGTGG
99117517 TACTGTAAAA
Statistics
Matches: 43, Mismatches: 7, Indels: 6
0.77 0.12 0.11
Matches are distributed among these distances:
38 9 0.21
39 3 0.07
40 31 0.72
ACGTcount: A:0.35, C:0.31, G:0.19, T:0.15
Consensus pattern (38 bp):
ACACACCATGTGGGGATAAAATCGACCCACCCAGCCGT
Found at i:99117485 original size:40 final size:40
Alignment explanation
Indices: 99117438--99117514 Score: 120
Period size: 40 Copynumber: 1.9 Consensus size: 40
99117428 ACACCATGTG
*
99117438 GGGATAAAATCGACCCACCCAGTTC-TACACACCAAGTATA
1 GGGATAAAATCGACCCACCCAG-CCGTACACACCAAGTATA
*
99117478 GGGATAAAATCGACCCATCCAGCCGTACACACCAAGT
1 GGGATAAAATCGACCCACCCAGCCGTACACACCAAGT
99117515 GGTACTGTAA
Statistics
Matches: 34, Mismatches: 2, Indels: 2
0.89 0.05 0.05
Matches are distributed among these distances:
39 1 0.03
40 33 0.97
ACGTcount: A:0.36, C:0.31, G:0.17, T:0.16
Consensus pattern (40 bp):
GGGATAAAATCGACCCACCCAGCCGTACACACCAAGTATA
Found at i:99118951 original size:11 final size:11
Alignment explanation
Indices: 99118939--99118980 Score: 59
Period size: 11 Copynumber: 3.8 Consensus size: 11
99118929 AAAATAAAAC
99118939 AACTAAAATACA
1 AACTAAAATA-A
*
99118951 AAATAAAA-AA
1 AACTAAAATAA
99118961 AACTAAAATAA
1 AACTAAAATAA
99118972 AACTAAAAT
1 AACTAAAAT
99118981 TAGTGGTCTT
Statistics
Matches: 27, Mismatches: 2, Indels: 3
0.84 0.06 0.09
Matches are distributed among these distances:
10 8 0.30
11 12 0.44
12 7 0.26
ACGTcount: A:0.74, C:0.10, G:0.00, T:0.17
Consensus pattern (11 bp):
AACTAAAATAA
Found at i:99118959 original size:22 final size:21
Alignment explanation
Indices: 99118923--99118979 Score: 80
Period size: 22 Copynumber: 2.7 Consensus size: 21
99118913 TAAATCTAAG
*
99118923 AAAATAAAAAT-AAAACAACT
1 AAAATAAAAATAAAAAAAACT
99118943 AAAATACAAAATAAAAAAAACT
1 AAAATA-AAAATAAAAAAAACT
*
99118965 AAAATAAAACTAAAA
1 AAAATAAAAATAAAA
99118980 TTAGTGGTCT
Statistics
Matches: 33, Mismatches: 2, Indels: 3
0.87 0.05 0.08
Matches are distributed among these distances:
20 6 0.18
21 13 0.39
22 14 0.42
ACGTcount: A:0.77, C:0.09, G:0.00, T:0.14
Consensus pattern (21 bp):
AAAATAAAAATAAAAAAAACT
Found at i:99122670 original size:30 final size:30
Alignment explanation
Indices: 99122634--99122690 Score: 89
Period size: 30 Copynumber: 1.9 Consensus size: 30
99122624 ATGACCATGA
*
99122634 CACACGGG-GATGTGGTTTGCCCGTGTGCCT
1 CACACGGGCG-TGTGGTTTACCCGTGTGCCT
99122664 CACACGGGCGTGTGGTTTACCCGTGTG
1 CACACGGGCGTGTGGTTTACCCGTGTG
99122691 GTTGTGCCTA
Statistics
Matches: 25, Mismatches: 1, Indels: 2
0.89 0.04 0.07
Matches are distributed among these distances:
30 24 0.96
31 1 0.04
ACGTcount: A:0.11, C:0.26, G:0.37, T:0.26
Consensus pattern (30 bp):
CACACGGGCGTGTGGTTTACCCGTGTGCCT
Found at i:99130054 original size:14 final size:14
Alignment explanation
Indices: 99130035--99130061 Score: 54
Period size: 14 Copynumber: 1.9 Consensus size: 14
99130025 TTCATTTGAT
99130035 CTCATCCATCATCC
1 CTCATCCATCATCC
99130049 CTCATCCATCATC
1 CTCATCCATCATC
99130062 ATTCTCTCTA
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 13 1.00
ACGTcount: A:0.22, C:0.48, G:0.00, T:0.30
Consensus pattern (14 bp):
CTCATCCATCATCC
Found at i:99133180 original size:24 final size:24
Alignment explanation
Indices: 99133148--99133195 Score: 96
Period size: 24 Copynumber: 2.0 Consensus size: 24
99133138 AATACATACA
99133148 TATATATATATCCTTTAGCCAAAT
1 TATATATATATCCTTTAGCCAAAT
99133172 TATATATATATCCTTTAGCCAAAT
1 TATATATATATCCTTTAGCCAAAT
99133196 CAACCAAATC
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
24 24 1.00
ACGTcount: A:0.38, C:0.17, G:0.04, T:0.42
Consensus pattern (24 bp):
TATATATATATCCTTTAGCCAAAT
Found at i:99133723 original size:36 final size:36
Alignment explanation
Indices: 99133683--99133754 Score: 126
Period size: 36 Copynumber: 2.0 Consensus size: 36
99133673 TTCCATTTGC
*
99133683 ATCATACATAATTTATATAATATTTCAAATAACTAT
1 ATCATACATAATTTATATAACATTTCAAATAACTAT
*
99133719 ATCATACATAATTTATATCACATTTCAAATAACTAT
1 ATCATACATAATTTATATAACATTTCAAATAACTAT
99133755 CTTACCTTAT
Statistics
Matches: 34, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
36 34 1.00
ACGTcount: A:0.46, C:0.14, G:0.00, T:0.40
Consensus pattern (36 bp):
ATCATACATAATTTATATAACATTTCAAATAACTAT
Found at i:99134757 original size:6 final size:6
Alignment explanation
Indices: 99134746--99134777 Score: 55
Period size: 6 Copynumber: 5.3 Consensus size: 6
99134736 TTCTAAAATC
*
99134746 TTTTCT TTTTCT TTTTAT TTTTCT TTTTCT TT
1 TTTTCT TTTTCT TTTTCT TTTTCT TTTTCT TT
99134778 GTTATAATTG
Statistics
Matches: 24, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
6 24 1.00
ACGTcount: A:0.03, C:0.12, G:0.00, T:0.84
Consensus pattern (6 bp):
TTTTCT
Found at i:99134767 original size:18 final size:19
Alignment explanation
Indices: 99134746--99134782 Score: 67
Period size: 18 Copynumber: 2.0 Consensus size: 19
99134736 TTCTAAAATC
99134746 TTTTCTTTTTCTTT-TTAT
1 TTTTCTTTTTCTTTGTTAT
99134764 TTTTCTTTTTCTTTGTTAT
1 TTTTCTTTTTCTTTGTTAT
99134783 AATTGGAAAA
Statistics
Matches: 18, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
18 14 0.78
19 4 0.22
ACGTcount: A:0.05, C:0.11, G:0.03, T:0.81
Consensus pattern (19 bp):
TTTTCTTTTTCTTTGTTAT
Found at i:99153538 original size:1 final size:1
Alignment explanation
Indices: 99153519--99153558 Score: 53
Period size: 1 Copynumber: 40.0 Consensus size: 1
99153509 GAGTATCATG
* * *
99153519 TTTTTCTTTTCTTTCTTTTTTTTTTTTTTTTTTTTTTTTT
1 TTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTT
99153559 GTCAATAGGG
Statistics
Matches: 33, Mismatches: 6, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
1 33 1.00
ACGTcount: A:0.00, C:0.07, G:0.00, T:0.93
Consensus pattern (1 bp):
T
Found at i:99153984 original size:38 final size:38
Alignment explanation
Indices: 99153936--99154013 Score: 138
Period size: 38 Copynumber: 2.1 Consensus size: 38
99153926 ATTACTTACA
*
99153936 AACAACCATATAATAATCATTTAGGAATTTAATTTATC
1 AACAACCATATAATAATCATTTAGAAATTTAATTTATC
*
99153974 AACAACCATATAATAATCGTTTAGAAATTTAATTTATC
1 AACAACCATATAATAATCATTTAGAAATTTAATTTATC
99154012 AA
1 AA
99154014 ATAGCCTTAA
Statistics
Matches: 38, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
38 38 1.00
ACGTcount: A:0.46, C:0.13, G:0.05, T:0.36
Consensus pattern (38 bp):
AACAACCATATAATAATCATTTAGAAATTTAATTTATC
Found at i:99155175 original size:1 final size:1
Alignment explanation
Indices: 99155165--99155213 Score: 53
Period size: 1 Copynumber: 49.0 Consensus size: 1
99155155 TCCCTGTGAG
* * * **
99155165 TTTTTCTTTTTTCTTTTCTTTTTTCCTTTTTTTTTTTTTTTTTTTTTTT
1 TTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTT
99155214 GGAGGGGATG
Statistics
Matches: 40, Mismatches: 8, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
1 40 1.00
ACGTcount: A:0.00, C:0.10, G:0.00, T:0.90
Consensus pattern (1 bp):
T
Found at i:99160551 original size:28 final size:28
Alignment explanation
Indices: 99160510--99160565 Score: 103
Period size: 28 Copynumber: 2.0 Consensus size: 28
99160500 AGTTCATGTT
*
99160510 CATAGTCTCGTGATTACCTTTAGCACAG
1 CATAGTCTCATGATTACCTTTAGCACAG
99160538 CATAGTCTCATGATTACCTTTAGCACAG
1 CATAGTCTCATGATTACCTTTAGCACAG
99160566 ATGAATAGCT
Statistics
Matches: 27, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
28 27 1.00
ACGTcount: A:0.27, C:0.25, G:0.16, T:0.32
Consensus pattern (28 bp):
CATAGTCTCATGATTACCTTTAGCACAG
Found at i:99162932 original size:21 final size:18
Alignment explanation
Indices: 99162902--99162947 Score: 56
Period size: 21 Copynumber: 2.4 Consensus size: 18
99162892 ATTTGTCTTT
*
99162902 TTTTAATTTAATATTTTTGAG
1 TTTTATTTTAA-ATTTTT--G
99162923 TTTTATTTTAAATTTTTG
1 TTTTATTTTAAATTTTTG
99162941 TTTTATT
1 TTTTATT
99162948 GAAAAGATAA
Statistics
Matches: 24, Mismatches: 1, Indels: 3
0.86 0.04 0.11
Matches are distributed among these distances:
18 8 0.33
20 6 0.25
21 10 0.42
ACGTcount: A:0.24, C:0.00, G:0.07, T:0.70
Consensus pattern (18 bp):
TTTTATTTTAAATTTTTG
Found at i:99162937 original size:20 final size:21
Alignment explanation
Indices: 99162902--99162940 Score: 62
Period size: 21 Copynumber: 1.9 Consensus size: 21
99162892 ATTTGTCTTT
99162902 TTTTAATTTAATATTTTTGAG
1 TTTTAATTTAATATTTTTGAG
*
99162923 TTTTATTTTAA-ATTTTTG
1 TTTTAATTTAATATTTTTG
99162941 TTTTATTGAA
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
20 7 0.41
21 10 0.59
ACGTcount: A:0.26, C:0.00, G:0.08, T:0.67
Consensus pattern (21 bp):
TTTTAATTTAATATTTTTGAG
Found at i:99165819 original size:12 final size:13
Alignment explanation
Indices: 99165796--99165821 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
99165786 AAAATTTTAA
99165796 AATTTTTAAAAAT
1 AATTTTTAAAAAT
99165809 AATTTTTAAAAAT
1 AATTTTTAAAAAT
99165822 GTTATAAATT
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:0.54, C:0.00, G:0.00, T:0.46
Consensus pattern (13 bp):
AATTTTTAAAAAT
Found at i:99165847 original size:17 final size:17
Alignment explanation
Indices: 99165827--99165864 Score: 51
Period size: 17 Copynumber: 2.2 Consensus size: 17
99165817 AAAATGTTAT
99165827 AAATTAGAAAAACA-TAA
1 AAATTA-AAAAACATTAA
*
99165844 AAATTATAAAACATTAA
1 AAATTAAAAAACATTAA
99165861 AAAT
1 AAAT
99165865 ACATTAAAAA
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
16 6 0.32
17 13 0.68
ACGTcount: A:0.68, C:0.05, G:0.03, T:0.24
Consensus pattern (17 bp):
AAATTAAAAAACATTAA
Found at i:99166713 original size:22 final size:22
Alignment explanation
Indices: 99166687--99166728 Score: 66
Period size: 22 Copynumber: 1.9 Consensus size: 22
99166677 AACGAATCTA
**
99166687 GTTAATGGCCGACAGATCAAAT
1 GTTAATGGAAGACAGATCAAAT
99166709 GTTAATGGAAGACAGATCAA
1 GTTAATGGAAGACAGATCAA
99166729 CAAAAGTGAC
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
22 18 1.00
ACGTcount: A:0.40, C:0.14, G:0.24, T:0.21
Consensus pattern (22 bp):
GTTAATGGAAGACAGATCAAAT
Found at i:99167845 original size:19 final size:20
Alignment explanation
Indices: 99167823--99167870 Score: 57
Period size: 19 Copynumber: 2.5 Consensus size: 20
99167813 CTAGACATCC
99167823 TTAAATTATTATCTTT-ATT
1 TTAAATTATTATCTTTAATT
99167842 TTAAATTA--ATCTTTAAATT
1 TTAAATTATTATCTTT-AATT
*
99167861 TTAAAATATT
1 TTAAATTATT
99167871 TTAATTATAT
Statistics
Matches: 24, Mismatches: 1, Indels: 6
0.77 0.03 0.19
Matches are distributed among these distances:
17 6 0.25
19 18 0.75
ACGTcount: A:0.40, C:0.04, G:0.00, T:0.56
Consensus pattern (20 bp):
TTAAATTATTATCTTTAATT
Found at i:99167886 original size:28 final size:30
Alignment explanation
Indices: 99167838--99167893 Score: 73
Period size: 29 Copynumber: 1.9 Consensus size: 30
99167828 TTATTATCTT
*
99167838 TATTTTAAATTAATCTTTAAATT-TTAAAA
1 TATTTTAAATTAATCTCTAAATTATTAAAA
99167867 TATTTT-AATTATATC-CTAAATTATTAA
1 TATTTTAAATTA-ATCTCTAAATTATTAA
99167894 TATTATAACA
Statistics
Matches: 24, Mismatches: 1, Indels: 4
0.83 0.03 0.14
Matches are distributed among these distances:
28 11 0.46
29 13 0.54
ACGTcount: A:0.43, C:0.05, G:0.00, T:0.52
Consensus pattern (30 bp):
TATTTTAAATTAATCTCTAAATTATTAAAA
Found at i:99173311 original size:48 final size:47
Alignment explanation
Indices: 99173199--99173341 Score: 169
Period size: 48 Copynumber: 3.0 Consensus size: 47
99173189 ACGGATGAAG
* *
99173199 TAGTCGGTAGTTTATCTACACGACCAGTGGTTCATCCACAACGCATTT
1 TAGTCGGTAG-TTATCTACACGACTAGTGGTTCATCCACAACGTATTT
*** * * *
99173247 TAGTCAACAGTCTATCTGCACAACTAGTGGTTCATCCACAATGTATTT
1 TAGTCGGTAGT-TATCTACACGACTAGTGGTTCATCCACAACGTATTT
* *
99173295 TAGTTGGTAGCTTATCTACATGACTAGTGGTTCATCCACAACGTATT
1 TAGTCGGTAG-TTATCTACACGACTAGTGGTTCATCCACAACGTATT
99173342 AGTAGTTTTT
Statistics
Matches: 77, Mismatches: 16, Indels: 4
0.79 0.16 0.04
Matches are distributed among these distances:
47 1 0.01
48 75 0.97
49 1 0.01
ACGTcount: A:0.27, C:0.22, G:0.17, T:0.34
Consensus pattern (47 bp):
TAGTCGGTAGTTATCTACACGACTAGTGGTTCATCCACAACGTATTT
Found at i:99173840 original size:17 final size:16
Alignment explanation
Indices: 99173804--99173844 Score: 55
Period size: 16 Copynumber: 2.5 Consensus size: 16
99173794 ATTAAGAAGT
* *
99173804 ATTTTAGATTTTTTTT
1 ATTTGAGATTTTTTTA
99173820 ATTTGAGATTTTTGTTA
1 ATTTGAGATTTTT-TTA
99173837 ATTTGAGA
1 ATTTGAGA
99173845 ACTGTATCGA
Statistics
Matches: 22, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
16 12 0.55
17 10 0.45
ACGTcount: A:0.24, C:0.00, G:0.15, T:0.61
Consensus pattern (16 bp):
ATTTGAGATTTTTTTA
Found at i:99174359 original size:19 final size:19
Alignment explanation
Indices: 99174337--99174375 Score: 69
Period size: 19 Copynumber: 2.1 Consensus size: 19
99174327 ATGCTTTTTG
*
99174337 GAAAATTATTTACTTTTCT
1 GAAAATGATTTACTTTTCT
99174356 GAAAATGATTTACTTTTCT
1 GAAAATGATTTACTTTTCT
99174375 G
1 G
99174376 GTGTTTGGAT
Statistics
Matches: 19, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
19 19 1.00
ACGTcount: A:0.31, C:0.10, G:0.10, T:0.49
Consensus pattern (19 bp):
GAAAATGATTTACTTTTCT
Found at i:99174482 original size:22 final size:21
Alignment explanation
Indices: 99174455--99174495 Score: 73
Period size: 22 Copynumber: 1.9 Consensus size: 21
99174445 TTGTTTTTAC
99174455 ATATATTAATAAATTTATATAT
1 ATATATTAATAAA-TTATATAT
99174477 ATATATTAATAAATTATAT
1 ATATATTAATAAATTATAT
99174496 TTTAAATTGT
Statistics
Matches: 19, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
21 6 0.32
22 13 0.68
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (21 bp):
ATATATTAATAAATTATATAT
Found at i:99174948 original size:12 final size:12
Alignment explanation
Indices: 99174931--99174956 Score: 52
Period size: 12 Copynumber: 2.2 Consensus size: 12
99174921 CAATTCTTGT
99174931 ATGCCTACAAAA
1 ATGCCTACAAAA
99174943 ATGCCTACAAAA
1 ATGCCTACAAAA
99174955 AT
1 AT
99174957 CAACTCAAGA
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 14 1.00
ACGTcount: A:0.50, C:0.23, G:0.08, T:0.19
Consensus pattern (12 bp):
ATGCCTACAAAA
Found at i:99179300 original size:13 final size:14
Alignment explanation
Indices: 99179284--99179325 Score: 50
Period size: 13 Copynumber: 2.9 Consensus size: 14
99179274 TTTTAATTTT
99179284 ATTTTAATAATA-A
1 ATTTTAATAATATA
*
99179297 ATTTTAAAAATAATA
1 ATTTTAATAAT-ATA
99179312 ATTTTAAATAATAT
1 ATTTT-AATAATAT
99179326 TATTGACATA
Statistics
Matches: 24, Mismatches: 2, Indels: 4
0.80 0.07 0.13
Matches are distributed among these distances:
13 10 0.42
14 1 0.04
15 8 0.33
16 5 0.21
ACGTcount: A:0.55, C:0.00, G:0.00, T:0.45
Consensus pattern (14 bp):
ATTTTAATAATATA
Found at i:99179310 original size:16 final size:16
Alignment explanation
Indices: 99179288--99179324 Score: 58
Period size: 16 Copynumber: 2.3 Consensus size: 16
99179278 AATTTTATTT
99179288 TAATAATAAATTTTAAA
1 TAATAAT-AATTTTAAA
99179305 -AATAATAATTTTAAA
1 TAATAATAATTTTAAA
99179320 TAATA
1 TAATA
99179325 TTATTGACAT
Statistics
Matches: 19, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
15 9 0.47
16 10 0.53
ACGTcount: A:0.59, C:0.00, G:0.00, T:0.41
Consensus pattern (16 bp):
TAATAATAATTTTAAA
Found at i:99179903 original size:14 final size:14
Alignment explanation
Indices: 99179868--99179906 Score: 60
Period size: 14 Copynumber: 2.8 Consensus size: 14
99179858 CCAGAAAAAT
*
99179868 AAATCATATTCCAG
1 AAATCATTTTCCAG
99179882 AAATCATTTTCCAG
1 AAATCATTTTCCAG
*
99179896 AAGTCATTTTC
1 AAATCATTTTC
99179907 AGTGAAACAA
Statistics
Matches: 23, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
14 23 1.00
ACGTcount: A:0.36, C:0.21, G:0.08, T:0.36
Consensus pattern (14 bp):
AAATCATTTTCCAG
Found at i:99186752 original size:22 final size:22
Alignment explanation
Indices: 99186727--99186771 Score: 72
Period size: 22 Copynumber: 2.0 Consensus size: 22
99186717 ACTAAAACTG
99186727 TAGGAATATTCTGTAAATATTT
1 TAGGAATATTCTGTAAATATTT
* *
99186749 TAGGAATATTTTGTAGATATTT
1 TAGGAATATTCTGTAAATATTT
99186771 T
1 T
99186772 TTTTATTAAA
Statistics
Matches: 21, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
22 21 1.00
ACGTcount: A:0.33, C:0.02, G:0.16, T:0.49
Consensus pattern (22 bp):
TAGGAATATTCTGTAAATATTT
Found at i:99190531 original size:22 final size:22
Alignment explanation
Indices: 99190503--99190547 Score: 72
Period size: 22 Copynumber: 2.0 Consensus size: 22
99190493 AGGGGGAGTG
99190503 TAGGAATATTCTGTAAATATTT
1 TAGGAATATTCTGTAAATATTT
* *
99190525 TAGGAATATTTTGTAGATATTT
1 TAGGAATATTCTGTAAATATTT
99190547 T
1 T
99190548 TTTTATTAAA
Statistics
Matches: 21, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
22 21 1.00
ACGTcount: A:0.33, C:0.02, G:0.16, T:0.49
Consensus pattern (22 bp):
TAGGAATATTCTGTAAATATTT
Found at i:99205298 original size:128 final size:128
Alignment explanation
Indices: 99205098--99205336 Score: 309
Period size: 128 Copynumber: 1.9 Consensus size: 128
99205088 GACTAATATG
* * * * * * * * *
99205098 TCATCTATGAAGTCCAATTGAGGAGATGTTTTGTCTTAGGCATTGGAGTGGATGACTCCTAGAAG
1 TCATCTATCAAGTCCAATTGAGGAGATGTTTTGTCATAGACATTAGAGCGAAAGACTCCCAAAAG
* * *
99205163 ATAAAGACTTAGATGTGACTAACTAGACTGATAGTACATCGAACTAGACTCAAGAAGAATAGA
66 ATAAAGACATAGATGCGACTAACTAGACTGACAGTACATCGAACTAGACTCAAGAAGAATAGA
* * *
99205226 TCATGTATCAAGTCCAATTGGGGATATGTTTTGTCAT-GCACATTAGAGCGAAAGACTCCCAAAA
1 TCATCTATCAAGTCCAATTGAGGAGATGTTTTGTCATAG-ACATTAGAGCGAAAGACTCCCAAAA
* *
99205290 GATAAAGACATAGATGCGACTGACTAGACTGACAGTACATCGGACTA
65 GATAAAGACATAGATGCGACTAACTAGACTGACAGTACATCGAACTA
99205337 TACCCAAGGT
Statistics
Matches: 93, Mismatches: 17, Indels: 2
0.83 0.15 0.02
Matches are distributed among these distances:
127 1 0.01
128 92 0.99
ACGTcount: A:0.35, C:0.16, G:0.23, T:0.26
Consensus pattern (128 bp):
TCATCTATCAAGTCCAATTGAGGAGATGTTTTGTCATAGACATTAGAGCGAAAGACTCCCAAAAG
ATAAAGACATAGATGCGACTAACTAGACTGACAGTACATCGAACTAGACTCAAGAAGAATAGA
Found at i:99205373 original size:22 final size:22
Alignment explanation
Indices: 99205345--99205388 Score: 88
Period size: 22 Copynumber: 2.0 Consensus size: 22
99205335 TATACCCAAG
99205345 GTGTGGATTTATTCACTTGTGA
1 GTGTGGATTTATTCACTTGTGA
99205367 GTGTGGATTTATTCACTTGTGA
1 GTGTGGATTTATTCACTTGTGA
99205389 CGTTCAAAGT
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
22 22 1.00
ACGTcount: A:0.18, C:0.09, G:0.27, T:0.45
Consensus pattern (22 bp):
GTGTGGATTTATTCACTTGTGA
Found at i:99219839 original size:38 final size:37
Alignment explanation
Indices: 99219797--99219977 Score: 256
Period size: 38 Copynumber: 4.8 Consensus size: 37
99219787 CTAAAGACCT
* *
99219797 GCAGGCTATATGCTGG-AATTATATCCGGGTTAAATCTC
1 GCAGGCT-TGTGCTGGTAA-TATATCCGGGTTAAATCCC
99219835 GCAGGCTTTGTGCTGGTAATATATCCGGGTTAAATCCC
1 GCAGGC-TTGTGCTGGTAATATATCCGGGTTAAATCCC
99219873 GCAGGCTTCGTGCTGGTAATATATCCGGGTTAAATCCC
1 GCAGGCTT-GTGCTGGTAATATATCCGGGTTAAATCCC
99219911 GCAGGCTTCGTGCTGGTAATATATCCGGGTTAAATCCC
1 GCAGGCTT-GTGCTGGTAATATATCCGGGTTAAATCCC
* * *
99219949 GCAGGCCTAGTGCTGGTATTATATTCGGG
1 GCAGG-CTTGTGCTGGTAATATATCCGGG
99219978 CCTTCGTGCC
Statistics
Matches: 134, Mismatches: 5, Indels: 8
0.91 0.03 0.05
Matches are distributed among these distances:
37 2 0.01
38 127 0.95
39 5 0.04
ACGTcount: A:0.22, C:0.21, G:0.27, T:0.30
Consensus pattern (37 bp):
GCAGGCTTGTGCTGGTAATATATCCGGGTTAAATCCC
Found at i:99220023 original size:43 final size:43
Alignment explanation
Indices: 99219970--99220080 Score: 186
Period size: 43 Copynumber: 2.6 Consensus size: 43
99219960 GCTGGTATTA
* *
99219970 TATTCGGGCCTTCGTGCCTAACAGGCTTCGTGCCGGTGATGTG
1 TATTCGGGCCTTCGTGCCTAGCAGGCTTCGTGCCAGTGATGTG
* *
99220013 TATTTGGGCCTTCATGCCTAGCAGGCTTCGTGCCAGTGATGTG
1 TATTCGGGCCTTCGTGCCTAGCAGGCTTCGTGCCAGTGATGTG
99220056 TATTCGGGCCTTCGTGCCTAGCAGG
1 TATTCGGGCCTTCGTGCCTAGCAGG
99220081 TGTAATGCTG
Statistics
Matches: 62, Mismatches: 6, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
43 62 1.00
ACGTcount: A:0.13, C:0.25, G:0.32, T:0.31
Consensus pattern (43 bp):
TATTCGGGCCTTCGTGCCTAGCAGGCTTCGTGCCAGTGATGTG
Found at i:99220479 original size:45 final size:45
Alignment explanation
Indices: 99220412--99220522 Score: 131
Period size: 45 Copynumber: 2.5 Consensus size: 45
99220402 TTGATTTGAT
* * *
99220412 TATTCGGGCCTTT-GAGCTTAGCAGACTATAATGCCGGTGAGAT-A
1 TATTCGGG-CTTTCGAGCCTAGCAGACTATAATGCCGATGAAATGA
*
99220456 CTATTCGGGCTTTCGAGCCTAGCAGGCTATAATGCCGATGAAATGA
1 -TATTCGGGCTTTCGAGCCTAGCAGACTATAATGCCGATGAAATGA
*
99220502 TATT-GGGC-CTCGAGCCTAGCA
1 TATTCGGGCTTTCGAGCCTAGCA
99220523 AGCGAAATGA
Statistics
Matches: 59, Mismatches: 5, Indels: 6
0.84 0.07 0.09
Matches are distributed among these distances:
43 12 0.20
44 8 0.14
45 38 0.64
46 1 0.02
ACGTcount: A:0.24, C:0.22, G:0.27, T:0.27
Consensus pattern (45 bp):
TATTCGGGCTTTCGAGCCTAGCAGACTATAATGCCGATGAAATGA
Found at i:99225713 original size:57 final size:56
Alignment explanation
Indices: 99225644--99225780 Score: 166
Period size: 56 Copynumber: 2.4 Consensus size: 56
99225634 GTTAAAGTCT
* ** * *
99225644 GGATTTAGCCTGGATTGGTAATCCAGATTAAGCTCTTTAGAGTATTTGTCACAGAAA
1 GGATTTAGCCTGGACTGGTAATCCAGACAAAGCTC-TTAGAGCATATGTCACAGAAA
* * **
99225701 GGATTTAGCCTGGACTGGTAATCCTGACAAAGCTCTTAGAGCATATGTTACAGGCA
1 GGATTTAGCCTGGACTGGTAATCCAGACAAAGCTCTTAGAGCATATGTCACAGAAA
* *
99225757 GGATTTAGCATGAACTGGTAATCC
1 GGATTTAGCCTGGACTGGTAATCC
99225781 TGTTGTATGA
Statistics
Matches: 69, Mismatches: 11, Indels: 1
0.85 0.14 0.01
Matches are distributed among these distances:
56 38 0.55
57 31 0.45
ACGTcount: A:0.29, C:0.17, G:0.24, T:0.30
Consensus pattern (56 bp):
GGATTTAGCCTGGACTGGTAATCCAGACAAAGCTCTTAGAGCATATGTCACAGAAA
Found at i:99225774 original size:56 final size:56
Alignment explanation
Indices: 99225618--99225782 Score: 170
Period size: 57 Copynumber: 2.9 Consensus size: 56
99225608 AATCCTATGT
* * * * * * * **
99225618 AAGC-CTTTGAGCATCTGTTAAAGTCTGGATTTAGCCTGGATTGGTAATCCAGATT
1 AAGCTCTTAGAGCATATGTTACAGACAGGATTTAGCCTGGACTGGTAATCCTGACA
* * * *
99225673 AAGCTCTTTAGAGTATTTGTCACAGAAAGGATTTAGCCTGGACTGGTAATCCTGACA
1 AAGCTC-TTAGAGCATATGTTACAGACAGGATTTAGCCTGGACTGGTAATCCTGACA
* * *
99225730 AAGCTCTTAGAGCATATGTTACAGGCAGGATTTAGCATGAACTGGTAATCCTG
1 AAGCTCTTAGAGCATATGTTACAGACAGGATTTAGCCTGGACTGGTAATCCTG
99225783 TTGTATGATA
Statistics
Matches: 89, Mismatches: 19, Indels: 3
0.80 0.17 0.03
Matches are distributed among these distances:
55 4 0.04
56 41 0.46
57 44 0.49
ACGTcount: A:0.28, C:0.17, G:0.24, T:0.31
Consensus pattern (56 bp):
AAGCTCTTAGAGCATATGTTACAGACAGGATTTAGCCTGGACTGGTAATCCTGACA
Found at i:99226830 original size:31 final size:31
Alignment explanation
Indices: 99226795--99226902 Score: 94
Period size: 31 Copynumber: 3.3 Consensus size: 31
99226785 ATCACTTTAA
99226795 TATTAAATTAATAAAATACTATTAAAATAAG
1 TATTAAATTAATAAAATACTATTAAAATAAG
* * *
99226826 TATTAAAGTAAATTTAATATTACTA-TAACTACTTTAA-
1 TATTAAA-TTAA--TAA-AATACTATTAA--A--ATAAG
*
99226863 TATTAAATTAATAAAATACTATTAAGATAAG
1 TATTAAATTAATAAAATACTATTAAAATAAG
99226894 TATTAAATT
1 TATTAAATT
99226903 TAATTTAATA
Statistics
Matches: 60, Mismatches: 7, Indels: 20
0.69 0.08 0.23
Matches are distributed among these distances:
30 3 0.05
31 16 0.27
32 3 0.05
33 6 0.10
34 12 0.20
35 6 0.10
36 4 0.07
37 7 0.12
38 3 0.05
ACGTcount: A:0.52, C:0.05, G:0.04, T:0.40
Consensus pattern (31 bp):
TATTAAATTAATAAAATACTATTAAAATAAG
Found at i:99226831 original size:68 final size:67
Alignment explanation
Indices: 99226759--99226916 Score: 246
Period size: 68 Copynumber: 2.3 Consensus size: 67
99226749 CAAGATAAAC
99226759 ATTAAATAAAATTTAATATTAATATAA-TCACTTTAATATTAAATTAATAAAATACTATTAAAAT
1 ATTAAAT-AAATTTAATATTAATATAACT-ACTTTAATATTAAATTAATAAAATACTATTAAAAT
99226823 AAGT
64 AAGT
* *
99226827 ATTAAAGTAAATTTAATATTACTATAACTACTTTAATATTAAATTAATAAAATACTATTAAGATA
1 ATTAAA-TAAATTTAATATTAATATAACTACTTTAATATTAAATTAATAAAATACTATTAAAATA
99226892 AGT
65 AGT
*
99226895 ATTAAATTTAATTTAATATTAA
1 ATTAAA-TAAATTTAATATTAA
99226917 ATTATTAAAA
Statistics
Matches: 83, Mismatches: 5, Indels: 4
0.90 0.05 0.04
Matches are distributed among these distances:
68 81 0.98
69 2 0.02
ACGTcount: A:0.52, C:0.04, G:0.03, T:0.41
Consensus pattern (67 bp):
ATTAAATAAATTTAATATTAATATAACTACTTTAATATTAAATTAATAAAATACTATTAAAATAA
GT
Found at i:99240484 original size:22 final size:22
Alignment explanation
Indices: 99240458--99240527 Score: 61
Period size: 22 Copynumber: 3.0 Consensus size: 22
99240448 TTTCACATTC
99240458 ATCACATTGGCCATTCGACCTT
1 ATCACATTGGCCATTCGACCTT
* * *
99240480 ATCACATGTATGCACTTTC-ACATT
1 ATCACAT-T-GGC-CATTCGACCTT
*
99240504 CATCACATTGGCCATTCGATCTT
1 -ATCACATTGGCCATTCGACCTT
99240527 A
1 A
99240528 AGCTAGATAT
Statistics
Matches: 36, Mismatches: 7, Indels: 10
0.68 0.13 0.19
Matches are distributed among these distances:
22 12 0.33
23 6 0.17
24 7 0.19
25 11 0.31
ACGTcount: A:0.26, C:0.29, G:0.11, T:0.34
Consensus pattern (22 bp):
ATCACATTGGCCATTCGACCTT
Found at i:99240522 original size:47 final size:47
Alignment explanation
Indices: 99240319--99240521 Score: 268
Period size: 47 Copynumber: 4.3 Consensus size: 47
99240309 TGCACACTTT
* * *
99240319 TCACAATTGGTCATTCGGCCTTATCACA--TATTCACTTACACATAT-A
1 TCAC-ATTGGCCATTCGGCCTTATCACATGTATGCACTTTCACAT-TCA
**
99240365 TCACATTAACCATTCGGCCTTATCACATGTATGCACTTTCACATTCA
1 TCACATTGGCCATTCGGCCTTATCACATGTATGCACTTTCACATTCA
* * * **
99240412 TCACATTGGCCCTTCGGCCTTATCACGTATACACACTTTCACATTCA
1 TCACATTGGCCATTCGGCCTTATCACATGTATGCACTTTCACATTCA
*
99240459 TCACATTGGCCATTCGACCTTATCACATGTATGCACTTTCACATTCA
1 TCACATTGGCCATTCGGCCTTATCACATGTATGCACTTTCACATTCA
99240506 TCACATTGGCCATTCG
1 TCACATTGGCCATTCG
99240522 ATCTTAAGCT
Statistics
Matches: 136, Mismatches: 18, Indels: 5
0.86 0.11 0.03
Matches are distributed among these distances:
45 20 0.15
46 5 0.04
47 111 0.82
ACGTcount: A:0.26, C:0.30, G:0.10, T:0.33
Consensus pattern (47 bp):
TCACATTGGCCATTCGGCCTTATCACATGTATGCACTTTCACATTCA
Found at i:99257177 original size:18 final size:18
Alignment explanation
Indices: 99257146--99257183 Score: 51
Period size: 18 Copynumber: 2.1 Consensus size: 18
99257136 ATATCATATT
99257146 TTATAGTACAAATTATAA
1 TTATAGTACAAATTATAA
*
99257164 TTATA-TACATAATTTTAA
1 TTATAGTACA-AATTATAA
99257182 TT
1 TT
99257184 CTAAAAAAAA
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
17 4 0.22
18 14 0.78
ACGTcount: A:0.45, C:0.05, G:0.03, T:0.47
Consensus pattern (18 bp):
TTATAGTACAAATTATAA
Found at i:99258619 original size:29 final size:28
Alignment explanation
Indices: 99258566--99258620 Score: 67
Period size: 29 Copynumber: 1.9 Consensus size: 28
99258556 ATGTCCAATT
*
99258566 ATAAAAAATATTATTTTAGGCATTTAAA
1 ATAAAAAATATTATTTTAAGCATTTAAA
*
99258594 ATAAAAAA-ATTATAATTTAAGTATTTA
1 ATAAAAAATATTAT--TTTAAGCATTTA
99258621 TATTGTGTAA
Statistics
Matches: 23, Mismatches: 2, Indels: 3
0.82 0.07 0.11
Matches are distributed among these distances:
27 5 0.22
28 8 0.35
29 10 0.43
ACGTcount: A:0.53, C:0.02, G:0.05, T:0.40
Consensus pattern (28 bp):
ATAAAAAATATTATTTTAAGCATTTAAA
Found at i:99259794 original size:17 final size:17
Alignment explanation
Indices: 99259729--99259794 Score: 57
Period size: 17 Copynumber: 3.9 Consensus size: 17
99259719 TATTTTTTTG
99259729 AATTT-TTTATTTAT-A
1 AATTTATTTATTTATAA
* * *
99259744 TATATATTTATTTAATTA
1 AATTTATTTATTT-ATAA
*
99259762 AA-TTATTTGATATATAA
1 AATTTATTT-ATTTATAA
99259779 AATTTATTTATTTATA
1 AATTTATTTATTTATA
99259795 CACGTATCAC
Statistics
Matches: 39, Mismatches: 7, Indels: 8
0.72 0.13 0.15
Matches are distributed among these distances:
15 3 0.08
16 7 0.18
17 18 0.46
18 11 0.28
ACGTcount: A:0.39, C:0.00, G:0.02, T:0.59
Consensus pattern (17 bp):
AATTTATTTATTTATAA
Found at i:99261750 original size:30 final size:30
Alignment explanation
Indices: 99261715--99261791 Score: 100
Period size: 30 Copynumber: 2.6 Consensus size: 30
99261705 ACACAAATTC
**
99261715 TTAAGAAAAGAATTATTCTTAACACATAGG
1 TTAAGAAAAGAATTATTCACAACACATAGG
* **
99261745 TTAAGAAAAGAATGATTCACAACACATATT
1 TTAAGAAAAGAATTATTCACAACACATAGG
*
99261775 TTAAGAAAAGATTTATT
1 TTAAGAAAAGAATTATT
99261792 GATCACAATT
Statistics
Matches: 40, Mismatches: 7, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
30 40 1.00
ACGTcount: A:0.48, C:0.09, G:0.12, T:0.31
Consensus pattern (30 bp):
TTAAGAAAAGAATTATTCACAACACATAGG
Found at i:99268094 original size:405 final size:393
Alignment explanation
Indices: 99267143--99268549 Score: 1468
Period size: 399 Copynumber: 3.6 Consensus size: 393
99267133 CAGTGTGGGA
* *
99267143 CTGCCTGTTCTTGAAGCAAGATCAGTAGAAGATATTGATTTGGCATTTAAGCAACTTCATGAAGG
1 CTGCCTGTTCTTGAAGCAAGATCAGTTGAAGATATTGATTTGGCTTTTAAGCAACTTCATGAAGG
* * * * *
99267208 AGCTGATTTTGAGGAAGTAATTCTTCCAAGGATGATTAAGAATCAGCCGGATCATGCAGATACGA
66 AG-TGATGTTGAGGAAGTAATTCTTCCAAGCATGATTGAGAATCAGCCGGATCATGAAGATAC-C
** ** * * *
99267273 AC-TCGGATTTACCTGTTGTCGAGGTGAGATCTCTGGAGGATATACATAATGCTTTGC-TACAGG
129 ACTTCAAATTTACCTGTTGTCGAGGCAAGATCTCTGGAGGATATACATAATGCTTTCCAAAAAGG
*
99267336 ACCCAGAACCTAATCTAGCTCAGCTGCCACATTCCACAGACTTGAGGAATGGATCATCAGAAGTA
194 A-CCAGAACCTAATCTAGCTGAGCTGCCACA-TCCACAGACTTGAGGAATGGATCATCAGAAGTA
* * * *
99267401 GAGCAGCATGTTATTGTTTCTTCTGAA-GAGATTGAAGTTAGTAATGCTGTCTCTGGTATTGAAG
257 GAGCAGCATGATGTGGTTT-TTCT-AATGAGATTGAAGTT-G-AA-GCAGTCTCTGGT-TTGAAG
* * * * * * * * **
99267465 AAGGTTTTGATAATGCTGCTGGTGAACCCAAAAATG-AA-GAAGAAATAGAAGAACTAAAGACAG
316 AA-ATATTCAGAATGCTCCTGGTGAACCAAAAAATGAAATGAAGAAATAGAAGAAATGAAGATGG
* *
99267528 AAACCAATGTGGAG
380 AGACCAATGCGGAG
* *
99267542 TTACCTGTTCTTGAAGCAAGATCAGTTGAAGATATTGATTTGGCTTTTAAGCAACTTCATGAAGG
1 CTGCCTGTTCTTGAAGCAAGATCAGTTGAAGATATTGATTTGGCTTTTAAGCAACTTCATGAAGG
* * *
99267607 AGTGGATGTTGAGGAAGTAATTCTTCCAAGTATGATTGAGAATCTGCCAGATCAT-ACAGATACC
66 AGT-GATGTTGAGGAAGTAATTCTTCCAAGCATGATTGAGAATCAGCCGGATCATGA-AGATACC
* *
99267671 ACTTCAGAATTT-CCTGTTGTTGAGGCAATATCTCTGGATGG-TATACATAATGCTTT-CATAAA
129 ACTTCA-AATTTACCTGTTGTCGAGGCAAGATCTCTGGA-GGATATACATAATGCTTTCCA-AAA
* * * *
99267733 AGGACCGGAACCTAATCCAGCTGAGCTGCCACATACAGCAGACTTGAGGCATGGATCATCAGAAG
191 AGGACCAGAACCTAATCTAGCTGAGCTGCCACATCCA-CAGACTTGAGGAATGGATCATCAGAAG
99267798 TAGAGCAGCATGATGTGGTTTGTTCTAATGAGATTGAAGTTGGCCAAGCAGTCTCTGGCTTTGAA
255 TAGAGCAGCATGATGTGGTTT-TTCTAATGAGATTGAAGTT-G--AAGCAGTCTCTGG-TTTGAA
* * *
99267863 GAACATCTTCAGAACGTTGCTCCTGGTGAACCAAAAAAAGAATATGAAGAAATAGAAGAATTGAA
315 GAA-ATATTCAGAA---TGCTCCTGGTGAACCAAAAAATGAA-ATGAAGAAATAGAAGAAATGAA
99267928 GATGGAGACCAATGCGGAG
375 GATGGAGACCAATGCGGAG
* * *
99267947 CTGCCTGTTCTGGATGCAAGATCGGTTGAAGATATTGATTTGGCTTTTAAGCAACTTCATGAAGG
1 CTGCCTGTTCTTGAAGCAAGATCAGTTGAAGATATTGATTTGGCTTTTAAGCAACTTCATGAAGG
* * * * * * * *
99268012 TGTAGATGTTGAGGAAGTAGTACTTGCAAGCATGATTGAGGATCAGCTGGGTCATGAAGATTCCA
66 AGT-GATGTTGAGGAAGTAATTCTTCCAAGCATGATTGAGAATCAGCCGGATCATGAAGATACCA
* *
99268077 CTTCAAAGTTACCTGTTGTCGAGGCAAGATCTCTGGAGGATATACATAATGCTTTCCAAAAAGGT
130 CTTCAAATTTACCTGTTGTCGAGGCAAGATCTCTGGAGGATATACATAATGCTTTCCAAAAAGGA
* * * * * *
99268142 CCAGAACCTAATCTGGCCGAGCTGCCACTTTCCACAGACTTGAGAAATGGATCATCAGAAATGGA
195 CCAGAACCTAATCTAGCTGAGCTGCCAC-ATCCACAGACTTGAGGAATGGATCATCAGAAGTAGA
* * *
99268207 GCAGCATGATGCGG--TTTCTAAT-A-A-AG-AGATTG-A--A-------G-TTG-A-AAATAGT
259 GCAGCATGATGTGGTTTTTCTAATGAGATTGAAG-TTGAAGCAGTCTCTGGTTTGAAGAAATATT
* * * *
99268253 CAGAATGCTGCC-AGTGAACCAAAAAATGACCATGAAGAAACAGAGGAAATGAAGATGGAGACCA
323 CAGAATGCT-CCTGGTGAACCAAAAAATGA-AATGAAGAAATAGAAGAAATGAAGATGGAGACCA
*
99268317 ATGCAGAG
386 ATGCGGAG
* * * *
99268325 CTGCCTGTTCTTGAAGCAAGATCACTGGAAGACATTGATTTGGCTTTTAAGCAACTTCATGGAGG
1 CTGCCTGTTCTTGAAGCAAGATCAGTTGAAGATATTGATTTGGCTTTTAAGCAACTTCATGAAGG
* * * *
99268390 AGTTGATGTTGAGGAAGTAATTCTTCCAAGCATGATTGAGAATCAGCAGGGTGATGCAGATACCA
66 AG-TGATGTTGAGGAAGTAATTCTTCCAAGCATGATTGAGAATCAGCCGGATCATGAAGATACCA
* ** * * * * * * * *
99268455 ATTCGGATTTACCAGTTGTTGAGGCGAGATCTCTGGAGGATATACAGAGTGCTTTTCAACAAGGC
130 CTTCAAATTTACCTGTTGTCGAGGCAAGATCTCTGGAGGATATACATAATGCTTTCCAAAAAGGA
* * *
99268520 CCTGAATCTAATCTAGCTGAGGTGCCACAT
195 CCAGAACCTAATCTAGCTGAGCTGCCACAT
99268550 TCCTCAGGAG
Statistics
Matches: 861, Mismatches: 121, Indels: 74
0.82 0.11 0.07
Matches are distributed among these distances:
377 1 0.00
378 244 0.28
379 3 0.00
381 8 0.01
382 2 0.00
383 1 0.00
384 3 0.00
386 1 0.00
393 1 0.00
395 1 0.00
398 12 0.01
399 268 0.31
400 15 0.02
401 1 0.00
402 27 0.03
403 2 0.00
404 7 0.01
405 258 0.30
406 6 0.01
ACGTcount: A:0.32, C:0.17, G:0.25, T:0.27
Consensus pattern (393 bp):
CTGCCTGTTCTTGAAGCAAGATCAGTTGAAGATATTGATTTGGCTTTTAAGCAACTTCATGAAGG
AGTGATGTTGAGGAAGTAATTCTTCCAAGCATGATTGAGAATCAGCCGGATCATGAAGATACCAC
TTCAAATTTACCTGTTGTCGAGGCAAGATCTCTGGAGGATATACATAATGCTTTCCAAAAAGGAC
CAGAACCTAATCTAGCTGAGCTGCCACATCCACAGACTTGAGGAATGGATCATCAGAAGTAGAGC
AGCATGATGTGGTTTTTCTAATGAGATTGAAGTTGAAGCAGTCTCTGGTTTGAAGAAATATTCAG
AATGCTCCTGGTGAACCAAAAAATGAAATGAAGAAATAGAAGAAATGAAGATGGAGACCAATGCG
GAG
Found at i:99269318 original size:4 final size:4
Alignment explanation
Indices: 99269309--99269336 Score: 56
Period size: 4 Copynumber: 7.0 Consensus size: 4
99269299 TCATGTTTTG
99269309 TTGA TTGA TTGA TTGA TTGA TTGA TTGA
1 TTGA TTGA TTGA TTGA TTGA TTGA TTGA
99269337 GTTATTAAAG
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
4 24 1.00
ACGTcount: A:0.25, C:0.00, G:0.25, T:0.50
Consensus pattern (4 bp):
TTGA
Found at i:99271337 original size:20 final size:20
Alignment explanation
Indices: 99271291--99271337 Score: 58
Period size: 20 Copynumber: 2.4 Consensus size: 20
99271281 TTGTACGAGA
99271291 TTGCACTTCGGTGCCCCTAT
1 TTGCACTTCGGTGCCCCTAT
* * * *
99271311 TTACACTTTGGTGTCCCTGT
1 TTGCACTTCGGTGCCCCTAT
99271331 TTGCACT
1 TTGCACT
99271338 ATAGTGCTTT
Statistics
Matches: 22, Mismatches: 5, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
20 22 1.00
ACGTcount: A:0.11, C:0.30, G:0.19, T:0.40
Consensus pattern (20 bp):
TTGCACTTCGGTGCCCCTAT
Found at i:99272668 original size:22 final size:23
Alignment explanation
Indices: 99272615--99272715 Score: 105
Period size: 23 Copynumber: 4.4 Consensus size: 23
99272605 AAAGACGGAT
99272615 AATGAAGATTCTCTGCAATGAAC
1 AATGAAGATTCTCTGCAATGAAC
* *
99272638 AGTGAAGATTTTCTGCAA-GAAC
1 AATGAAGATTCTCTGCAATGAAC
* * *
99272660 AATGGAGATTCTCTACAATGATC
1 AATGAAGATTCTCTGCAATGAAC
* * * * *
99272683 AGTAAAGATTCGCTACAATAAAC
1 AATGAAGATTCTCTGCAATGAAC
99272706 AATGAAGATT
1 AATGAAGATT
99272716 ATTCGTAAAA
Statistics
Matches: 62, Mismatches: 15, Indels: 2
0.78 0.19 0.03
Matches are distributed among these distances:
22 18 0.29
23 44 0.71
ACGTcount: A:0.41, C:0.15, G:0.18, T:0.27
Consensus pattern (23 bp):
AATGAAGATTCTCTGCAATGAAC
Found at i:99276160 original size:32 final size:32
Alignment explanation
Indices: 99276119--99276184 Score: 114
Period size: 32 Copynumber: 2.1 Consensus size: 32
99276109 TACCCAATAC
99276119 CAATTATATGCAACAACTAAGAATTTCTTTAT
1 CAATTATATGCAACAACTAAGAATTTCTTTAT
* *
99276151 CAATTATATGCACCAATTAAGAATTTCTTTAT
1 CAATTATATGCAACAACTAAGAATTTCTTTAT
99276183 CA
1 CA
99276185 TACTACTGCT
Statistics
Matches: 32, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
32 32 1.00
ACGTcount: A:0.39, C:0.17, G:0.06, T:0.38
Consensus pattern (32 bp):
CAATTATATGCAACAACTAAGAATTTCTTTAT
Found at i:99278789 original size:20 final size:20
Alignment explanation
Indices: 99278761--99278799 Score: 69
Period size: 20 Copynumber: 1.9 Consensus size: 20
99278751 CTCTTACATT
*
99278761 ATTATATAATTGAAACTTTC
1 ATTACATAATTGAAACTTTC
99278781 ATTACATAATTGAAACTTT
1 ATTACATAATTGAAACTTT
99278800 TCTGAGAATA
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
20 18 1.00
ACGTcount: A:0.41, C:0.10, G:0.05, T:0.44
Consensus pattern (20 bp):
ATTACATAATTGAAACTTTC
Found at i:99278903 original size:23 final size:23
Alignment explanation
Indices: 99278874--99278925 Score: 95
Period size: 23 Copynumber: 2.3 Consensus size: 23
99278864 ATATTTCTAT
*
99278874 TGTTCACTCTAGAGAATATTTCC
1 TGTTCACTCTAAAGAATATTTCC
99278897 TGTTCACTCTAAAGAATATTTCC
1 TGTTCACTCTAAAGAATATTTCC
99278920 TGTTCA
1 TGTTCA
99278926 TCTTCATTCA
Statistics
Matches: 28, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
23 28 1.00
ACGTcount: A:0.27, C:0.21, G:0.12, T:0.40
Consensus pattern (23 bp):
TGTTCACTCTAAAGAATATTTCC
Found at i:99279767 original size:22 final size:23
Alignment explanation
Indices: 99279742--99279787 Score: 60
Period size: 23 Copynumber: 2.0 Consensus size: 23
99279732 CAACCAAACC
99279742 AATTCA-ACATATTT-TCAAGATA
1 AATTCATACATATTTAT-AAGATA
*
99279764 AATTCATGCATATTTATAAGATA
1 AATTCATACATATTTATAAGATA
99279787 A
1 A
99279788 CGTCATCACA
Statistics
Matches: 21, Mismatches: 1, Indels: 3
0.84 0.04 0.12
Matches are distributed among these distances:
22 6 0.29
23 14 0.67
24 1 0.05
ACGTcount: A:0.46, C:0.11, G:0.07, T:0.37
Consensus pattern (23 bp):
AATTCATACATATTTATAAGATA
Found at i:99279793 original size:23 final size:23
Alignment explanation
Indices: 99279749--99279793 Score: 56
Period size: 23 Copynumber: 2.0 Consensus size: 23
99279739 ACCAATTCAA
*
99279749 CATATTTTCAAGATAAATTCATG
1 CATATTTTCAAGATAAAGTCATG
*
99279772 CATATTTAT-AAGATAACGTCAT
1 CATATTT-TCAAGATAAAGTCAT
99279794 CACATACCCA
Statistics
Matches: 19, Mismatches: 2, Indels: 2
0.83 0.09 0.09
Matches are distributed among these distances:
23 18 0.95
24 1 0.05
ACGTcount: A:0.40, C:0.13, G:0.09, T:0.38
Consensus pattern (23 bp):
CATATTTTCAAGATAAAGTCATG
Found at i:99282784 original size:283 final size:283
Alignment explanation
Indices: 99282272--99282839 Score: 1091
Period size: 283 Copynumber: 2.0 Consensus size: 283
99282262 TAAAATTTCC
99282272 TAACGAAATTTTAATACCACATTACTAACATTTCATAAATATTTATAAAATTATTTTTGACTCGG
1 TAACGAAATTTTAATACCACATTACTAACATTTCATAAATATTTATAAAATTATTTTTGACTCGG
*
99282337 TTTTACGAGATAAAGGTCTCGATACTTTATTTTTACCCAATTTCTTCAATAATTTCTTTTTCTAA
66 TTTTACGAGATAAAGGCCTCGATACTTTATTTTTACCCAATTTCTTCAATAATTTCTTTTTCTAA
* *
99282402 CTAACTACTAAATCGGTAAAATTTTTCTATCAATATTTTCATACGATTTTCCTATCATATCAATT
131 CTAACCACTAAATCGATAAAATTTTTCTATCAATATTTTCATACGATTTTCCTATCATATCAATT
99282467 TTCATGCAAAAATATTGAAATAAATTTATCTTTAAATCGGATTTGTGGTTACGAAACCACTATTC
196 TTCATGCAAAAATATTGAAATAAATTTATCTTTAAATCGGATTTGTGGTTACGAAACCACTATTC
99282532 CGATAACCTTGAATTTAGGCCAT
261 CGATAACCTTGAATTTAGGCCAT
99282555 TAACGAAATTTTAATACCACATTACTAACATTTCATAAATATTTATAAAATTATTTTTGACTCGG
1 TAACGAAATTTTAATACCACATTACTAACATTTCATAAATATTTATAAAATTATTTTTGACTCGG
99282620 TTTTACGAGATAAAGGCCTCGATACTTTATTTTTACCCAATTTCTTCAATAATTTCTTTTTCTAA
66 TTTTACGAGATAAAGGCCTCGATACTTTATTTTTACCCAATTTCTTCAATAATTTCTTTTTCTAA
*
99282685 CTAACCACTAAATCGATAAAATTTTTCTATCAATATTTTCATACGATTTTCCTATCATTTCAATT
131 CTAACCACTAAATCGATAAAATTTTTCTATCAATATTTTCATACGATTTTCCTATCATATCAATT
*
99282750 TTCATGCAAAAATATTGAAATAAATTTCTCTTTAAATCGGATTTGTGGTTACGAAACCACTATTC
196 TTCATGCAAAAATATTGAAATAAATTTATCTTTAAATCGGATTTGTGGTTACGAAACCACTATTC
99282815 CGATAACCTTGAATTTAGGCCAT
261 CGATAACCTTGAATTTAGGCCAT
99282838 TA
1 TA
99282840 CACGTTCATT
Statistics
Matches: 280, Mismatches: 5, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
283 280 1.00
ACGTcount: A:0.34, C:0.17, G:0.08, T:0.41
Consensus pattern (283 bp):
TAACGAAATTTTAATACCACATTACTAACATTTCATAAATATTTATAAAATTATTTTTGACTCGG
TTTTACGAGATAAAGGCCTCGATACTTTATTTTTACCCAATTTCTTCAATAATTTCTTTTTCTAA
CTAACCACTAAATCGATAAAATTTTTCTATCAATATTTTCATACGATTTTCCTATCATATCAATT
TTCATGCAAAAATATTGAAATAAATTTATCTTTAAATCGGATTTGTGGTTACGAAACCACTATTC
CGATAACCTTGAATTTAGGCCAT
Found at i:99286372 original size:14 final size:14
Alignment explanation
Indices: 99286353--99286382 Score: 60
Period size: 14 Copynumber: 2.1 Consensus size: 14
99286343 AAATTGGTAA
99286353 TAATTATGAATTTC
1 TAATTATGAATTTC
99286367 TAATTATGAATTTC
1 TAATTATGAATTTC
99286381 TA
1 TA
99286383 TCTTTAAGAT
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 16 1.00
ACGTcount: A:0.37, C:0.07, G:0.07, T:0.50
Consensus pattern (14 bp):
TAATTATGAATTTC
Found at i:99288976 original size:55 final size:55
Alignment explanation
Indices: 99288864--99288976 Score: 190
Period size: 55 Copynumber: 2.1 Consensus size: 55
99288854 ATTTCGAAAC
* *
99288864 CTAAAAAAACCTGCTCCTCCTTGACTCTGATAATAATAAATTATTTTCTGTTAAT
1 CTAAAAAAACCTGCTCCTCCTTGACTCTGATAATAATAAATTATTTTCCGCTAAT
* *
99288919 CTAAAAATACCTGCTCCTCCTTGACTCTGATAATAATAAATTATTTTCCGCTGAT
1 CTAAAAAAACCTGCTCCTCCTTGACTCTGATAATAATAAATTATTTTCCGCTAAT
99288974 CTA
1 CTA
99288977 TTTTTTTTAA
Statistics
Matches: 54, Mismatches: 4, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
55 54 1.00
ACGTcount: A:0.33, C:0.22, G:0.08, T:0.37
Consensus pattern (55 bp):
CTAAAAAAACCTGCTCCTCCTTGACTCTGATAATAATAAATTATTTTCCGCTAAT
Found at i:99301861 original size:8 final size:8
Alignment explanation
Indices: 99301843--99301877 Score: 63
Period size: 8 Copynumber: 4.5 Consensus size: 8
99301833 TTTATTTTAT
99301843 AAAAAAT-
1 AAAAAATA
99301850 AAAAAATA
1 AAAAAATA
99301858 AAAAAATA
1 AAAAAATA
99301866 AAAAAATA
1 AAAAAATA
99301874 AAAA
1 AAAA
99301878 CAATGTCTAA
Statistics
Matches: 27, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
7 7 0.26
8 20 0.74
ACGTcount: A:0.89, C:0.00, G:0.00, T:0.11
Consensus pattern (8 bp):
AAAAAATA
Found at i:99305005 original size:19 final size:21
Alignment explanation
Indices: 99304972--99305011 Score: 57
Period size: 20 Copynumber: 2.0 Consensus size: 21
99304962 GTCCCTTGTA
99304972 GTTTAAAAAATTTTCT-AAGT
1 GTTTAAAAAATTTTCTGAAGT
*
99304992 GTTTCAAAAA-TTTCTGAAGT
1 GTTTAAAAAATTTTCTGAAGT
99305012 TATTGGTTTA
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
19 5 0.28
20 13 0.72
ACGTcount: A:0.38, C:0.07, G:0.12, T:0.42
Consensus pattern (21 bp):
GTTTAAAAAATTTTCTGAAGT
Found at i:99305235 original size:23 final size:24
Alignment explanation
Indices: 99305209--99305259 Score: 68
Period size: 25 Copynumber: 2.1 Consensus size: 24
99305199 GGTGTTACAA
99305209 TTTAATATAA-AAATAAAAAATAT
1 TTTAATATAATAAATAAAAAATAT
* *
99305232 TTTAATATAATTCAATATAAAATAT
1 TTTAATATAA-TAAATAAAAAATAT
99305257 TTT
1 TTT
99305260 TCTAAATTTC
Statistics
Matches: 24, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
23 10 0.42
25 14 0.58
ACGTcount: A:0.55, C:0.02, G:0.00, T:0.43
Consensus pattern (24 bp):
TTTAATATAATAAATAAAAAATAT
Found at i:99306887 original size:24 final size:22
Alignment explanation
Indices: 99306847--99306895 Score: 62
Period size: 24 Copynumber: 2.1 Consensus size: 22
99306837 CTATTTTATG
99306847 TATAATTTATTTAAAATTGCTT
1 TATAATTTATTTAAAATTGCTT
* *
99306869 TATAATATTCATTTTAAATTGTTT
1 TATAAT-TT-ATTTAAAATTGCTT
99306893 TAT
1 TAT
99306896 TGTGCATTGT
Statistics
Matches: 23, Mismatches: 2, Indels: 2
0.85 0.07 0.07
Matches are distributed among these distances:
22 6 0.26
23 2 0.09
24 15 0.65
ACGTcount: A:0.35, C:0.04, G:0.04, T:0.57
Consensus pattern (22 bp):
TATAATTTATTTAAAATTGCTT
Found at i:99306994 original size:26 final size:26
Alignment explanation
Indices: 99306947--99307054 Score: 76
Period size: 26 Copynumber: 4.0 Consensus size: 26
99306937 TTTTTTTTGC
* *
99306947 ATTAGTTATTTTAAACTGTTT-TACAT
1 ATTATTTATTTTAAA-TTTTTATACAT
*
99306973 ATTATTTATTTTAAATATTTT-TATAT
1 ATTATTTATTTTAAAT-TTTTATACAT
* * *
99306999 GTTATTTACTTTAAGCTATTTTATATATAT
1 ATTATTTATTTTAA---ATTTT-TATACAT
* *
99307029 ATGATCTATTTTAAATTTTTATACAT
1 ATTATTTATTTTAAATTTTTATACAT
99307055 GTTAACTTTC
Statistics
Matches: 66, Mismatches: 10, Indels: 12
0.75 0.11 0.14
Matches are distributed among these distances:
25 1 0.02
26 39 0.59
27 5 0.08
28 3 0.05
29 3 0.05
30 15 0.23
ACGTcount: A:0.32, C:0.06, G:0.05, T:0.57
Consensus pattern (26 bp):
ATTATTTATTTTAAATTTTTATACAT
Found at i:99307021 original size:52 final size:55
Alignment explanation
Indices: 99306956--99307058 Score: 124
Period size: 56 Copynumber: 1.9 Consensus size: 55
99306946 CATTAGTTAT
* *
99306956 TTTAAACTGTTTTACATAT-TAT-T-TATTTTAAATATTTT-TATATGTTATTTAC
1 TTTAAACTATTTTACATATATATATCTATTTTAAAT-TTTTATACATGTTATTTAC
* *
99307008 TTTAAGCTATTTTATATATATATGATCTATTTTAAATTTTTATACATGTTA
1 TTTAAACTATTTTACATATATAT-ATCTATTTTAAATTTTTATACATGTTA
99307059 ACTTTCAAAT
Statistics
Matches: 42, Mismatches: 4, Indels: 6
0.81 0.08 0.12
Matches are distributed among these distances:
52 16 0.38
53 3 0.07
55 5 0.12
56 18 0.43
ACGTcount: A:0.32, C:0.06, G:0.05, T:0.57
Consensus pattern (55 bp):
TTTAAACTATTTTACATATATATATCTATTTTAAATTTTTATACATGTTATTTAC
Found at i:99307288 original size:24 final size:24
Alignment explanation
Indices: 99307251--99307312 Score: 70
Period size: 24 Copynumber: 2.5 Consensus size: 24
99307241 ATATTATTTT
*
99307251 ATTGTTTTGAATATTAATGATTTTAA
1 ATTGTTTT--ATATTAATGACTTTAA
* *
99307277 ATTGTTTTATATTATTTACTTTAA
1 ATTGTTTTATATTAATGACTTTAA
99307301 ATTGCTTTTATA
1 ATTG-TTTTATA
99307313 GTATCTATTT
Statistics
Matches: 32, Mismatches: 3, Indels: 3
0.84 0.08 0.08
Matches are distributed among these distances:
24 17 0.53
25 7 0.22
26 8 0.25
ACGTcount: A:0.31, C:0.03, G:0.08, T:0.58
Consensus pattern (24 bp):
ATTGTTTTATATTAATGACTTTAA
Found at i:99307324 original size:25 final size:24
Alignment explanation
Indices: 99307270--99307326 Score: 78
Period size: 25 Copynumber: 2.3 Consensus size: 24
99307260 AATATTAATG
* *
99307270 ATTTTAAATTGTTTTATATTATTT
1 ATTTTAAATTGTTTTATAGTATCT
*
99307294 ACTTTAAATTGCTTTTATAGTATCT
1 ATTTTAAATTG-TTTTATAGTATCT
99307319 ATTTTAAA
1 ATTTTAAA
99307327 CCTTTATATA
Statistics
Matches: 28, Mismatches: 4, Indels: 1
0.85 0.12 0.03
Matches are distributed among these distances:
24 10 0.36
25 18 0.64
ACGTcount: A:0.32, C:0.05, G:0.05, T:0.58
Consensus pattern (24 bp):
ATTTTAAATTGTTTTATAGTATCT
Found at i:99312920 original size:24 final size:24
Alignment explanation
Indices: 99312870--99312921 Score: 68
Period size: 24 Copynumber: 2.2 Consensus size: 24
99312860 TTAGTAAGTC
* **
99312870 AAATAAATTATGCTAATAAATGCT
1 AAATAAATTATACTAATAAATAAT
*
99312894 AAATATATTATACTAATAAATAAT
1 AAATAAATTATACTAATAAATAAT
99312918 AAAT
1 AAAT
99312922 CTTCTAGAAA
Statistics
Matches: 24, Mismatches: 4, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
24 24 1.00
ACGTcount: A:0.56, C:0.06, G:0.04, T:0.35
Consensus pattern (24 bp):
AAATAAATTATACTAATAAATAAT
Found at i:99320304 original size:13 final size:13
Alignment explanation
Indices: 99320266--99320308 Score: 50
Period size: 13 Copynumber: 3.3 Consensus size: 13
99320256 GCTCAATGCA
*
99320266 AAATTGTAATTTT
1 AAATTCTAATTTT
* * *
99320279 GAATTTTATTTTT
1 AAATTCTAATTTT
99320292 AAATTCTAATTTT
1 AAATTCTAATTTT
99320305 AAAT
1 AAAT
99320309 CAAAATAAAA
Statistics
Matches: 24, Mismatches: 6, Indels: 0
0.80 0.20 0.00
Matches are distributed among these distances:
13 24 1.00
ACGTcount: A:0.37, C:0.02, G:0.05, T:0.56
Consensus pattern (13 bp):
AAATTCTAATTTT
Found at i:99322244 original size:27 final size:27
Alignment explanation
Indices: 99322211--99322273 Score: 99
Period size: 27 Copynumber: 2.3 Consensus size: 27
99322201 TGGGTTTTAG
99322211 TTAAGATAATTAAGAATTTAAATCAAA
1 TTAAGATAATTAAGAATTTAAATCAAA
* *
99322238 TTAAGATAATTAAGAGTTTAAATTAAA
1 TTAAGATAATTAAGAATTTAAATCAAA
*
99322265 TTAGGATAA
1 TTAAGATAA
99322274 CTAGAGTTTT
Statistics
Matches: 33, Mismatches: 3, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
27 33 1.00
ACGTcount: A:0.52, C:0.02, G:0.11, T:0.35
Consensus pattern (27 bp):
TTAAGATAATTAAGAATTTAAATCAAA
Found at i:99322287 original size:26 final size:27
Alignment explanation
Indices: 99322211--99322287 Score: 93
Period size: 27 Copynumber: 2.9 Consensus size: 27
99322201 TGGGTTTTAG
* * *
99322211 TTAAGATAATTAAGAATTTAAATCAAA
1 TTAAGATAACTAAGAGTTTAAATTAAA
*
99322238 TTAAGATAATTAAGAGTTTAAATTAAA
1 TTAAGATAACTAAGAGTTTAAATTAAA
* *
99322265 TTAGGATAACT-AGAGTTTTAATT
1 TTAAGATAACTAAGAGTTTAAATT
99322288 TATTTAAAAT
Statistics
Matches: 45, Mismatches: 5, Indels: 1
0.88 0.10 0.02
Matches are distributed among these distances:
26 11 0.24
27 34 0.76
ACGTcount: A:0.48, C:0.03, G:0.12, T:0.38
Consensus pattern (27 bp):
TTAAGATAACTAAGAGTTTAAATTAAA
Found at i:99329731 original size:12 final size:13
Alignment explanation
Indices: 99329714--99329750 Score: 51
Period size: 12 Copynumber: 3.0 Consensus size: 13
99329704 GAACCGGACA
99329714 CGAACCGAA-CTC
1 CGAACCGAAGCTC
99329726 CGAACC-AAGCTC
1 CGAACCGAAGCTC
*
99329738 CGAACCGTAGCTC
1 CGAACCGAAGCTC
99329751 TGATGCCACT
Statistics
Matches: 22, Mismatches: 1, Indels: 3
0.85 0.04 0.12
Matches are distributed among these distances:
11 2 0.09
12 15 0.68
13 5 0.23
ACGTcount: A:0.30, C:0.41, G:0.19, T:0.11
Consensus pattern (13 bp):
CGAACCGAAGCTC
Found at i:99333313 original size:16 final size:16
Alignment explanation
Indices: 99333289--99333332 Score: 63
Period size: 16 Copynumber: 2.8 Consensus size: 16
99333279 GCAATTAGGG
99333289 TTAGGGTTTTGAAAATT
1 TTAGGGTTTT-AAAATT
*
99333306 TT-GGGTTTTTAAATT
1 TTAGGGTTTTAAAATT
99333321 TTAGGGTTTTAA
1 TTAGGGTTTTAA
99333333 GGAAAAAAAT
Statistics
Matches: 24, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
15 7 0.29
16 15 0.62
17 2 0.08
ACGTcount: A:0.25, C:0.00, G:0.23, T:0.52
Consensus pattern (16 bp):
TTAGGGTTTTAAAATT
Found at i:99333331 original size:15 final size:15
Alignment explanation
Indices: 99333289--99333332 Score: 54
Period size: 15 Copynumber: 2.8 Consensus size: 15
99333279 GCAATTAGGG
99333289 TTAGGGTTTTGAAAATT
1 TTAGGGTTTT--AAATT
99333306 TT-GGGTTTTTAAATT
1 TTAGGG-TTTTAAATT
99333321 TTAGGGTTTTAA
1 TTAGGGTTTTAA
99333333 GGAAAAAAAT
Statistics
Matches: 25, Mismatches: 0, Indels: 6
0.81 0.00 0.19
Matches are distributed among these distances:
15 13 0.52
16 6 0.24
17 6 0.24
ACGTcount: A:0.25, C:0.00, G:0.23, T:0.52
Consensus pattern (15 bp):
TTAGGGTTTTAAATT
Found at i:99333473 original size:96 final size:99
Alignment explanation
Indices: 99333327--99333505 Score: 240
Period size: 96 Copynumber: 1.8 Consensus size: 99
99333317 AATTTTAGGG
* ** *
99333327 TTTTAAGGAAAAAAATAAAATAAATTAAGGTTTAGTGTTTGTTAATTAAATTAATTACT-AA-TT
1 TTTTAAGGAAAAAAATAAAATAAATTAAGGTTTAGGGTTACTTAAGTAAATTAATTA-TAAATTT
99333390 TT-AAAAAATTAGATTATGGTTTAGTGTTTATGAT
65 TTAAAAAAATTAGATTATGGTTTAGTGTTTATGAT
* * *
99333424 TTTTAAGG-AAAAAATCAAATAAATTAGGGTTTAGGGTTACTTGAGTAAATTAATTATAAATTTT
1 TTTTAAGGAAAAAAATAAAATAAATTAAGGTTTAGGGTTACTTAAGTAAATTAATTATAAA--TT
99333488 TTTAAAAAAATTAGATTA
64 TTTAAAAAAATTAGATTA
99333506 GGATTTTAGG
Statistics
Matches: 70, Mismatches: 7, Indels: 7
0.83 0.08 0.08
Matches are distributed among these distances:
95 1 0.01
96 43 0.61
97 8 0.11
99 4 0.06
100 14 0.20
ACGTcount: A:0.44, C:0.02, G:0.13, T:0.41
Consensus pattern (99 bp):
TTTTAAGGAAAAAAATAAAATAAATTAAGGTTTAGGGTTACTTAAGTAAATTAATTATAAATTTT
TAAAAAAATTAGATTATGGTTTAGTGTTTATGAT
Found at i:99333872 original size:126 final size:125
Alignment explanation
Indices: 99333608--99334152 Score: 801
Period size: 126 Copynumber: 4.3 Consensus size: 125
99333598 TAATCTAAAA
* * * * *
99333608 AAGCTTCTACGTGGACGCTCTTTTCCTACAGTAGTCTATGAAAAAATAAATTTGAGAAGACATGT
1 AAGCTTCCACGTGGACGCTCTTTTGCTACAGTAGTCTCTGAAAAAATAATTTTGAGAAGACGTGT
* * *
99333673 CTGCGCAAATAGTGTCAAAACGCTTCAAGCAGAATGCATTGTCAGCAAAAGTACTGAAAG
66 CTGTGCAAATAGTGTAAAAACGCTTCAAGCAGGATGCATTGTCAGCAAAAGTACTGAAAG
* * *
99333733 AAGCTCCCACGTGGACGCTCTTTTGCTACAGTAGTATCTGAAAAAATAATTTTAAGAAGACGTGT
1 AAGCTTCCACGTGGACGCTCTTTTGCTACAGTAGTCTCTGAAAAAATAATTTTGAGAAGACGTGT
99333798 CTGTGCAAATAGTGTAAAAAACGCTTCAAGCAGGATGCATTGTCAGCAAAAGTACTGAAAG
66 CTGTGCAAATAGTGT-AAAAACGCTTCAAGCAGGATGCATTGTCAGCAAAAGTACTGAAAG
99333859 AAGCTTCCACGTGGACGCTCTTTTGCTACAGTAGTCTCTGAAAAAATAATTTTGAGAAGACGTGT
1 AAGCTTCCACGTGGACGCTCTTTTGCTACAGTAGTCTCTGAAAAAATAATTTTGAGAAGACGTGT
* * * *
99333924 CTGTGCAAATAGTGGT-AAAACGCTTTAAGCAGGATGCATTTTCAGCAAAATTACTGGAAG
66 CTGTGCAAATAGT-GTAAAAACGCTTCAAGCAGGATGCATTGTCAGCAAAAGTACTGAAAG
* * *
99333984 AAGC-TCTCACGTGGATGCTCTTTTGCTACAGTGGTCTCTGAAAAAATAATTTTGAGAAGACGTA
1 AAGCTTC-CACGTGGACGCTCTTTTGCTACAGTAGTCTCTGAAAAAATAATTTTGAGAAGACGTG
*
99334048 T-T-TGCATAAATAGTGTCAAAAACGCTTCAAGCAGGATGCATTTTCAGCAAAAGTACTGAAAG
65 TCTGTGC--AAATAGTGT-AAAAACGCTTCAAGCAGGATGCATTGTCAGCAAAAGTACTGAAAG
* * * *
99334110 AAGCTCCCACGTGGACACTCTTTTGCTACAGTGGTTTCTGAAA
1 AAGCTTCCACGTGGACGCTCTTTTGCTACAGTAGTCTCTGAAA
99334153 TAACTTGGGC
Statistics
Matches: 384, Mismatches: 28, Indels: 15
0.90 0.07 0.04
Matches are distributed among these distances:
123 3 0.01
124 5 0.01
125 177 0.46
126 196 0.51
127 3 0.01
ACGTcount: A:0.34, C:0.18, G:0.21, T:0.27
Consensus pattern (125 bp):
AAGCTTCCACGTGGACGCTCTTTTGCTACAGTAGTCTCTGAAAAAATAATTTTGAGAAGACGTGT
CTGTGCAAATAGTGTAAAAACGCTTCAAGCAGGATGCATTGTCAGCAAAAGTACTGAAAG
Found at i:99334061 original size:251 final size:251
Alignment explanation
Indices: 99333608--99334152 Score: 835
Period size: 251 Copynumber: 2.2 Consensus size: 251
99333598 TAATCTAAAA
* * *
99333608 AAGCTTCTACGTGGACGCTCTTTTCCTACAGTAGTCTATGAAAAAATAAATTTGAGAAGACATGT
1 AAGCTTCCACGTGGACGCTCTTTTGCTACAGTAGTCTCTGAAAAAATAAATTTGAGAAGACATGT
99333673 CTGCGCAAATAGTGTCAAAACGCTTCAAGCAGAATGCATTGTCAGCAAAAGTACTGAAAGAAGCT
66 CTGCGCAAATAGTGTCAAAACGCTTCAAGCAGAATGCATTGTCAGCAAAAGTACTGAAAGAAGCT
*
99333738 CCCACGTGGACGCTCTTTTGCTACAGTAGTATCTGAAAAAATAATTTTAAGAAGACGTGTCTGTG
131 CCCACGTGGACGCTCTTTTGCTACAGTAGTATCTGAAAAAATAATTTTAAGAAGACGTATCTGTG
99333803 CAAATAGTGTAAAAAACGCTTCAAGCAGGATGCATTGTCAGCAAAAGTACTGAAAG
196 CAAATAGTGTAAAAAACGCTTCAAGCAGGATGCATTGTCAGCAAAAGTACTGAAAG
* *
99333859 AAGCTTCCACGTGGACGCTCTTTTGCTACAGTAGTCTCTGAAAAAATAATTTTGAGAAGACGTGT
1 AAGCTTCCACGTGGACGCTCTTTTGCTACAGTAGTCTCTGAAAAAATAAATTTGAGAAGACATGT
* * * * * *
99333924 CTGTGCAAATAGTGGT-AAAACGCTTTAAGCAGGATGCATTTTCAGCAAAATTACTGGAAGAAGC
66 CTGCGCAAATAGT-GTCAAAACGCTTCAAGCAGAATGCATTGTCAGCAAAAGTACTGAAAGAAGC
* * * * *
99333988 TCTCACGTGGATGCTCTTTTGCTACAGTGGTCTCTGAAAAAATAATTTTGAGAAGACGTAT-T-T
130 TCCCACGTGGACGCTCTTTTGCTACAGTAGTATCTGAAAAAATAATTTTAAGAAGACGTATCTGT
* *
99334051 GCATAAATAGTGTCAAAAACGCTTCAAGCAGGATGCATTTTCAGCAAAAGTACTGAAAG
195 GC--AAATAGTGTAAAAAACGCTTCAAGCAGGATGCATTGTCAGCAAAAGTACTGAAAG
* * * *
99334110 AAGCTCCCACGTGGACACTCTTTTGCTACAGTGGTTTCTGAAA
1 AAGCTTCCACGTGGACGCTCTTTTGCTACAGTAGTCTCTGAAA
99334153 TAACTTGGGC
Statistics
Matches: 268, Mismatches: 23, Indels: 6
0.90 0.08 0.02
Matches are distributed among these distances:
249 3 0.01
250 1 0.00
251 262 0.98
252 2 0.01
ACGTcount: A:0.34, C:0.18, G:0.21, T:0.27
Consensus pattern (251 bp):
AAGCTTCCACGTGGACGCTCTTTTGCTACAGTAGTCTCTGAAAAAATAAATTTGAGAAGACATGT
CTGCGCAAATAGTGTCAAAACGCTTCAAGCAGAATGCATTGTCAGCAAAAGTACTGAAAGAAGCT
CCCACGTGGACGCTCTTTTGCTACAGTAGTATCTGAAAAAATAATTTTAAGAAGACGTATCTGTG
CAAATAGTGTAAAAAACGCTTCAAGCAGGATGCATTGTCAGCAAAAGTACTGAAAG
Found at i:99337302 original size:100 final size:101
Alignment explanation
Indices: 99337179--99337381 Score: 354
Period size: 100 Copynumber: 2.0 Consensus size: 101
99337169 AATATTCAAA
* * *
99337179 ATGTTGCTTTATTTAAAATAATTTGCATTTTAATAAAAATATAAAAGTAAATTATAATTACTTTA
1 ATGTTGCCTTATTTAAAATAATTTCCATTTTAATAAAAATATAAAAGTAAATTACAATTACTTTA
99337244 TTTAAAACAACCTTTTATCTAATT-CATGAAATAAT
66 TTTAAAACAACCTTTTATCTAATTACATGAAATAAT
*
99337279 ATGTTGCCTTATTTAAAATAATTTCCATTTTATTAAAAATATAAAAGTAAATTACAATTACTTTA
1 ATGTTGCCTTATTTAAAATAATTTCCATTTTAATAAAAATATAAAAGTAAATTACAATTACTTTA
*
99337344 TTTGAAACAACCTTTTATCTAATTACATGAAATAAT
66 TTTAAAACAACCTTTTATCTAATTACATGAAATAAT
99337380 AT
1 AT
99337382 AAAAAGATTC
Statistics
Matches: 97, Mismatches: 5, Indels: 1
0.94 0.05 0.01
Matches are distributed among these distances:
100 84 0.87
101 13 0.13
ACGTcount: A:0.43, C:0.09, G:0.05, T:0.42
Consensus pattern (101 bp):
ATGTTGCCTTATTTAAAATAATTTCCATTTTAATAAAAATATAAAAGTAAATTACAATTACTTTA
TTTAAAACAACCTTTTATCTAATTACATGAAATAAT
Found at i:99337360 original size:50 final size:49
Alignment explanation
Indices: 99337206--99337361 Score: 124
Period size: 50 Copynumber: 3.1 Consensus size: 49
99337196 ATAATTTGCA
*
99337206 TTTTAATAAAAATATAAAAGTAAATTATAATTACTTTATTTAAAACAACC
1 TTTTATTAAAAATATAAAAGTAAATTA-AATTACTTTATTTAAAACAACC
* * ** * * *
99337256 TTTTATCT--AATTCATGAAA-T-AA-TATGTTGCCTTATTTAAAATAATTTCC
1 TTTTAT-TAAAAAT-ATAAAAGTAAATTAAATTACTTTATTTAAAACAA---CC
*
99337305 ATTTTATTAAAAATATAAAAGTAAATTACAATTACTTTATTTGAAACAACC
1 -TTTTATTAAAAATATAAAAGTAAATTA-AATTACTTTATTTAAAACAACC
99337356 TTTTAT
1 TTTTAT
99337362 CTAATTACAT
Statistics
Matches: 78, Mismatches: 16, Indels: 24
0.66 0.14 0.20
Matches are distributed among these distances:
46 15 0.19
47 2 0.03
48 2 0.03
49 7 0.09
50 27 0.35
51 7 0.09
52 2 0.03
53 2 0.03
54 14 0.18
ACGTcount: A:0.44, C:0.10, G:0.04, T:0.42
Consensus pattern (49 bp):
TTTTATTAAAAATATAAAAGTAAATTAAATTACTTTATTTAAAACAACC
Found at i:99337419 original size:100 final size:99
Alignment explanation
Indices: 99337212--99337417 Score: 243
Period size: 100 Copynumber: 2.1 Consensus size: 99
99337202 TGCATTTTAA
*
99337212 TAAAAATATAAAAGTAAATTATAATTACTTTATTTAAAACAACCTTTTATCTAATTCATGAAATA
1 TAAAAATATAAAAGTAAATTACAATTACTTTATTTAAAACAACCTTTTATCTAATTCATGAAATA
****** * * * *
99337277 ATATGTTGCCTTATTTAAAATAATTTCCATTTTAT
66 ATA-GTAAAAAGATTCAAAATAATTTCAAATATAT
*
99337312 TAAAAATATAAAAGTAAATTACAATTACTTTATTTGAAACAACCTTTTATCTAATTACATGAAAT
1 TAAAAATATAAAAGTAAATTACAATTACTTTATTTAAAACAACCTTTTATCTAATT-CATGAAAT
**
99337377 AATA-TAAAAAGATTCAAAATGTTTGTACAAATATAT
65 AATAGTAAAAAGATTCAAAATAATT-T-CAAATATAT
99337413 TAAAA
1 TAAAA
99337418 TAAAAATCAA
Statistics
Matches: 89, Mismatches: 14, Indels: 5
0.82 0.13 0.05
Matches are distributed among these distances:
99 11 0.12
100 55 0.62
101 23 0.26
ACGTcount: A:0.47, C:0.09, G:0.05, T:0.39
Consensus pattern (99 bp):
TAAAAATATAAAAGTAAATTACAATTACTTTATTTAAAACAACCTTTTATCTAATTCATGAAATA
ATAGTAAAAAGATTCAAAATAATTTCAAATATAT
Found at i:99337914 original size:30 final size:30
Alignment explanation
Indices: 99337880--99337945 Score: 78
Period size: 30 Copynumber: 2.2 Consensus size: 30
99337870 GTTGAACTAT
*
99337880 TGGGCCCGGTGACTGTGTAGGTCCTGTTGC
1 TGGGCCCGGTGACTGTGTAGGTCCTGTTGA
* * * **
99337910 TGGGCCGGGTGATTGTGTGGGTGTTGTTGA
1 TGGGCCCGGTGACTGTGTAGGTCCTGTTGA
99337940 TGGGCC
1 TGGGCC
99337946 TACGTCGTCG
Statistics
Matches: 30, Mismatches: 6, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
30 30 1.00
ACGTcount: A:0.06, C:0.17, G:0.45, T:0.32
Consensus pattern (30 bp):
TGGGCCCGGTGACTGTGTAGGTCCTGTTGA
Found at i:99339626 original size:22 final size:23
Alignment explanation
Indices: 99339591--99339651 Score: 61
Period size: 25 Copynumber: 2.6 Consensus size: 23
99339581 ATTAGAGCTT
* *
99339591 TTTTGAAAAAAATTAA-CGAGAG
1 TTTTGAGAAGAATTAATCGAGAG
*
99339613 TTTTGAGAAGAATTTAATTTGAGAG
1 TTTTGAGAAGAA-TTAA-TCGAGAG
*
99339638 ATTTGAGAAGAATT
1 TTTTGAGAAGAATT
99339652 TGAGAGAATA
Statistics
Matches: 32, Mismatches: 4, Indels: 4
0.80 0.10 0.10
Matches are distributed among these distances:
22 10 0.31
23 4 0.12
24 2 0.06
25 16 0.50
ACGTcount: A:0.43, C:0.02, G:0.21, T:0.34
Consensus pattern (23 bp):
TTTTGAGAAGAATTAATCGAGAG
Found at i:99339654 original size:11 final size:10
Alignment explanation
Indices: 99339628--99339665 Score: 51
Period size: 11 Copynumber: 3.7 Consensus size: 10
99339618 AGAAGAATTT
99339628 AATTTGAGAG
1 AATTTGAGAG
99339638 -ATTTGAGAAG
1 AATTTGAG-AG
99339648 AATTTGAGAG
1 AATTTGAGAG
99339658 AATATTGA
1 AAT-TTGA
99339666 AAGATTGAAG
Statistics
Matches: 25, Mismatches: 0, Indels: 5
0.83 0.00 0.17
Matches are distributed among these distances:
9 7 0.28
10 7 0.28
11 11 0.44
ACGTcount: A:0.42, C:0.00, G:0.26, T:0.32
Consensus pattern (10 bp):
AATTTGAGAG
Found at i:99349005 original size:46 final size:46
Alignment explanation
Indices: 99348955--99349130 Score: 207
Period size: 46 Copynumber: 3.8 Consensus size: 46
99348945 TGGTTGAGCA
99348955 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
* * *
99349001 TCCGAACTCGTTGAGTTGAGTCCGAGTTC-GTGA--GATG-TAACTAGG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAA-T--G
*
99349046 CATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACG
1 --TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
* * * *
99349094 CCCGAGCTCATTGAGTTGAGTCCGAGTTCGCTTATGG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGG
99349131 GCGGGTTACA
Statistics
Matches: 110, Mismatches: 11, Indels: 18
0.79 0.08 0.13
Matches are distributed among these distances:
42 2 0.02
43 5 0.05
45 3 0.03
46 62 0.56
47 29 0.26
48 3 0.03
50 4 0.04
51 2 0.02
ACGTcount: A:0.21, C:0.21, G:0.29, T:0.29
Consensus pattern (46 bp):
TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
Found at i:99349111 original size:93 final size:93
Alignment explanation
Indices: 99348952--99349123 Score: 308
Period size: 93 Copynumber: 1.8 Consensus size: 93
99348942 GGATGGTTGA
* * *
99348952 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATGTCCGAACTCGTTGAGT
1 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAACTCATTGAGT
99349017 TGAGTCCGAGTTCGTGAGATGTAACTAG
66 TGAGTCCGAGTTCGTGAGATGTAACTAG
*
99349045 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAGCTCATTGAGT
1 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAACTCATTGAGT
99349110 TGAGTCCGAGTTCG
66 TGAGTCCGAGTTCG
99349124 CTTATGGGCG
Statistics
Matches: 75, Mismatches: 4, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
93 75 1.00
ACGTcount: A:0.22, C:0.22, G:0.29, T:0.28
Consensus pattern (93 bp):
GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAACTCATTGAGT
TGAGTCCGAGTTCGTGAGATGTAACTAG
Found at i:99350721 original size:24 final size:25
Alignment explanation
Indices: 99350667--99350714 Score: 64
Period size: 25 Copynumber: 2.0 Consensus size: 25
99350657 TTCAGCTTGC
99350667 ATGAGCTTCTCGTTATATAGCTCGG
1 ATGAGCTTCTCGTTATATAGCTCGG
*
99350692 AAGAGCTTACT-GTT-TATAGCTCG
1 ATGAGCTT-CTCGTTATATAGCTCG
99350715 TGTGAGCATA
Statistics
Matches: 21, Mismatches: 1, Indels: 3
0.84 0.04 0.12
Matches are distributed among these distances:
24 9 0.43
25 10 0.48
26 2 0.10
ACGTcount: A:0.23, C:0.19, G:0.23, T:0.35
Consensus pattern (25 bp):
ATGAGCTTCTCGTTATATAGCTCGG
Found at i:99350912 original size:30 final size:30
Alignment explanation
Indices: 99350873--99350934 Score: 76
Period size: 31 Copynumber: 2.1 Consensus size: 30
99350863 TATAGGTAAT
99350873 ACATGGAAAT-GAT-ATTACATGATATATTGAA
1 ACATGGAAATGGATGA-TACATG-TATA-TGAA
99350904 ACAT-GAAATGGATGATACATGTATATGAA
1 ACATGGAAATGGATGATACATGTATATGAA
99350933 AC
1 AC
99350935 TTGCTTAGTG
Statistics
Matches: 29, Mismatches: 0, Indels: 6
0.83 0.00 0.17
Matches are distributed among these distances:
29 6 0.21
30 9 0.31
31 13 0.45
32 1 0.03
ACGTcount: A:0.45, C:0.08, G:0.18, T:0.29
Consensus pattern (30 bp):
ACATGGAAATGGATGATACATGTATATGAA
Found at i:99352657 original size:22 final size:22
Alignment explanation
Indices: 99352628--99352674 Score: 60
Period size: 22 Copynumber: 2.1 Consensus size: 22
99352618 AAAAGCTATC
99352628 TACAAATCAAATCTT-TAAGAT
1 TACAAATCAAATCTTCTAAGAT
* *
99352649 TACAGAATCATATCTTCTAATAT
1 TACA-AATCAAATCTTCTAAGAT
99352672 TAC
1 TAC
99352675 GTTTCATATT
Statistics
Matches: 22, Mismatches: 2, Indels: 2
0.85 0.08 0.08
Matches are distributed among these distances:
21 4 0.18
22 10 0.45
23 8 0.36
ACGTcount: A:0.43, C:0.17, G:0.04, T:0.36
Consensus pattern (22 bp):
TACAAATCAAATCTTCTAAGAT
Found at i:99353496 original size:32 final size:34
Alignment explanation
Indices: 99353459--99353521 Score: 103
Period size: 32 Copynumber: 1.9 Consensus size: 34
99353449 TAAAATGGGG
*
99353459 TTTTAGGTTCCTTAAAAG-TTGG-AAAAAAATGT
1 TTTTAGGTCCCTTAAAAGTTTGGTAAAAAAATGT
99353491 TTTTAGGTCCCTTAAAAGTTTGGTAAAAAAA
1 TTTTAGGTCCCTTAAAAGTTTGGTAAAAAAA
99353522 ATTTTGGGCC
Statistics
Matches: 28, Mismatches: 1, Indels: 2
0.90 0.03 0.06
Matches are distributed among these distances:
32 17 0.61
33 4 0.14
34 7 0.25
ACGTcount: A:0.38, C:0.08, G:0.17, T:0.37
Consensus pattern (34 bp):
TTTTAGGTCCCTTAAAAGTTTGGTAAAAAAATGT
Found at i:99353537 original size:31 final size:31
Alignment explanation
Indices: 99353459--99353538 Score: 83
Period size: 32 Copynumber: 2.5 Consensus size: 31
99353449 TAAAATGGGG
** *
99353459 TTTTAGGTTCCTTAAAAGTTGGAAAAAAATGT
1 TTTTAGGGCCCTTAAAAGTTGGAAAAAAA-GA
*
99353491 TTTTAGGTCCCTTAAAAGTTTGGTAAAAAAA-A
1 TTTTAGGGCCCTTAAAAG-TTGG-AAAAAAAGA
99353523 TTTT-GGGCCCTTAAAA
1 TTTTAGGGCCCTTAAAA
99353539 ACTAAAAAAA
Statistics
Matches: 43, Mismatches: 3, Indels: 5
0.84 0.06 0.10
Matches are distributed among these distances:
31 11 0.26
32 21 0.49
33 4 0.09
34 7 0.16
ACGTcount: A:0.36, C:0.10, G:0.17, T:0.36
Consensus pattern (31 bp):
TTTTAGGGCCCTTAAAAGTTGGAAAAAAAGA
Found at i:99353650 original size:31 final size:28
Alignment explanation
Indices: 99353590--99353650 Score: 68
Period size: 31 Copynumber: 2.1 Consensus size: 28
99353580 TTTTTTACTT
*
99353590 TTAAAAATTAAAAAAAAATTTGACCCCC
1 TTAAAAATTAAAAAAAAATTTGAACCCC
* *
99353618 TTAAAAATTGAAAAATAATATTTTGAATCCC
1 TTAAAAATT-AAAAA-AA-AATTTGAACCCC
99353649 TT
1 TT
99353651 TTAACCTTGG
Statistics
Matches: 27, Mismatches: 3, Indels: 3
0.82 0.09 0.09
Matches are distributed among these distances:
28 9 0.33
29 5 0.19
30 2 0.07
31 11 0.41
ACGTcount: A:0.49, C:0.13, G:0.05, T:0.33
Consensus pattern (28 bp):
TTAAAAATTAAAAAAAAATTTGAACCCC
Found at i:99360882 original size:101 final size:101
Alignment explanation
Indices: 99360707--99360891 Score: 262
Period size: 101 Copynumber: 1.8 Consensus size: 101
99360697 GGCCCACACG
* * * * ** *
99360707 GGCGTGTGATAATTGGGTCAGGCCGTGTGATCTACACGGTCTAGGCCAATCTAGACGTATGGGCT
1 GGCGTGTGATAACTGGGCCAGGCCGTGTGATCCACACGGGCTAGGCCAATCTAGACGTATGACCC
*
99360772 ACATGAGCGTGTGGACCCACACGGGCATGCCATACT
66 ACAGGAGCGTGTGGACCCACACGGGCATGCCATACT
* * *
99360808 GGCGTGTGATAACTGGGCCAGGCCGTGTGTTCCACACGGGCTAGGCCAATCTGGACGTGTGACCC
1 GGCGTGTGATAACTGGGCCAGGCCGTGTGATCCACACGGGCTAGGCCAATCTAGACGTATGACCC
*
99360873 ACAGGAGCGTGTGGGCCCA
66 ACAGGAGCGTGTGGACCCA
99360892 TAGGGTATGC
Statistics
Matches: 72, Mismatches: 12, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
101 72 1.00
ACGTcount: A:0.20, C:0.25, G:0.34, T:0.21
Consensus pattern (101 bp):
GGCGTGTGATAACTGGGCCAGGCCGTGTGATCCACACGGGCTAGGCCAATCTAGACGTATGACCC
ACAGGAGCGTGTGGACCCACACGGGCATGCCATACT
Found at i:99363779 original size:6 final size:7
Alignment explanation
Indices: 99363763--99363788 Score: 52
Period size: 7 Copynumber: 3.7 Consensus size: 7
99363753 ATATAATCTT
99363763 AAAAAGA
1 AAAAAGA
99363770 AAAAAGA
1 AAAAAGA
99363777 AAAAAGA
1 AAAAAGA
99363784 AAAAA
1 AAAAA
99363789 AAGAGTGTAT
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:0.88, C:0.00, G:0.12, T:0.00
Consensus pattern (7 bp):
AAAAAGA
Found at i:99365608 original size:19 final size:19
Alignment explanation
Indices: 99365570--99365609 Score: 53
Period size: 19 Copynumber: 2.1 Consensus size: 19
99365560 AAAATATCAT
* *
99365570 ATTAATTTTAATTGATTTG
1 ATTAATTTAAATTGACTTG
*
99365589 ATTAATTTAAATTTACTTG
1 ATTAATTTAAATTGACTTG
99365608 AT
1 AT
99365610 CAAAATTAAT
Statistics
Matches: 18, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
19 18 1.00
ACGTcount: A:0.35, C:0.03, G:0.07, T:0.55
Consensus pattern (19 bp):
ATTAATTTAAATTGACTTG
Found at i:99371161 original size:16 final size:17
Alignment explanation
Indices: 99371142--99371179 Score: 53
Period size: 16 Copynumber: 2.3 Consensus size: 17
99371132 GGATAACGAA
99371142 AAAAAAT-TATAAAT-AT
1 AAAAAATCTA-AAATAAT
99371158 AAAAAATCTAAAATAAT
1 AAAAAATCTAAAATAAT
99371175 AAAAA
1 AAAAA
99371180 TAAATAAATT
Statistics
Matches: 20, Mismatches: 0, Indels: 3
0.87 0.00 0.13
Matches are distributed among these distances:
16 11 0.55
17 9 0.45
ACGTcount: A:0.74, C:0.03, G:0.00, T:0.24
Consensus pattern (17 bp):
AAAAAATCTAAAATAAT
Found at i:99371176 original size:23 final size:24
Alignment explanation
Indices: 99371144--99371188 Score: 65
Period size: 23 Copynumber: 1.9 Consensus size: 24
99371134 ATAACGAAAA
* *
99371144 AAAATTATAAATATAAA-AAATCT
1 AAAATAATAAAAATAAATAAATCT
99371167 AAAATAATAAAAATAAATAAAT
1 AAAATAATAAAAATAAATAAAT
99371189 TAAGTTCCGA
Statistics
Matches: 19, Mismatches: 2, Indels: 1
0.86 0.09 0.05
Matches are distributed among these distances:
23 15 0.79
24 4 0.21
ACGTcount: A:0.71, C:0.02, G:0.00, T:0.27
Consensus pattern (24 bp):
AAAATAATAAAAATAAATAAATCT
Found at i:99372533 original size:14 final size:14
Alignment explanation
Indices: 99372514--99372544 Score: 62
Period size: 14 Copynumber: 2.2 Consensus size: 14
99372504 CATAGTACAG
99372514 TTTGTATTAAGAAA
1 TTTGTATTAAGAAA
99372528 TTTGTATTAAGAAA
1 TTTGTATTAAGAAA
99372542 TTT
1 TTT
99372545 ATTTGGTGTT
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 17 1.00
ACGTcount: A:0.39, C:0.00, G:0.13, T:0.48
Consensus pattern (14 bp):
TTTGTATTAAGAAA
Found at i:99380887 original size:18 final size:17
Alignment explanation
Indices: 99380864--99380897 Score: 50
Period size: 17 Copynumber: 1.9 Consensus size: 17
99380854 CGTTTGGCCT
99380864 GCCCGTATGGGCCCACAA
1 GCCCGTAT-GGCCCACAA
*
99380882 GCCCGTGTGGCCCACA
1 GCCCGTATGGCCCACA
99380898 CGGCCCAAAT
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
17 8 0.53
18 7 0.47
ACGTcount: A:0.18, C:0.41, G:0.29, T:0.12
Consensus pattern (17 bp):
GCCCGTATGGCCCACAA
Found at i:99385322 original size:23 final size:22
Alignment explanation
Indices: 99385267--99385323 Score: 55
Period size: 23 Copynumber: 2.6 Consensus size: 22
99385257 TGAAAAAATT
*
99385267 ATTTTAA-ATATTTTAATGAAA
1 ATTTTAATATTTTTTAATGAAA
* *
99385288 A-TTGAATAATTTTTTATATTAAA
1 ATTTTAAT-ATTTTTTA-ATGAAA
99385311 ATTTTAATATTTT
1 ATTTTAATATTTT
99385324 AAAATATATC
Statistics
Matches: 28, Mismatches: 4, Indels: 6
0.74 0.11 0.16
Matches are distributed among these distances:
20 4 0.14
21 1 0.04
22 7 0.25
23 11 0.39
24 5 0.18
ACGTcount: A:0.42, C:0.00, G:0.04, T:0.54
Consensus pattern (22 bp):
ATTTTAATATTTTTTAATGAAA
Found at i:99385631 original size:44 final size:44
Alignment explanation
Indices: 99385568--99385655 Score: 176
Period size: 44 Copynumber: 2.0 Consensus size: 44
99385558 TACAATGTCA
99385568 AATACTCCAATAAAACTAAAGTTACAGGGTGAAAATTTTGTAAT
1 AATACTCCAATAAAACTAAAGTTACAGGGTGAAAATTTTGTAAT
99385612 AATACTCCAATAAAACTAAAGTTACAGGGTGAAAATTTTGTAAT
1 AATACTCCAATAAAACTAAAGTTACAGGGTGAAAATTTTGTAAT
99385656 CTTAGAGAAT
Statistics
Matches: 44, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
44 44 1.00
ACGTcount: A:0.45, C:0.11, G:0.14, T:0.30
Consensus pattern (44 bp):
AATACTCCAATAAAACTAAAGTTACAGGGTGAAAATTTTGTAAT
Found at i:99387263 original size:63 final size:62
Alignment explanation
Indices: 99387085--99387285 Score: 182
Period size: 62 Copynumber: 3.3 Consensus size: 62
99387075 ATAATTTTGA
*
99387085 ATAAAATATTTTTAAATTGAAGCATTTTGCTTAGAATTTTATAAAAATAAAAATTATAATAAC
1 ATAAAATAATTTTAAATTGAAGCATTTTGCTTAGAATTTTA-AAAAATAAAAATTATAATAAC
* * ** * ** * * *
99387148 AT-AAAT-A-TTT-CATT-CATTATTTTTGATATATTATATT-AAAAAT-TAAATTATAATAATT
1 ATAAAATAATTTTAAATTGAAGCA-TTTTGCT-TAGAATTTTAAAAAATAAAAATTATAATAA-C
*
99387206 TTAAAATAATTTTAAATTGAAGCATTTTGCTTAGAATTTTAAAAAATAAAAATTATAATAAC
1 ATAAAATAATTTTAAATTGAAGCATTTTGCTTAGAATTTTAAAAAATAAAAATTATAATAAC
* *
99387268 ATAATATACTTTTGAAAT
1 ATAAAATAATTTT-AAAT
99387286 GAAAAATAAT
Statistics
Matches: 102, Mismatches: 25, Indels: 22
0.68 0.17 0.15
Matches are distributed among these distances:
57 12 0.12
58 9 0.09
59 13 0.13
60 10 0.10
61 9 0.09
62 29 0.28
63 20 0.20
ACGTcount: A:0.48, C:0.04, G:0.05, T:0.43
Consensus pattern (62 bp):
ATAAAATAATTTTAAATTGAAGCATTTTGCTTAGAATTTTAAAAAATAAAAATTATAATAAC
Found at i:99387283 original size:57 final size:56
Alignment explanation
Indices: 99387101--99387283 Score: 133
Period size: 57 Copynumber: 3.1 Consensus size: 56
99387091 TATTTTTAAA
99387101 TTGAAGCATTTTGCTTAGAATTTTATAAAAATAAAAATTATAATAACATAAATA-T
1 TTGAAGCATTTTGCTTAGAATTTTATAAAAATAAAAATTATAATAACATAAATATT
* ** * * **
99387156 TTCATTCATTATT--TTTGATATATTATATTAAAAAT-TAAATTATAATAATTTTAAAATAATTT
1 TTGAAGCATT-TTGCTTAGA-AT-TT-TA-TAAAAATAAAAATTATAATAA-CAT-AAAT-A--T
99387218 T
56 T
99387219 AAATTGAAGCATTTTGCTTAGAATTTTA-AAAAATAAAAATTATAATAACATAATATACTT
1 ---TTGAAGCATTTTGCTTAGAATTTTATAAAAATAAAAATTATAATAACATAA-ATA-TT
99387279 TTGAA
1 TTGAA
99387284 ATGAAAAATA
Statistics
Matches: 95, Mismatches: 15, Indels: 34
0.66 0.10 0.24
Matches are distributed among these distances:
54 4 0.04
55 9 0.09
56 4 0.04
57 19 0.20
58 8 0.08
59 4 0.04
60 3 0.03
61 3 0.03
62 9 0.09
63 13 0.14
64 2 0.02
65 4 0.04
66 9 0.09
67 4 0.04
ACGTcount: A:0.47, C:0.05, G:0.05, T:0.43
Consensus pattern (56 bp):
TTGAAGCATTTTGCTTAGAATTTTATAAAAATAAAAATTATAATAACATAAATATT
Found at i:99388321 original size:6 final size:6
Alignment explanation
Indices: 99388310--99388343 Score: 59
Period size: 6 Copynumber: 5.7 Consensus size: 6
99388300 TTTCGGCAAA
*
99388310 TTTCCC TTTCCC TTTCCC TTTCCC TTCCCC TTTC
1 TTTCCC TTTCCC TTTCCC TTTCCC TTTCCC TTTC
99388344 TATTTCGTTT
Statistics
Matches: 26, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
6 26 1.00
ACGTcount: A:0.00, C:0.50, G:0.00, T:0.50
Consensus pattern (6 bp):
TTTCCC
Found at i:99388349 original size:18 final size:18
Alignment explanation
Indices: 99388309--99388349 Score: 55
Period size: 18 Copynumber: 2.3 Consensus size: 18
99388299 ATTTCGGCAA
*
99388309 ATTTCCCTTTCCCTTTCC
1 ATTTCCCTTCCCCTTTCC
* *
99388327 CTTTCCCTTCCCCTTTCT
1 ATTTCCCTTCCCCTTTCC
99388345 ATTTC
1 ATTTC
99388350 GTTTCTTTTT
Statistics
Matches: 19, Mismatches: 4, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
18 19 1.00
ACGTcount: A:0.05, C:0.44, G:0.00, T:0.51
Consensus pattern (18 bp):
ATTTCCCTTCCCCTTTCC
Found at i:99389584 original size:22 final size:23
Alignment explanation
Indices: 99389555--99389601 Score: 69
Period size: 23 Copynumber: 2.0 Consensus size: 23
99389545 TGCATTGCTA
*
99389555 AAAAAAAAACTAAAATAAAA-TTG
1 AAAAAAAAA-TAAAAAAAAAGTTG
99389578 AAAAAAAAATAAAAAAAAAGTTG
1 AAAAAAAAATAAAAAAAAAGTTG
99389601 A
1 A
99389602 GCCTGTATCA
Statistics
Matches: 22, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
22 9 0.41
23 13 0.59
ACGTcount: A:0.77, C:0.02, G:0.06, T:0.15
Consensus pattern (23 bp):
AAAAAAAAATAAAAAAAAAGTTG
Found at i:99390350 original size:22 final size:24
Alignment explanation
Indices: 99390322--99390365 Score: 74
Period size: 22 Copynumber: 1.9 Consensus size: 24
99390312 GGCACGTTAT
99390322 TTTTTGTTC-TGT-TTCTTCTTGG
1 TTTTTGTTCTTGTGTTCTTCTTGG
99390344 TTTTTGTTCTTGTGTTCTTCTT
1 TTTTTGTTCTTGTGTTCTTCTT
99390366 TTTGCTTTTT
Statistics
Matches: 20, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
22 9 0.45
23 3 0.15
24 8 0.40
ACGTcount: A:0.00, C:0.14, G:0.16, T:0.70
Consensus pattern (24 bp):
TTTTTGTTCTTGTGTTCTTCTTGG
Found at i:99398284 original size:6 final size:6
Alignment explanation
Indices: 99398273--99398298 Score: 52
Period size: 6 Copynumber: 4.3 Consensus size: 6
99398263 AAATATTTTT
99398273 AAATAA AAATAA AAATAA AAATAA AA
1 AAATAA AAATAA AAATAA AAATAA AA
99398299 CTAATATCGA
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 20 1.00
ACGTcount: A:0.85, C:0.00, G:0.00, T:0.15
Consensus pattern (6 bp):
AAATAA
Found at i:99398550 original size:18 final size:17
Alignment explanation
Indices: 99398507--99398554 Score: 53
Period size: 18 Copynumber: 2.7 Consensus size: 17
99398497 AAAAATATAT
99398507 ATAC-AATATATATTAAAA
1 ATACTAATA-ATA-TAAAA
*
99398525 ATAGTAATAATATAAAA
1 ATACTAATAATATAAAA
99398542 ATAACTAATAATA
1 AT-ACTAATAATA
99398555 ACGATATACA
Statistics
Matches: 26, Mismatches: 2, Indels: 4
0.81 0.06 0.12
Matches are distributed among these distances:
17 7 0.27
18 15 0.58
19 4 0.15
ACGTcount: A:0.62, C:0.04, G:0.02, T:0.31
Consensus pattern (17 bp):
ATACTAATAATATAAAA
Found at i:99398738 original size:23 final size:22
Alignment explanation
Indices: 99398706--99398920 Score: 152
Period size: 23 Copynumber: 9.2 Consensus size: 22
99398696 ATATGTAAAT
*
99398706 ATATATTAAAAATAAATACATA
1 ATATATTAAAAATATATACATA
* *
99398728 ATACTATTAAAAGTATGTACATA
1 ATA-TATTAAAAATATATACATA
*
99398751 ATATAGTGTTAAAAATACATACATAA
1 ATATA---TTAAAAATATATACAT-A
99398777 TATAGTTATTAAAAAATATATACATA
1 -ATA--TATT-AAAAATATATACATA
* * *
99398803 AGATAATATAAAATATACACATGA
1 ATATATTA-AAAATATATACAT-A
99398827 A-ATAGTATAAAAATATATA-ACTA
1 ATATA-T-TAAAAATATATACA-TA
99398850 ATAATATTAAAAATATATACATA
1 AT-ATATTAAAAATATATACATA
*
99398873 ATATATATAAAAACATATACA-A
1 ATATAT-TAAAAATATATACATA
* *
99398895 TATATATTAGAAAT-GATA-ATA
1 -ATATATTAAAAATATATACATA
99398916 ATATA
1 ATATA
99398921 AAAAAATTAT
Statistics
Matches: 157, Mismatches: 16, Indels: 42
0.73 0.07 0.20
Matches are distributed among these distances:
20 6 0.04
21 4 0.03
22 16 0.10
23 75 0.48
24 14 0.09
25 20 0.13
26 4 0.03
27 16 0.10
29 2 0.01
ACGTcount: A:0.57, C:0.06, G:0.05, T:0.33
Consensus pattern (22 bp):
ATATATTAAAAATATATACATA
Found at i:99398845 original size:47 final size:47
Alignment explanation
Indices: 99398703--99398893 Score: 144
Period size: 47 Copynumber: 4.0 Consensus size: 47
99398693 TAAATATGTA
* * * *
99398703 AATATATATTAAAAATAAATACATAATACTAT-TAAAAGTATGTACA-T
1 AATA-ATATTAAAAATATACACATAATA-TATATAAAAATATATACACT
* * *
99398750 AATATAGTGTTAAAAATACATACATAATATAGTTATTAAAAAATATATACA-T
1 AATA-A-TATTAAAAATATACACATAATATA--TA-T-AAAAATATATACACT
99398802 AAGATAATA-T-AAAATATACACATGAA-ATAGTATAAAAATATATA-ACT
1 -A-ATAATATTAAAAATATACACAT-AATATA-TATAAAAATATATACACT
* *
99398849 AATAATATTAAAAATATATACATAATATATATAAAAACATATACA
1 AATAATATTAAAAATATACACATAATATATATAAAAATATATACA
99398894 ATATATATTA
Statistics
Matches: 120, Mismatches: 10, Indels: 28
0.76 0.06 0.18
Matches are distributed among these distances:
45 6 0.05
46 18 0.15
47 36 0.30
48 21 0.17
49 3 0.03
50 14 0.12
51 4 0.03
52 13 0.11
53 2 0.02
54 3 0.03
ACGTcount: A:0.58, C:0.06, G:0.04, T:0.32
Consensus pattern (47 bp):
AATAATATTAAAAATATACACATAATATATATAAAAATATATACACT
Found at i:99398948 original size:12 final size:12
Alignment explanation
Indices: 99398910--99399021 Score: 55
Period size: 12 Copynumber: 9.6 Consensus size: 12
99398900 ATTAGAAATG
99398910 ATAAT-AATATA
1 ATAATAAATATA
99398921 A-AA-AAATTATTA
1 ATAATAAA-TA-TA
99398933 ATAATAAATATA
1 ATAATAAATATA
*
99398945 ATAATAAATCTA
1 ATAATAAATATA
*
99398957 GTATATAAATAT-
1 ATA-ATAAATATA
99398969 -TAAGTGAAA-ATCA
1 ATAA-T-AAATAT-A
* *
99398982 ATACT-AGTACTA
1 ATAATAAATA-TA
99398994 ATAAT--AT-TA
1 ATAATAAATATA
99399003 ATAATAAATATA
1 ATAATAAATATA
99399015 ATAATAA
1 ATAATAA
99399022 TAAATATATA
Statistics
Matches: 78, Mismatches: 7, Indels: 31
0.67 0.06 0.27
Matches are distributed among these distances:
9 7 0.09
10 5 0.06
11 12 0.15
12 36 0.46
13 13 0.17
14 5 0.06
ACGTcount: A:0.59, C:0.04, G:0.04, T:0.34
Consensus pattern (12 bp):
ATAATAAATATA
Done.