Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Chr06 132263754
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: 132263754
ACGTcount: A:0.32, C:0.18, G:0.18, T:0.32
Warning! 372 characters in sequence are not A, C, G, or T
File 3 of 433
Found at i:745942 original size:2 final size:2
Alignment explanation
Indices: 745937--745995 Score: 61
Period size: 2 Copynumber: 31.0 Consensus size: 2
745927 AACTAATGGC
* * *
745937 AT AT AT AC AT A- AT AT AT AT AT AT A- AT AC AC AT A- AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
*
745976 AT AT AT AT AT AT AT AC AT AT
1 AT AT AT AT AT AT AT AT AT AT
745996 TAGAAATGAT
Statistics
Matches: 48, Mismatches: 6, Indels: 6
0.80 0.10 0.10
Matches are distributed among these distances:
1 3 0.06
2 45 0.94
ACGTcount: A:0.53, C:0.07, G:0.00, T:0.41
Consensus pattern (2 bp):
AT
Found at i:746527 original size:11 final size:12
Alignment explanation
Indices: 746511--746547 Score: 60
Period size: 11 Copynumber: 3.2 Consensus size: 12
746501 AAGAAAAAAA
746511 GGAAGAGAG-AG
1 GGAAGAGAGAAG
746522 GGAAGAGAGAAG
1 GGAAGAGAGAAG
746534 GG-AGAGAGAAG
1 GGAAGAGAGAAG
746545 GGA
1 GGA
746548 GGGGGAAGGG
Statistics
Matches: 24, Mismatches: 0, Indels: 3
0.89 0.00 0.11
Matches are distributed among these distances:
11 20 0.83
12 4 0.17
ACGTcount: A:0.46, C:0.00, G:0.54, T:0.00
Consensus pattern (12 bp):
GGAAGAGAGAAG
Found at i:746548 original size:11 final size:11
Alignment explanation
Indices: 746509--746558 Score: 57
Period size: 11 Copynumber: 4.5 Consensus size: 11
746499 GAAAGAAAAA
*
746509 AAGGAAGAGAG
1 AAGGGAGAGAG
746520 -AGGGAAGAGAG
1 AAGGG-AGAGAG
746531 AAGGGAGAGAG
1 AAGGGAGAGAG
* *
746542 AAGGGAGGGGG
1 AAGGGAGAGAG
746553 AAGGGA
1 AAGGGA
746559 AATCCGGTCG
Statistics
Matches: 34, Mismatches: 3, Indels: 4
0.83 0.07 0.10
Matches are distributed among these distances:
10 3 0.09
11 27 0.79
12 4 0.12
ACGTcount: A:0.44, C:0.00, G:0.56, T:0.00
Consensus pattern (11 bp):
AAGGGAGAGAG
Found at i:746857 original size:14 final size:15
Alignment explanation
Indices: 746822--746857 Score: 65
Period size: 14 Copynumber: 2.5 Consensus size: 15
746812 TTTTTGGTTT
746822 TTTTTTTGCTGGAAA
1 TTTTTTTGCTGGAAA
746837 TTTTTTT-CTGGAAA
1 TTTTTTTGCTGGAAA
746851 TTTTTTT
1 TTTTTTT
746858 TTGGTGCTGG
Statistics
Matches: 21, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
14 14 0.67
15 7 0.33
ACGTcount: A:0.17, C:0.06, G:0.14, T:0.64
Consensus pattern (15 bp):
TTTTTTTGCTGGAAA
Found at i:746858 original size:15 final size:16
Alignment explanation
Indices: 746821--746858 Score: 62
Period size: 15 Copynumber: 2.5 Consensus size: 16
746811 TTTTTTGGTT
746821 TTTTTTTTGCTGGAAA
1 TTTTTTTTGCTGGAAA
746837 -TTTTTTT-CTGGAAA
1 TTTTTTTTGCTGGAAA
746851 TTTTTTTT
1 TTTTTTTT
746859 TGGTGCTGGA
Statistics
Matches: 21, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
14 7 0.33
15 14 0.67
ACGTcount: A:0.16, C:0.05, G:0.13, T:0.66
Consensus pattern (16 bp):
TTTTTTTTGCTGGAAA
Found at i:746872 original size:33 final size:32
Alignment explanation
Indices: 746819--746892 Score: 98
Period size: 32 Copynumber: 2.3 Consensus size: 32
746809 TTTTTTTTGG
*
746819 TTTTTTTTT-TGCTGGAAATTTTTTTCTGGAAA
1 TTTTTTTTTGTGCTGGAAATTTTTTGCTGG-AA
*
746851 TTTTTTTTTGGTGCTGG-AATTTTTTGCTGGAT
1 TTTTTTTTT-GTGCTGGAAATTTTTTGCTGGAA
746883 TTTTTTTTTG
1 TTTTTTTTTG
746893 CTTCCCCTCT
Statistics
Matches: 38, Mismatches: 2, Indels: 5
0.84 0.04 0.11
Matches are distributed among these distances:
31 1 0.03
32 19 0.50
33 12 0.32
34 6 0.16
ACGTcount: A:0.12, C:0.05, G:0.19, T:0.64
Consensus pattern (32 bp):
TTTTTTTTTGTGCTGGAAATTTTTTGCTGGAA
Found at i:746887 original size:14 final size:15
Alignment explanation
Indices: 746821--746889 Score: 56
Period size: 15 Copynumber: 4.5 Consensus size: 15
746811 TTTTTTGGTT
746821 TTTTTTTTGCTGGAA
1 TTTTTTTTGCTGGAA
*
746836 ATTTTTTT-CTGGAAA
1 TTTTTTTTGCTGG-AA
746851 TTTTTTTTTGGTGCTGGAA
1 --TTTTTTT--TGCTGGAA
746870 --TTTTTTGCTGG-A
1 TTTTTTTTGCTGGAA
746882 TTTTTTTT
1 TTTTTTTT
746890 TTGCTTCCCC
Statistics
Matches: 44, Mismatches: 2, Indels: 17
0.70 0.03 0.27
Matches are distributed among these distances:
12 1 0.02
13 6 0.14
14 10 0.23
15 14 0.32
17 6 0.14
19 3 0.07
20 4 0.09
ACGTcount: A:0.13, C:0.06, G:0.19, T:0.62
Consensus pattern (15 bp):
TTTTTTTTGCTGGAA
Found at i:747337 original size:35 final size:35
Alignment explanation
Indices: 747297--747365 Score: 129
Period size: 35 Copynumber: 2.0 Consensus size: 35
747287 GGGTGTGTGA
747297 TGGTGCTGGCGGCAGACAGCATGGGAGAGTGGGAG
1 TGGTGCTGGCGGCAGACAGCATGGGAGAGTGGGAG
*
747332 TGGTGCTGGTGGCAGACAGCATGGGAGAGTGGGA
1 TGGTGCTGGCGGCAGACAGCATGGGAGAGTGGGA
747366 AGAGGCAAGT
Statistics
Matches: 33, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
35 33 1.00
ACGTcount: A:0.20, C:0.13, G:0.51, T:0.16
Consensus pattern (35 bp):
TGGTGCTGGCGGCAGACAGCATGGGAGAGTGGGAG
Found at i:749345 original size:93 final size:93
Alignment explanation
Indices: 749233--749404 Score: 317
Period size: 93 Copynumber: 1.8 Consensus size: 93
749223 GCCCATAAGT
* *
749233 GAACTCGGACTCAACTCAACGAGCTCGGGCGTTCGCATCCATAAGTGAACTCGGACTCAACTCAA
1 GAACTCGGACTCAACTCAACGAGCTCGGACGCTCGCATCCATAAGTGAACTCGGACTCAACTCAA
749298 CGAGTTCGGATGCCTAGTTACATCTCAC
66 CGAGTTCGGATGCCTAGTTACATCTCAC
*
749326 GAACTCGGACTCAACTCAACGAGTTCGGACGCTCGCATCCATAAGTGAACTCGGACTCAACTCAA
1 GAACTCGGACTCAACTCAACGAGCTCGGACGCTCGCATCCATAAGTGAACTCGGACTCAACTCAA
749391 CGAGTTCGGATGCC
66 CGAGTTCGGATGCC
749405 CAAATATCCC
Statistics
Matches: 76, Mismatches: 3, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
93 76 1.00
ACGTcount: A:0.27, C:0.30, G:0.22, T:0.20
Consensus pattern (93 bp):
GAACTCGGACTCAACTCAACGAGCTCGGACGCTCGCATCCATAAGTGAACTCGGACTCAACTCAA
CGAGTTCGGATGCCTAGTTACATCTCAC
Found at i:749400 original size:46 final size:46
Alignment explanation
Indices: 749225--749400 Score: 232
Period size: 46 Copynumber: 3.8 Consensus size: 46
749215 TGTAACCCGC
* * *
749225 CCATAAGTGAACTCGGACTCAACTCAACGAGCTCGGGCGTTCGCAT
1 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGACGCTCGCAT
* *
749271 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGATGCCTAGTTACAT
1 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGACG-CTCG---CAT
* *
749321 -C-TCA-CGAACTCGGACTCAACTCAACGAGTTCGGACGCTCGCAT
1 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGACGCTCGCAT
749364 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGA
1 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGA
749401 TGCCCAAATA
Statistics
Matches: 112, Mismatches: 11, Indels: 14
0.82 0.08 0.10
Matches are distributed among these distances:
43 3 0.03
44 1 0.01
45 2 0.02
46 68 0.61
47 32 0.29
48 2 0.02
49 1 0.01
50 3 0.03
ACGTcount: A:0.28, C:0.30, G:0.22, T:0.20
Consensus pattern (46 bp):
CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGACGCTCGCAT
Found at i:758082 original size:28 final size:26
Alignment explanation
Indices: 758037--758107 Score: 74
Period size: 26 Copynumber: 2.7 Consensus size: 26
758027 GATCGGCATC
*
758037 ATTTTCTTTTTTT-TTTCTTCTTTCG
1 ATTTTTTTTTTTTCTTTCTTCTTTCG
*
758062 AATTTTTTTTTATTTCTTTCTTTTTTCG
1 -ATTTTTTTTT-TTTCTTTCTTCTTTCG
758090 -TTTTTTATTTCTTTCTTT
1 ATTTTTT-TTT-TTTCTTT
758108 TTATACACAT
Statistics
Matches: 39, Mismatches: 3, Indels: 5
0.83 0.06 0.11
Matches are distributed among these distances:
26 15 0.38
27 13 0.33
28 11 0.28
ACGTcount: A:0.07, C:0.13, G:0.03, T:0.77
Consensus pattern (26 bp):
ATTTTTTTTTTTTCTTTCTTCTTTCG
Found at i:758712 original size:3 final size:3
Alignment explanation
Indices: 758700--758763 Score: 110
Period size: 3 Copynumber: 21.0 Consensus size: 3
758690 ACTACTATAT
*
758700 TTA TTT TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA
758748 TTA TTA TTA TGTA TTA
1 TTA TTA TTA T-TA TTA
758764 GTGTATACTT
Statistics
Matches: 58, Mismatches: 2, Indels: 2
0.94 0.03 0.03
Matches are distributed among these distances:
3 55 0.95
4 3 0.05
ACGTcount: A:0.31, C:0.00, G:0.02, T:0.67
Consensus pattern (3 bp):
TTA
Found at i:758925 original size:19 final size:20
Alignment explanation
Indices: 758901--758938 Score: 60
Period size: 19 Copynumber: 1.9 Consensus size: 20
758891 TTTATAATAC
758901 TATTATTAT-AATCTTATTT
1 TATTATTATCAATCTTATTT
*
758920 TATTATTATCATTCTTATT
1 TATTATTATCAATCTTATT
758939 AATACATTAT
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
19 9 0.53
20 8 0.47
ACGTcount: A:0.29, C:0.08, G:0.00, T:0.63
Consensus pattern (20 bp):
TATTATTATCAATCTTATTT
Found at i:759204 original size:23 final size:25
Alignment explanation
Indices: 759178--759238 Score: 85
Period size: 23 Copynumber: 2.6 Consensus size: 25
759168 ATATATTTCT
759178 TATTTTTTATATTAC-T-A-GTTATA
1 TATTTTTTATATTACTTCATG-TATA
759201 TATTTTTTATATTACTTCATGTATA
1 TATTTTTTATATTACTTCATGTATA
759226 TA-TTTTTATATTA
1 TATTTTTTATATTA
759239 TCCTTGTTAT
Statistics
Matches: 35, Mismatches: 0, Indels: 5
0.88 0.00 0.12
Matches are distributed among these distances:
23 15 0.43
24 12 0.34
25 7 0.20
26 1 0.03
ACGTcount: A:0.30, C:0.05, G:0.03, T:0.62
Consensus pattern (25 bp):
TATTTTTTATATTACTTCATGTATA
Found at i:759252 original size:23 final size:23
Alignment explanation
Indices: 759181--759252 Score: 69
Period size: 23 Copynumber: 3.1 Consensus size: 23
759171 TATTTCTTAT
*
759181 TTTTTATATTA-CTAGTTATATA
1 TTTTTATATTATCTTGTTATATA
*
759203 TTTTTTATATTA-CTTCATGTATATA
1 -TTTTTATATTATCTT-GT-TATATA
759228 TTTTTATATTATCCTTGTTAT-TA
1 TTTTTATATTAT-CTTGTTATATA
759251 TT
1 TT
759253 ATTAATCTTA
Statistics
Matches: 42, Mismatches: 3, Indels: 8
0.79 0.06 0.15
Matches are distributed among these distances:
23 17 0.40
24 15 0.36
25 7 0.17
26 3 0.07
ACGTcount: A:0.26, C:0.07, G:0.04, T:0.62
Consensus pattern (23 bp):
TTTTTATATTATCTTGTTATATA
Found at i:759345 original size:18 final size:19
Alignment explanation
Indices: 759322--759366 Score: 56
Period size: 20 Copynumber: 2.4 Consensus size: 19
759312 ATCTTTATGC
759322 AATATTAGTAT-TGTTATT
1 AATATTAGTATGTGTTATT
* *
759340 AATATTAAGTATGTTTTTTT
1 AATATT-AGTATGTGTTATT
759360 AATATTA
1 AATATTA
759367 TAATTATGTG
Statistics
Matches: 23, Mismatches: 2, Indels: 3
0.82 0.07 0.11
Matches are distributed among these distances:
18 6 0.26
19 6 0.26
20 11 0.48
ACGTcount: A:0.36, C:0.00, G:0.09, T:0.56
Consensus pattern (19 bp):
AATATTAGTATGTGTTATT
Found at i:759415 original size:19 final size:18
Alignment explanation
Indices: 759356--759423 Score: 57
Period size: 19 Copynumber: 3.5 Consensus size: 18
759346 AAGTATGTTT
759356 TTTTAATATTATAATTATG
1 TTTTAATATTATAA-TATG
*
759375 TGTGTATATATTATGTAA-ATG
1 T-TTTA-ATATTA--TAATATG
759396 TTTTAATATTATACATATG
1 TTTTAATATTATA-ATATG
*
759415 TTTTTATAT
1 TTTTAATAT
759424 ATTACGAATC
Statistics
Matches: 40, Mismatches: 3, Indels: 12
0.73 0.05 0.22
Matches are distributed among these distances:
17 2 0.05
18 1 0.03
19 18 0.45
20 6 0.15
21 10 0.25
23 3 0.08
ACGTcount: A:0.34, C:0.01, G:0.09, T:0.56
Consensus pattern (18 bp):
TTTTAATATTATAATATG
Found at i:759427 original size:21 final size:20
Alignment explanation
Indices: 759349--759427 Score: 65
Period size: 21 Copynumber: 3.9 Consensus size: 20
759339 TAATATTAAG
*
759349 TATGTTTTTTTAATATTATAA
1 TATGTTTTTAT-ATATTATAA
* *
759370 TTATGTGTGTATATATTATGTAA
1 -TATGTTTTTATATATTA--TAA
759393 -ATG-TTTTA-ATATTATACA
1 TATGTTTTTATATATTATA-A
759411 TATGTTTTTATATATTA
1 TATGTTTTTATATATTA
759428 CGAATCTATA
Statistics
Matches: 46, Mismatches: 5, Indels: 13
0.72 0.08 0.20
Matches are distributed among these distances:
17 2 0.04
18 1 0.02
19 9 0.20
20 8 0.17
21 15 0.33
22 8 0.17
23 3 0.07
ACGTcount: A:0.33, C:0.01, G:0.09, T:0.57
Consensus pattern (20 bp):
TATGTTTTTATATATTATAA
Found at i:759911 original size:9 final size:9
Alignment explanation
Indices: 759897--759923 Score: 54
Period size: 9 Copynumber: 3.0 Consensus size: 9
759887 ATATATCTTT
759897 CTATTATTA
1 CTATTATTA
759906 CTATTATTA
1 CTATTATTA
759915 CTATTATTA
1 CTATTATTA
759924 GTGTGTGTCT
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
9 18 1.00
ACGTcount: A:0.33, C:0.11, G:0.00, T:0.56
Consensus pattern (9 bp):
CTATTATTA
Found at i:759985 original size:2 final size:2
Alignment explanation
Indices: 759978--760005 Score: 56
Period size: 2 Copynumber: 14.0 Consensus size: 2
759968 TATGTCATGC
759978 AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT
760006 TATGTACCTC
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:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:766262 original size:5 final size:5
Alignment explanation
Indices: 766252--766283 Score: 57
Period size: 5 Copynumber: 6.6 Consensus size: 5
766242 TTGTGTATTC
766252 TTTAT TTTA- TTTAT TTTAT TTTAT TTTAT TTT
1 TTTAT TTTAT TTTAT TTTAT TTTAT TTTAT TTT
766284 TCACAAATAG
Statistics
Matches: 26, Mismatches: 0, Indels: 2
0.93 0.00 0.07
Matches are distributed among these distances:
4 4 0.15
5 22 0.85
ACGTcount: A:0.19, C:0.00, G:0.00, T:0.81
Consensus pattern (5 bp):
TTTAT
Found at i:766266 original size:9 final size:9
Alignment explanation
Indices: 766252--766282 Score: 53
Period size: 9 Copynumber: 3.3 Consensus size: 9
766242 TTGTGTATTC
766252 TTTATTTTA
1 TTTATTTTA
766261 TTTATTTTA
1 TTTATTTTA
766270 TTTTATTTTA
1 -TTTATTTTA
766280 TTT
1 TTT
766283 TTCACAAATA
Statistics
Matches: 21, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
9 12 0.57
10 9 0.43
ACGTcount: A:0.19, C:0.00, G:0.00, T:0.81
Consensus pattern (9 bp):
TTTATTTTA
Found at i:767118 original size:23 final size:23
Alignment explanation
Indices: 767092--767137 Score: 83
Period size: 23 Copynumber: 2.0 Consensus size: 23
767082 TTATTAATCG
767092 ATTCAAACATGATAAAATTATAA
1 ATTCAAACATGATAAAATTATAA
*
767115 ATTCATACATGATAAAATTATAA
1 ATTCAAACATGATAAAATTATAA
767138 TTTAACTTAG
Statistics
Matches: 22, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
23 22 1.00
ACGTcount: A:0.54, C:0.09, G:0.04, T:0.33
Consensus pattern (23 bp):
ATTCAAACATGATAAAATTATAA
Found at i:774166 original size:31 final size:30
Alignment explanation
Indices: 774117--774175 Score: 75
Period size: 30 Copynumber: 1.9 Consensus size: 30
774107 ATCTTCTTAA
* *
774117 TTTTCAGTCCTTTTAATTTTCTATTTTTTATT
1 TTTTCAGTCC-TTCAAATTTCT-TTTTTTATT
774149 TTTTCA-TCCTTCAAATTTCTTTTTTTA
1 TTTTCAGTCCTTCAAATTTCTTTTTTTA
774176 CTCTACCAAG
Statistics
Matches: 25, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
29 7 0.28
30 9 0.36
31 3 0.12
32 6 0.24
ACGTcount: A:0.17, C:0.15, G:0.02, T:0.66
Consensus pattern (30 bp):
TTTTCAGTCCTTCAAATTTCTTTTTTTATT
Found at i:775608 original size:15 final size:17
Alignment explanation
Indices: 775572--775609 Score: 53
Period size: 18 Copynumber: 2.3 Consensus size: 17
775562 TTTATTGCTC
775572 TTTCATCAATGATCCACA
1 TTTCATCAATGA-CCACA
775590 TTTCATCAATG-CC-CA
1 TTTCATCAATGACCACA
775605 TTTCA
1 TTTCA
775610 AAAACCATAC
Statistics
Matches: 20, Mismatches: 0, Indels: 3
0.87 0.00 0.13
Matches are distributed among these distances:
15 7 0.35
16 2 0.10
18 11 0.55
ACGTcount: A:0.29, C:0.29, G:0.05, T:0.37
Consensus pattern (17 bp):
TTTCATCAATGACCACA
Found at i:777673 original size:33 final size:33
Alignment explanation
Indices: 777631--777696 Score: 123
Period size: 33 Copynumber: 2.0 Consensus size: 33
777621 TGTACTCATC
*
777631 ATCACCTAATTTGTTGAAAATTATTTACTTTTG
1 ATCACCTAATTTGTTGAAAACTATTTACTTTTG
777664 ATCACCTAATTTGTTGAAAACTATTTACTTTTG
1 ATCACCTAATTTGTTGAAAACTATTTACTTTTG
777697 TATTTTTAGA
Statistics
Matches: 32, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
33 32 1.00
ACGTcount: A:0.30, C:0.14, G:0.09, T:0.47
Consensus pattern (33 bp):
ATCACCTAATTTGTTGAAAACTATTTACTTTTG
Found at i:780163 original size:30 final size:31
Alignment explanation
Indices: 780129--780190 Score: 90
Period size: 31 Copynumber: 2.0 Consensus size: 31
780119 TTAACAGCCC
**
780129 AGTGACTTAAAT-AATTCTTTCGAATAATTT
1 AGTGACTTAAATGAAAACTTTCGAATAATTT
*
780159 AGTGACTTAAATGAAAACTTTTGAATAATTT
1 AGTGACTTAAATGAAAACTTTCGAATAATTT
780190 A
1 A
780191 ATGATCATTT
Statistics
Matches: 28, Mismatches: 3, Indels: 1
0.88 0.09 0.03
Matches are distributed among these distances:
30 12 0.43
31 16 0.57
ACGTcount: A:0.40, C:0.08, G:0.11, T:0.40
Consensus pattern (31 bp):
AGTGACTTAAATGAAAACTTTCGAATAATTT
Found at i:780389 original size:21 final size:21
Alignment explanation
Indices: 780365--780405 Score: 64
Period size: 21 Copynumber: 2.0 Consensus size: 21
780355 AATTTAAAAG
*
780365 AATGGAAAGCATACAATGAAT
1 AATGGAAACCATACAATGAAT
*
780386 AATGGATACCATACAATGAA
1 AATGGAAACCATACAATGAA
780406 AAAGTTTGGT
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
21 18 1.00
ACGTcount: A:0.51, C:0.12, G:0.17, T:0.20
Consensus pattern (21 bp):
AATGGAAACCATACAATGAAT
Found at i:782044 original size:41 final size:40
Alignment explanation
Indices: 781968--782053 Score: 100
Period size: 41 Copynumber: 2.1 Consensus size: 40
781958 CAAATACATT
*
781968 TAAAACAAATATTAAAACAAGAAACAAATAAAAAATGATAC
1 TAAAACAAATATTAAAACAAGAAACAAATAAAAAAT-ATAA
* * * * **
782009 TAAAACAATTCTTAAAACAATACACAAATTGAAAATATAA
1 TAAAACAAATATTAAAACAAGAAACAAATAAAAAATATAA
782049 TAAAA
1 TAAAA
782054 GTGATTATAT
Statistics
Matches: 38, Mismatches: 7, Indels: 1
0.83 0.15 0.02
Matches are distributed among these distances:
40 8 0.21
41 30 0.79
ACGTcount: A:0.65, C:0.10, G:0.03, T:0.21
Consensus pattern (40 bp):
TAAAACAAATATTAAAACAAGAAACAAATAAAAAATATAA
Found at i:785688 original size:19 final size:18
Alignment explanation
Indices: 785644--785690 Score: 69
Period size: 18 Copynumber: 2.6 Consensus size: 18
785634 TAGAATTTCT
*
785644 AAAATT-TATATTTTTAA
1 AAAATTATAAATTTTTAA
785661 AAAATTATAAATTTTTAA
1 AAAATTATAAATTTTTAA
785679 AAAATATATAAA
1 AAAAT-TATAAA
785691 AATATATAAA
Statistics
Matches: 27, Mismatches: 1, Indels: 2
0.90 0.03 0.07
Matches are distributed among these distances:
17 6 0.22
18 15 0.56
19 6 0.22
ACGTcount: A:0.57, C:0.00, G:0.00, T:0.43
Consensus pattern (18 bp):
AAAATTATAAATTTTTAA
Found at i:785693 original size:10 final size:10
Alignment explanation
Indices: 785678--785703 Score: 52
Period size: 10 Copynumber: 2.6 Consensus size: 10
785668 TAAATTTTTA
785678 AAAAATATAT
1 AAAAATATAT
785688 AAAAATATAT
1 AAAAATATAT
785698 AAAAAT
1 AAAAAT
785704 TTTAATAAAT
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
10 16 1.00
ACGTcount: A:0.73, C:0.00, G:0.00, T:0.27
Consensus pattern (10 bp):
AAAAATATAT
Found at i:789118 original size:30 final size:32
Alignment explanation
Indices: 789081--789158 Score: 88
Period size: 30 Copynumber: 2.5 Consensus size: 32
789071 TTGGTCTAAG
* *
789081 TAAAACTTTTAAAAATTTTGAAGG-TTTC-AT
1 TAAAACTTTTAAAAATTTTGAAGGAGTGCAAT
* ** *
789111 TAGAACTTACAAAATTTTTGAAGGAGTGCAAT
1 TAAAACTTTTAAAAATTTTGAAGGAGTGCAAT
789143 TAAAACTTTTAAAAAT
1 TAAAACTTTTAAAAAT
789159 CTGAATGTCT
Statistics
Matches: 36, Mismatches: 10, Indels: 2
0.75 0.21 0.04
Matches are distributed among these distances:
30 20 0.56
31 2 0.06
32 14 0.39
ACGTcount: A:0.44, C:0.08, G:0.12, T:0.37
Consensus pattern (32 bp):
TAAAACTTTTAAAAATTTTGAAGGAGTGCAAT
Found at i:789319 original size:21 final size:21
Alignment explanation
Indices: 789295--789342 Score: 53
Period size: 21 Copynumber: 2.3 Consensus size: 21
789285 AAACTTGTTT
789295 ATATTTAAAT-GTAATTATAAA
1 ATATTTAAATAGTAA-TATAAA
* *
789316 ATATGTAAATATTAATATAAA
1 ATATTTAAATAGTAATATAAA
*
789337 TTATTT
1 ATATTT
789343 TTATATTTTA
Statistics
Matches: 22, Mismatches: 4, Indels: 2
0.79 0.14 0.07
Matches are distributed among these distances:
21 19 0.86
22 3 0.14
ACGTcount: A:0.50, C:0.00, G:0.04, T:0.46
Consensus pattern (21 bp):
ATATTTAAATAGTAATATAAA
Found at i:792718 original size:3 final size:3
Alignment explanation
Indices: 792710--792753 Score: 88
Period size: 3 Copynumber: 14.7 Consensus size: 3
792700 GTCACTTTGC
792710 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TT
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TT
792754 GGCGTTATAC
Statistics
Matches: 41, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 41 1.00
ACGTcount: A:0.32, C:0.00, G:0.00, T:0.68
Consensus pattern (3 bp):
TTA
Found at i:793010 original size:23 final size:23
Alignment explanation
Indices: 792999--793056 Score: 62
Period size: 23 Copynumber: 2.5 Consensus size: 23
792989 CTTTAATACT
*
792999 TTATGTATATATTCTTATATATA
1 TTATGTATATATACTTATATATA
* * * *
793022 TTATGTATATACATTTTTATATC
1 TTATGTATATATACTTATATATA
*
793045 TTACGTATATAT
1 TTATGTATATAT
793057 TTTAAATACT
Statistics
Matches: 28, Mismatches: 7, Indels: 0
0.80 0.20 0.00
Matches are distributed among these distances:
23 28 1.00
ACGTcount: A:0.33, C:0.07, G:0.05, T:0.55
Consensus pattern (23 bp):
TTATGTATATATACTTATATATA
Found at i:803420 original size:34 final size:34
Alignment explanation
Indices: 803350--803416 Score: 118
Period size: 33 Copynumber: 2.0 Consensus size: 34
803340 CATTTATATT
*
803350 GTTGAAATTTTTTATTTTTTTAAAACTAATATAA
1 GTTGAAAATTTTTATTTTTTTAAAACTAATATAA
803384 GTTGAAAATTTTTA-TTTTTTAAAACTAATATAA
1 GTTGAAAATTTTTATTTTTTTAAAACTAATATAA
803417 AGTTTTGTTT
Statistics
Matches: 32, Mismatches: 1, Indels: 1
0.94 0.03 0.03
Matches are distributed among these distances:
33 19 0.59
34 13 0.41
ACGTcount: A:0.40, C:0.03, G:0.06, T:0.51
Consensus pattern (34 bp):
GTTGAAAATTTTTATTTTTTTAAAACTAATATAA
Found at i:806397 original size:38 final size:32
Alignment explanation
Indices: 806318--806388 Score: 124
Period size: 32 Copynumber: 2.2 Consensus size: 32
806308 CACAATTGAG
806318 TTCTTACATCTATAAAATTAAAATCAGAAATC
1 TTCTTACATCTATAAAATTAAAATCAGAAATC
*
806350 TTCTTACATCTATAAAATTAAAATCCGAAATC
1 TTCTTACATCTATAAAATTAAAATCAGAAATC
806382 TTACTTA
1 TT-CTTA
806389 AGATACATCG
Statistics
Matches: 37, Mismatches: 1, Indels: 1
0.95 0.03 0.03
Matches are distributed among these distances:
32 33 0.89
33 4 0.11
ACGTcount: A:0.44, C:0.17, G:0.03, T:0.37
Consensus pattern (32 bp):
TTCTTACATCTATAAAATTAAAATCAGAAATC
Found at i:807267 original size:24 final size:24
Alignment explanation
Indices: 807239--807288 Score: 100
Period size: 24 Copynumber: 2.1 Consensus size: 24
807229 AACCAACCCC
807239 GACCTGCCCAATTAACAAGTTGAA
1 GACCTGCCCAATTAACAAGTTGAA
807263 GACCTGCCCAATTAACAAGTTGAA
1 GACCTGCCCAATTAACAAGTTGAA
807287 GA
1 GA
807289 GTCTAAAAAT
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
24 26 1.00
ACGTcount: A:0.38, C:0.24, G:0.18, T:0.20
Consensus pattern (24 bp):
GACCTGCCCAATTAACAAGTTGAA
Found at i:812792 original size:29 final size:30
Alignment explanation
Indices: 812754--812828 Score: 84
Period size: 31 Copynumber: 2.5 Consensus size: 30
812744 GTGAAAATTG
812754 TAATTTTAGTCTCTATA-TTTT-AATTTAAT
1 TAATTTTAGTCTCTATACTTTTGAA-TTAAT
* * *
812783 TAATTTTAGTCTTTGTACTTTTTGAATTAGT
1 TAATTTTAGTCTCTATAC-TTTTGAATTAAT
812814 TAATTTTAGTC-CTAT
1 TAATTTTAGTCTCTAT
812829 CCAAATAGAA
Statistics
Matches: 38, Mismatches: 5, Indels: 5
0.79 0.10 0.10
Matches are distributed among these distances:
29 15 0.39
30 2 0.05
31 19 0.50
32 2 0.05
ACGTcount: A:0.27, C:0.08, G:0.08, T:0.57
Consensus pattern (30 bp):
TAATTTTAGTCTCTATACTTTTGAATTAAT
Found at i:833762 original size:16 final size:17
Alignment explanation
Indices: 833741--833784 Score: 54
Period size: 17 Copynumber: 2.6 Consensus size: 17
833731 TATTTACTTT
*
833741 AAATTTGGATC-AATTC
1 AAATTTGAATCGAATTC
*
833757 AAATTTGAATCGATTTC
1 AAATTTGAATCGAATTC
*
833774 AAATTTAAATC
1 AAATTTGAATC
833785 TATTCGAGTT
Statistics
Matches: 24, Mismatches: 3, Indels: 1
0.86 0.11 0.04
Matches are distributed among these distances:
16 10 0.42
17 14 0.58
ACGTcount: A:0.41, C:0.11, G:0.09, T:0.39
Consensus pattern (17 bp):
AAATTTGAATCGAATTC
Found at i:833776 original size:17 final size:16
Alignment explanation
Indices: 833741--833789 Score: 53
Period size: 17 Copynumber: 3.0 Consensus size: 16
833731 TATTTACTTT
*
833741 AAATTTGGATCAATTC
1 AAATTTGAATCAATTC
*
833757 AAATTTGAATCGATTTC
1 AAATTTGAATC-AATTC
* *
833774 AAATTTAAATCTATTC
1 AAATTTGAATCAATTC
833790 GAGTTTGTGT
Statistics
Matches: 27, Mismatches: 5, Indels: 2
0.79 0.15 0.06
Matches are distributed among these distances:
16 13 0.48
17 14 0.52
ACGTcount: A:0.39, C:0.12, G:0.08, T:0.41
Consensus pattern (16 bp):
AAATTTGAATCAATTC
Found at i:836930 original size:30 final size:29
Alignment explanation
Indices: 836895--836985 Score: 74
Period size: 30 Copynumber: 3.0 Consensus size: 29
836885 CTAAATTAAC
* * *
836895 AATTTTATAAAATTGAGAGTTAAATTTATT
1 AATTTTATAAAATTAAGA-ATAAATTTATA
* *
836925 AATTTTGTTAGAATTAAGAATAAATTTATA
1 AATTTT-ATAAAATTAAGAATAAATTTATA
* *
836955 AAATTTATAAACATTAAAAAAATAAATTTAT
1 AATTTTATAAA-ATT--AAGAATAAATTTAT
836986 TATTATGTAA
Statistics
Matches: 48, Mismatches: 9, Indels: 6
0.76 0.14 0.10
Matches are distributed among these distances:
29 3 0.06
30 23 0.48
31 9 0.19
32 13 0.27
ACGTcount: A:0.51, C:0.01, G:0.07, T:0.42
Consensus pattern (29 bp):
AATTTTATAAAATTAAGAATAAATTTATA
Found at i:837143 original size:23 final size:22
Alignment explanation
Indices: 837107--837153 Score: 67
Period size: 23 Copynumber: 2.1 Consensus size: 22
837097 ACTTCATGAC
* *
837107 ATTTTTTTTTAAAAATTTAAAT
1 ATTTTTTTTGAAAAATATAAAT
837129 ATTTTTTATTGAAAAATATAAAT
1 ATTTTTT-TTGAAAAATATAAAT
837152 AT
1 AT
837154 AAATATATTT
Statistics
Matches: 22, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
22 7 0.32
23 15 0.68
ACGTcount: A:0.45, C:0.00, G:0.02, T:0.53
Consensus pattern (22 bp):
ATTTTTTTTGAAAAATATAAAT
Found at i:837462 original size:4 final size:4
Alignment explanation
Indices: 837453--837479 Score: 54
Period size: 4 Copynumber: 6.8 Consensus size: 4
837443 AATTTAACCC
837453 TTTA TTTA TTTA TTTA TTTA TTTA TTT
1 TTTA TTTA TTTA TTTA TTTA TTTA TTT
837480 TTGCTTTGCT
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
4 23 1.00
ACGTcount: A:0.22, C:0.00, G:0.00, T:0.78
Consensus pattern (4 bp):
TTTA
Found at i:839875 original size:23 final size:22
Alignment explanation
Indices: 839845--839889 Score: 63
Period size: 23 Copynumber: 2.0 Consensus size: 22
839835 GTATTAATAT
* *
839845 AAATTATATTTTAAACATTTAA
1 AAATTATATTTCAAACAGTTAA
839867 AAATATATATTTCAAACAGTTAA
1 AAAT-TATATTTCAAACAGTTAA
839890 CCAACACATA
Statistics
Matches: 20, Mismatches: 2, Indels: 1
0.87 0.09 0.04
Matches are distributed among these distances:
22 4 0.20
23 16 0.80
ACGTcount: A:0.51, C:0.07, G:0.02, T:0.40
Consensus pattern (22 bp):
AAATTATATTTCAAACAGTTAA
Found at i:847254 original size:17 final size:16
Alignment explanation
Indices: 847219--847253 Score: 61
Period size: 16 Copynumber: 2.2 Consensus size: 16
847209 CAATGTTTAC
847219 TTTGATACTTGATTTT
1 TTTGATACTTGATTTT
*
847235 TTTGGTACTTGATTTT
1 TTTGATACTTGATTTT
847251 TTT
1 TTT
847254 TACTTTTAAT
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
16 18 1.00
ACGTcount: A:0.14, C:0.06, G:0.14, T:0.66
Consensus pattern (16 bp):
TTTGATACTTGATTTT
Found at i:847257 original size:14 final size:15
Alignment explanation
Indices: 847219--847258 Score: 55
Period size: 16 Copynumber: 2.6 Consensus size: 15
847209 CAATGTTTAC
847219 TTTGATACTTGATTTT
1 TTTG-TACTTGATTTT
847235 TTTGGTACTTGATTTT
1 TTT-GTACTTGATTTT
847251 TTT-TACTT
1 TTTGTACTT
847259 TTAATGTTTA
Statistics
Matches: 23, Mismatches: 0, Indels: 4
0.85 0.00 0.15
Matches are distributed among these distances:
14 5 0.22
16 17 0.74
17 1 0.04
ACGTcount: A:0.15, C:0.07, G:0.12, T:0.65
Consensus pattern (15 bp):
TTTGTACTTGATTTT
Found at i:849038 original size:23 final size:24
Alignment explanation
Indices: 849006--849053 Score: 64
Period size: 23 Copynumber: 2.0 Consensus size: 24
848996 CATACCATTT
*
849006 TCAACCATCTTCCTA-AGGATCCTC
1 TCAACCATCTT-CTACACGATCCTC
849030 TCAA-CATCTTCTACACGATCCTC
1 TCAACCATCTTCTACACGATCCTC
849053 T
1 T
849054 TTAGCATAGG
Statistics
Matches: 22, Mismatches: 1, Indels: 3
0.85 0.04 0.12
Matches are distributed among these distances:
22 3 0.14
23 15 0.68
24 4 0.18
ACGTcount: A:0.25, C:0.38, G:0.06, T:0.31
Consensus pattern (24 bp):
TCAACCATCTTCTACACGATCCTC
Found at i:853326 original size:14 final size:14
Alignment explanation
Indices: 853307--853333 Score: 54
Period size: 14 Copynumber: 1.9 Consensus size: 14
853297 TTTCTTATGG
853307 AAAAACTCAAATCT
1 AAAAACTCAAATCT
853321 AAAAACTCAAATC
1 AAAAACTCAAATC
853334 AAGGTTTTCA
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:0.59, C:0.22, G:0.00, T:0.19
Consensus pattern (14 bp):
AAAAACTCAAATCT
Found at i:854710 original size:17 final size:18
Alignment explanation
Indices: 854688--854724 Score: 58
Period size: 17 Copynumber: 2.1 Consensus size: 18
854678 TTTACATTTG
*
854688 ATTTTTTTAA-TTTTAAT
1 ATTTTTTGAATTTTTAAT
854705 ATTTTTTGAATTTTTAAT
1 ATTTTTTGAATTTTTAAT
854723 AT
1 AT
854725 ATTAATTTTT
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
17 9 0.50
18 9 0.50
ACGTcount: A:0.30, C:0.00, G:0.03, T:0.68
Consensus pattern (18 bp):
ATTTTTTGAATTTTTAAT
Found at i:858005 original size:2 final size:2
Alignment explanation
Indices: 857998--858034 Score: 74
Period size: 2 Copynumber: 18.5 Consensus size: 2
857988 TAACTCTTTA
857998 AT 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 AT A
858035 ATTTCAATAA
Statistics
Matches: 35, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 35 1.00
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (2 bp):
AT
Found at i:868114 original size:37 final size:38
Alignment explanation
Indices: 868064--868136 Score: 130
Period size: 37 Copynumber: 1.9 Consensus size: 38
868054 TTTTAACCTT
868064 AAAAAAACTTTTTAAAACACCCAAAAATTTAAAGCAAA
1 AAAAAAACTTTTTAAAACACCCAAAAATTTAAAGCAAA
*
868102 AAAAAAAC-TTTTAGAACACCCAAAAATTTAAAGCA
1 AAAAAAACTTTTTAAAACACCCAAAAATTTAAAGCA
868137 TCACCCTCCT
Statistics
Matches: 34, Mismatches: 1, Indels: 1
0.94 0.03 0.03
Matches are distributed among these distances:
37 26 0.76
38 8 0.24
ACGTcount: A:0.59, C:0.16, G:0.04, T:0.21
Consensus pattern (38 bp):
AAAAAAACTTTTTAAAACACCCAAAAATTTAAAGCAAA
Found at i:871322 original size:2 final size:2
Alignment explanation
Indices: 871315--871355 Score: 82
Period size: 2 Copynumber: 20.5 Consensus size: 2
871305 AGTAAATCCC
871315 AT AT AT 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 AT AT AT A
871356 GTCATAAAGA
Statistics
Matches: 39, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 39 1.00
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (2 bp):
AT
Found at i:875483 original size:15 final size:16
Alignment explanation
Indices: 875465--875494 Score: 53
Period size: 16 Copynumber: 1.9 Consensus size: 16
875455 AATTTTTTTA
875465 ATAT-AAATTTAACAT
1 ATATAAAATTTAACAT
875480 ATATAAAATTTAACA
1 ATATAAAATTTAACA
875495 GTAAAAATTC
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
15 4 0.29
16 10 0.71
ACGTcount: A:0.57, C:0.07, G:0.00, T:0.37
Consensus pattern (16 bp):
ATATAAAATTTAACAT
Found at i:885142 original size:6 final size:6
Alignment explanation
Indices: 885131--885155 Score: 50
Period size: 6 Copynumber: 4.2 Consensus size: 6
885121 TAAAATTTAA
885131 TAATTT TAATTT TAATTT TAATTT T
1 TAATTT TAATTT TAATTT TAATTT T
885156 TATGATATGC
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:0.32, C:0.00, G:0.00, T:0.68
Consensus pattern (6 bp):
TAATTT
Found at i:885776 original size:26 final size:26
Alignment explanation
Indices: 885740--885798 Score: 82
Period size: 26 Copynumber: 2.2 Consensus size: 26
885730 TTTTAATTTC
*
885740 AAAATATCATACTAAAAAATTTAAGAT
1 AAAAT-TCATACTAAAAAATATAAGAT
* *
885767 GAAATTCATACTAACAAATATAAGAT
1 AAAATTCATACTAAAAAATATAAGAT
885793 AAAATT
1 AAAATT
885799 TTTAATAATG
Statistics
Matches: 28, Mismatches: 4, Indels: 1
0.85 0.12 0.03
Matches are distributed among these distances:
26 24 0.86
27 4 0.14
ACGTcount: A:0.58, C:0.08, G:0.05, T:0.29
Consensus pattern (26 bp):
AAAATTCATACTAAAAAATATAAGAT
Found at i:886128 original size:18 final size:18
Alignment explanation
Indices: 886097--886141 Score: 54
Period size: 18 Copynumber: 2.4 Consensus size: 18
886087 TAAAAAATTC
*
886097 AGAAAAATATATATAATCT
1 AGAAAAA-AAATATAATCT
*
886116 AGAAAAAAAATATAATTT
1 AGAAAAAAAATATAATCT
*
886134 ATAAAAAA
1 AGAAAAAA
886142 TATAAAAATA
Statistics
Matches: 23, Mismatches: 3, Indels: 1
0.85 0.11 0.04
Matches are distributed among these distances:
18 16 0.70
19 7 0.30
ACGTcount: A:0.67, C:0.02, G:0.04, T:0.27
Consensus pattern (18 bp):
AGAAAAAAAATATAATCT
Found at i:886343 original size:20 final size:19
Alignment explanation
Indices: 886318--886373 Score: 51
Period size: 19 Copynumber: 2.8 Consensus size: 19
886308 TGGAATTTAA
886318 ATTTTTTAAATTTTTATAAC
1 ATTTTTTAAATTTTTAT-AC
* *
886338 A-TTTTTCAATTTTTGATAT
1 ATTTTTTAAATTTTT-ATAC
*
886357 ATTATTTTGAATTTTTA
1 ATT-TTTTAAATTTTTA
886374 AAATTTATAA
Statistics
Matches: 30, Mismatches: 3, Indels: 6
0.77 0.08 0.15
Matches are distributed among these distances:
19 14 0.47
20 5 0.17
21 11 0.37
ACGTcount: A:0.30, C:0.04, G:0.04, T:0.62
Consensus pattern (19 bp):
ATTTTTTAAATTTTTATAC
Found at i:886413 original size:22 final size:24
Alignment explanation
Indices: 886369--886426 Score: 75
Period size: 23 Copynumber: 2.5 Consensus size: 24
886359 TATTTTGAAT
886369 TTTTAAAATTTATAATATGAT-AA
1 TTTTAAAATTTATAATATGATAAA
* *
886392 TTTTAATATTT-TAATATTATAAA
1 TTTTAAAATTTATAATATGATAAA
*
886415 TTTTTAAATTTA
1 TTTTAAAATTTA
886427 AATTTAATAT
Statistics
Matches: 29, Mismatches: 4, Indels: 3
0.81 0.11 0.08
Matches are distributed among these distances:
22 8 0.28
23 21 0.72
ACGTcount: A:0.43, C:0.00, G:0.02, T:0.55
Consensus pattern (24 bp):
TTTTAAAATTTATAATATGATAAA
Found at i:901047 original size:17 final size:15
Alignment explanation
Indices: 901024--901066 Score: 50
Period size: 17 Copynumber: 2.7 Consensus size: 15
901014 AAAGTTTTAA
901024 TAAATTAAAAAATAT
1 TAAATTAAAAAATAT
**
901039 ATAAAATTATTAAATAT
1 -T-AAATTAAAAAATAT
901056 TAAATTAAAAA
1 TAAATTAAAAA
901067 TAATATAGTA
Statistics
Matches: 22, Mismatches: 4, Indels: 3
0.76 0.14 0.10
Matches are distributed among these distances:
15 8 0.36
16 2 0.09
17 12 0.55
ACGTcount: A:0.65, C:0.00, G:0.00, T:0.35
Consensus pattern (15 bp):
TAAATTAAAAAATAT
Found at i:901057 original size:27 final size:27
Alignment explanation
Indices: 901008--901059 Score: 70
Period size: 27 Copynumber: 1.9 Consensus size: 27
900998 TGAGGTGTCT
*
901008 ATATATAAAGTTTTAATAAATTAAAAA
1 ATATATAAAATTTTAATAAATTAAAAA
*
901035 ATATATAAAATTATTAA-ATATTAAA
1 ATATATAAAATT-TTAATAAATTAAA
901060 TTAAAAATAA
Statistics
Matches: 22, Mismatches: 2, Indels: 2
0.85 0.08 0.08
Matches are distributed among these distances:
27 18 0.82
28 4 0.18
ACGTcount: A:0.60, C:0.00, G:0.02, T:0.38
Consensus pattern (27 bp):
ATATATAAAATTTTAATAAATTAAAAA
Found at i:902297 original size:22 final size:22
Alignment explanation
Indices: 902266--902321 Score: 62
Period size: 22 Copynumber: 2.6 Consensus size: 22
902256 ATAAAATGGT
902266 TTTCT-TATAAAAACTCAAGTA
1 TTTCTCTATAAAAACTCAAGTA
* *
902287 TTTCTCTATAAAAGCTCATGTA
1 TTTCTCTATAAAAACTCAAGTA
*
902309 ATTC-CGTATAAAA
1 TTTCTC-TATAAAA
902322 TCCCAAGCTT
Statistics
Matches: 30, Mismatches: 3, Indels: 3
0.83 0.08 0.08
Matches are distributed among these distances:
21 6 0.20
22 24 0.80
ACGTcount: A:0.39, C:0.16, G:0.07, T:0.38
Consensus pattern (22 bp):
TTTCTCTATAAAAACTCAAGTA
Found at i:902678 original size:4 final size:4
Alignment explanation
Indices: 902669--902695 Score: 54
Period size: 4 Copynumber: 6.8 Consensus size: 4
902659 TTGAAAAGTT
902669 TTTA TTTA TTTA TTTA TTTA TTTA TTT
1 TTTA TTTA TTTA TTTA TTTA TTTA TTT
902696 TTCTGGCTTT
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
4 23 1.00
ACGTcount: A:0.22, C:0.00, G:0.00, T:0.78
Consensus pattern (4 bp):
TTTA
Found at i:904719 original size:2 final size:2
Alignment explanation
Indices: 904712--904740 Score: 58
Period size: 2 Copynumber: 14.5 Consensus size: 2
904702 TTTAAAATAC
904712 TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
904741 GTCAATGTTT
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:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (2 bp):
TA
Found at i:918459 original size:207 final size:205
Alignment explanation
Indices: 918042--918531 Score: 539
Period size: 207 Copynumber: 2.4 Consensus size: 205
918032 TGCTCAGATT
* * *
918042 CTTCATTCTTTTTGAAGTA-CCCGTCTGACATTAGTGTTTGATACATGGATATGGAGACACGATC
1 CTTCATTCTTTTTGAAGTACCCCGTC-GACATTAGTGTTTGATACACGGATATGGAGACATGACC
* * * *
918106 TTCAAAGATCCCTTAATATATGGAAAAACTTGACAAAGTCTAATCATACCCATGTCGGGGATATT
65 TCCAAAGATCCCTTAATATATGG----ACTTGAAAAAATCTAATCATACCCATGTCGGGGATACT
* * * *
918171 CACACCTGAGTCGAGTAACATATGAACAATGCCGATGCAACGAAGAACTAAAATGAAAAACCATC
126 CAAACCCGAGTCGAGTAACACATGAACAATGCCGATGCAACCAAGAACTAAAATGAAAAACCATC
918236 TACCCCAATTGTTGG
191 TACCCCAATTGTTGG
*
918251 CTTCATTCTTCTTGAAGTACCCCTGTCCGACATTAGTGTTTGATACACGGATATGGAGACATGAC
1 CTTCATTCTTTTTGAAGTACCCC-GT-CGACATTAGTGTTTGATACACGGATATGGAGACATGAC
* * * * *
918316 CCCCAAAGATCCCTTAATATATGG-TTTTAAAAACATCTAATCATACTCGTGTCGGGGACT-CTC
64 CTCCAAAGATCCCTTAATATATGGACTTGAAAAA-ATCTAATCATACCCATGTCGGGGA-TACTC
* * * * *
918379 AAACCCGAGTCTACGTAA-ACCATG-ACAATGCCGGTGTAACCAAGAACTTACAA-GAAAAACTA
127 AAACCCGAGTCGA-GTAACA-CATGAACAATGCCGATGCAACCAAGAAC-TAAAATGAAAAACCA
*
918441 TCTGCTCCC-ATTGTTGG
189 TCTAC-CCCAATTGTTGG
* * ** * *
918458 CTTCATTCTTTTTGAAGCACCAC-T-GACATTAGTGTCCGATACACGAATATCGAGACATGACCT
1 CTTCATTCTTTTTGAAGTACCCCGTCGACATTAGTGTTTGATACACGGATATGGAGACATGACCT
918521 CCAAAGATCCC
66 CCAAAGATCCC
918532 CAATGTTGAG
Statistics
Matches: 241, Mismatches: 31, Indels: 24
0.81 0.10 0.08
Matches are distributed among these distances:
203 45 0.19
205 1 0.00
206 6 0.02
207 94 0.39
208 15 0.06
209 18 0.07
210 3 0.01
211 58 0.24
212 1 0.00
ACGTcount: A:0.32, C:0.23, G:0.17, T:0.27
Consensus pattern (205 bp):
CTTCATTCTTTTTGAAGTACCCCGTCGACATTAGTGTTTGATACACGGATATGGAGACATGACCT
CCAAAGATCCCTTAATATATGGACTTGAAAAAATCTAATCATACCCATGTCGGGGATACTCAAAC
CCGAGTCGAGTAACACATGAACAATGCCGATGCAACCAAGAACTAAAATGAAAAACCATCTACCC
CAATTGTTGG
Found at i:919667 original size:29 final size:29
Alignment explanation
Indices: 919635--919691 Score: 114
Period size: 29 Copynumber: 2.0 Consensus size: 29
919625 TTGGATGAGA
919635 AAAAAATAAAAAAAATTAGTTGAATGACC
1 AAAAAATAAAAAAAATTAGTTGAATGACC
919664 AAAAAATAAAAAAAATTAGTTGAATGAC
1 AAAAAATAAAAAAAATTAGTTGAATGAC
919692 TACTAATGTA
Statistics
Matches: 28, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
29 28 1.00
ACGTcount: A:0.63, C:0.05, G:0.11, T:0.21
Consensus pattern (29 bp):
AAAAAATAAAAAAAATTAGTTGAATGACC
Found at i:924548 original size:186 final size:180
Alignment explanation
Indices: 924164--924657 Score: 564
Period size: 186 Copynumber: 2.8 Consensus size: 180
924154 TAAAACTACA
* *
924164 GTAAACAAT-AAATACCAGGAAAAAGCTTCTGCATTC--A-T-----AAAAAATCTCTACAACTA
1 GTAAACCATAAAATACCAGGAAAAAGCTTCTGCATTCATATTAAAAAAAAAAATCTATACAACTA
* * * *
924220 GGCTTTGAAAATTCAGTAAAAGTCATTCAACATGTAAATATGATAAAAAAACAAAAAAAAGGGTA
66 GGCTGTAAAAATTCAGTAAAAGTCATTCAACATGCAAAAATGATAAAAAAACAAAAAAAAGGGTA
* *
924285 TTCTAAGAATTAAGCTTTATTTTTTACGAAAATACATAGAATTAAGCTGG
131 TTCTAAGAATTAAGCTTTAATTTTTACGAAAATACAGAGAATTAAGCTGG
*
924335 GTAAACCATAAAATACCAGGAAAAAGCTTCTGCATTCATATTAAAAAAAAAAGATCTATAGAACT
1 GTAAACCATAAAATACCAGGAAAAAGCTTCTGCATTCATATTAAAAAAAAAA-ATCTATACAAC-
*
924400 TAGGCTGTAAAAATTCAGTAAAAAGTCATTCGACATGCAAAAATGATAAAACAAACTACAAAAAA
64 TAGGCTGTAAAAATTCAGT-AAAAGTCATTCAACATGCAAAAATGATAAAA-AAAC-A-AAAAAA
*
924465 AGGGTATTC-ACAGAATTAAGCTTTAATTTTTATGAAAATACAGAGAATTAAGCTTGG
125 AGGGTATTCTA-AGAATTAAGCTTTAATTTTTACGAAAATACAGAGAATTAAGC-TGG
* * *
924522 GTAAACCATAAAATACCAGG-AAAAGCTTCTGCATTC--A-T----GAAAAAATCTCTAGAACTA
1 GTAAACCATAAAATACCAGGAAAAAGCTTCTGCATTCATATTAAAAAAAAAAATCTATACAACTA
* * * * * *
924579 GGCTGTAAAAGATTCAGGAAAAATCATCCAACATGTAAATATGATCAAAAAAC---AAAAAGGGT
66 GGCTGTAAAA-ATTCAGTAAAAGTCATTCAACATGCAAAAATGATAAAAAAACAAAAAAAAGGGT
924641 ATT-TAAAGAATTAAGCT
130 ATTCT-AAGAATTAAGCT
924658 CGGGTAAACC
Statistics
Matches: 283, Mismatches: 20, Indels: 40
0.83 0.06 0.12
Matches are distributed among these distances:
171 31 0.11
172 28 0.10
174 1 0.00
175 1 0.00
176 4 0.01
177 37 0.13
178 16 0.06
179 5 0.02
180 5 0.02
181 9 0.03
182 17 0.06
183 29 0.10
184 5 0.02
185 2 0.01
186 70 0.25
187 23 0.08
ACGTcount: A:0.48, C:0.13, G:0.14, T:0.25
Consensus pattern (180 bp):
GTAAACCATAAAATACCAGGAAAAAGCTTCTGCATTCATATTAAAAAAAAAAATCTATACAACTA
GGCTGTAAAAATTCAGTAAAAGTCATTCAACATGCAAAAATGATAAAAAAACAAAAAAAAGGGTA
TTCTAAGAATTAAGCTTTAATTTTTACGAAAATACAGAGAATTAAGCTGG
Found at i:924675 original size:139 final size:140
Alignment explanation
Indices: 924508--924781 Score: 421
Period size: 140 Copynumber: 2.0 Consensus size: 140
924498 GAAAATACAG
* *
924508 AGAATTAAGCTTGGGTAAACCATAAAATACCAGGAAAAGCTTCTGCATTCATGAAAAA-ATCTCT
1 AGAATTAAGCTCGGGTAAACCATAAAATACCAGGAAAAGCTTCTGCATTCATAAAAAAGATCTCT
* *
924572 AGAACTAGGCTGTAAA-AGATTCAGGAAAAATCA-TCCAACATGTAAATATGATCAAA-AAACAA
66 AGAACTAGGCTGTAAATA-ATTCAAGAAAAACCACT-CAACATGTAAATATGAT-AAAGAAACAA
924634 AAAGGGTATTTAA
128 AAAGGGTATTTAA
*
924647 AGAATTAAGCTCGGGTAAACCATGAAATACCAGGAAAAGCTTCTGCATTCATAAAAAAGATCTCT
1 AGAATTAAGCTCGGGTAAACCATAAAATACCAGGAAAAGCTTCTGCATTCATAAAAAAGATCTCT
* * *
924712 AGAATTAGGCTGTAAATAATTCAATAAAAACCACTCAACATGTAAATATGATAAAGAAATAAAAA
66 AGAACTAGGCTGTAAATAATTCAAGAAAAACCACTCAACATGTAAATATGATAAAGAAACAAAAA
924777 GGGTA
131 GGGTA
924782 GAGTGAAGAT
Statistics
Matches: 123, Mismatches: 8, Indels: 7
0.89 0.06 0.05
Matches are distributed among these distances:
139 58 0.47
140 63 0.51
141 2 0.02
ACGTcount: A:0.47, C:0.14, G:0.16, T:0.23
Consensus pattern (140 bp):
AGAATTAAGCTCGGGTAAACCATAAAATACCAGGAAAAGCTTCTGCATTCATAAAAAAGATCTCT
AGAACTAGGCTGTAAATAATTCAAGAAAAACCACTCAACATGTAAATATGATAAAGAAACAAAAA
GGGTATTTAA
Found at i:928960 original size:15 final size:16
Alignment explanation
Indices: 928932--928972 Score: 52
Period size: 17 Copynumber: 2.7 Consensus size: 16
928922 TATTAATATA
928932 TAATTTTT--TTATTT
1 TAATTTTTAATTATTT
928946 T-ATTTTTAATTATTT
1 TAATTTTTAATTATTT
928961 TAAATTTTTAAT
1 T-AATTTTTAAT
928973 ATAACTATTT
Statistics
Matches: 23, Mismatches: 0, Indels: 5
0.82 0.00 0.18
Matches are distributed among these distances:
13 6 0.26
14 1 0.04
15 7 0.30
17 9 0.39
ACGTcount: A:0.29, C:0.00, G:0.00, T:0.71
Consensus pattern (16 bp):
TAATTTTTAATTATTT
Found at i:929052 original size:12 final size:12
Alignment explanation
Indices: 929007--929065 Score: 61
Period size: 12 Copynumber: 5.2 Consensus size: 12
928997 AATTTGTGTA
* *
929007 TTATTTTAAGAA
1 TTATTTTAATAT
* *
929019 TTGTTTTAGTA-
1 TTATTTTAATAT
929030 TTATTTT--TAT
1 TTATTTTAATAT
929040 TTATTTTAATAT
1 TTATTTTAATAT
929052 TTATTTTAATAT
1 TTATTTTAATAT
929064 TT
1 TT
929066 TTAAATATAT
Statistics
Matches: 40, Mismatches: 4, Indels: 6
0.80 0.08 0.12
Matches are distributed among these distances:
9 2 0.05
10 7 0.17
11 6 0.15
12 25 0.62
ACGTcount: A:0.29, C:0.00, G:0.05, T:0.66
Consensus pattern (12 bp):
TTATTTTAATAT
Found at i:929052 original size:21 final size:20
Alignment explanation
Indices: 929029--929108 Score: 56
Period size: 21 Copynumber: 3.7 Consensus size: 20
929019 TTGTTTTAGT
929029 ATTATTTTTATTTATTTTAA
1 ATTATTTTTATTTATTTTAA
* *
929049 TATTTATTTTAATAT-TTTTAA
1 -A-TTATTTTTATTTATTTTAA
929070 ATATATTTGATTTATTATATTTTTAA
1 AT-TA-TT--TTTATT-TA-TTTTAA
929096 ATT-TTTTTATTTA
1 ATTATTTTTATTTA
929109 ATGAAATAAG
Statistics
Matches: 47, Mismatches: 4, Indels: 17
0.69 0.06 0.25
Matches are distributed among these distances:
19 1 0.02
20 5 0.11
21 15 0.32
22 10 0.21
23 6 0.13
24 1 0.02
25 1 0.02
26 8 0.17
ACGTcount: A:0.31, C:0.00, G:0.01, T:0.68
Consensus pattern (20 bp):
ATTATTTTTATTTATTTTAA
Found at i:929075 original size:24 final size:25
Alignment explanation
Indices: 929048--929108 Score: 79
Period size: 26 Copynumber: 2.4 Consensus size: 25
929038 ATTTATTTTA
929048 ATATTTATTT-TAATATTTTTAAAT
1 ATATTTATTTATAATATTTTTAAAT
*
929072 ATATTTGATTTATTATATTTTTAAAT
1 ATATTT-ATTTATAATATTTTTAAAT
* *
929098 TTTTTTATTTA
1 ATATTTATTTA
929109 ATGAAATAAG
Statistics
Matches: 32, Mismatches: 3, Indels: 3
0.84 0.08 0.08
Matches are distributed among these distances:
24 6 0.19
25 9 0.28
26 17 0.53
ACGTcount: A:0.33, C:0.00, G:0.02, T:0.66
Consensus pattern (25 bp):
ATATTTATTTATAATATTTTTAAAT
Found at i:942301 original size:48 final size:47
Alignment explanation
Indices: 942248--942343 Score: 147
Period size: 48 Copynumber: 2.0 Consensus size: 47
942238 CACACTGAGC
942248 TTTAATTAATTTTTACTCATTTCAAAGATAATTTTTTTATTTCGGAGA
1 TTTAATTAATTTTTACTCATTTCAAAGATAA-TTTTTTATTTCGGAGA
** * *
942296 TTTAATTAATTTTTACTCATTTTTAAGGTAATTTTTTATTTTGGAGA
1 TTTAATTAATTTTTACTCATTTCAAAGATAATTTTTTATTTCGGAGA
942343 T
1 T
942344 GTCCATAAAC
Statistics
Matches: 44, Mismatches: 4, Indels: 1
0.90 0.08 0.02
Matches are distributed among these distances:
47 16 0.36
48 28 0.64
ACGTcount: A:0.29, C:0.06, G:0.09, T:0.55
Consensus pattern (47 bp):
TTTAATTAATTTTTACTCATTTCAAAGATAATTTTTTATTTCGGAGA
Found at i:943656 original size:2 final size:2
Alignment explanation
Indices: 943649--943674 Score: 52
Period size: 2 Copynumber: 13.0 Consensus size: 2
943639 GTTATTAGAT
943649 AG AG 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
943675 GCAGGGAGGA
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:0.50, T:0.00
Consensus pattern (2 bp):
AG
Found at i:945469 original size:20 final size:20
Alignment explanation
Indices: 945446--945485 Score: 80
Period size: 20 Copynumber: 2.0 Consensus size: 20
945436 ATAGTATGTC
945446 GTAAACTCCATTAGTCTCCG
1 GTAAACTCCATTAGTCTCCG
945466 GTAAACTCCATTAGTCTCCG
1 GTAAACTCCATTAGTCTCCG
945486 ATATTTCGAG
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
20 20 1.00
ACGTcount: A:0.25, C:0.30, G:0.15, T:0.30
Consensus pattern (20 bp):
GTAAACTCCATTAGTCTCCG
Found at i:946247 original size:33 final size:32
Alignment explanation
Indices: 946186--946253 Score: 86
Period size: 33 Copynumber: 2.1 Consensus size: 32
946176 TTGAGGAAGG
*
946186 AAAATACTCTCTAAAAAAAAATCATAAAATTT
1 AAAATACTCTCTAAAAAAAAATCATAAAATGT
946218 AAAA-ACTCATCTGAAAAACAAAATC-TAAAATGT
1 AAAATACTC-TCT-AAAAA-AAAATCATAAAATGT
946251 AAA
1 AAA
946254 TAAATCAATT
Statistics
Matches: 32, Mismatches: 1, Indels: 5
0.84 0.03 0.13
Matches are distributed among these distances:
31 4 0.12
32 7 0.22
33 15 0.47
34 6 0.19
ACGTcount: A:0.60, C:0.13, G:0.03, T:0.24
Consensus pattern (32 bp):
AAAATACTCTCTAAAAAAAAATCATAAAATGT
Found at i:947720 original size:12 final size:13
Alignment explanation
Indices: 947703--947731 Score: 51
Period size: 13 Copynumber: 2.3 Consensus size: 13
947693 CGAATTAGGG
947703 TTTTA-TTGGGCT
1 TTTTATTTGGGCT
947715 TTTTATTTGGGCT
1 TTTTATTTGGGCT
947728 TTTT
1 TTTT
947732 TAACGTAATA
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
12 5 0.31
13 11 0.69
ACGTcount: A:0.07, C:0.07, G:0.21, T:0.66
Consensus pattern (13 bp):
TTTTATTTGGGCT
Found at i:955552 original size:13 final size:14
Alignment explanation
Indices: 955524--955567 Score: 54
Period size: 13 Copynumber: 3.1 Consensus size: 14
955514 ATATTCTAAA
955524 TAAATCTAATTTTT
1 TAAATCTAATTTTT
*
955538 TAAATTTAA-TTTT
1 TAAATCTAATTTTT
*
955551 TAAACCTAATATTTT
1 TAAATCTAAT-TTTT
955566 TA
1 TA
955568 TCAAAAAATT
Statistics
Matches: 25, Mismatches: 3, Indels: 3
0.81 0.10 0.10
Matches are distributed among these distances:
13 11 0.44
14 8 0.32
15 6 0.24
ACGTcount: A:0.39, C:0.07, G:0.00, T:0.55
Consensus pattern (14 bp):
TAAATCTAATTTTT
Found at i:956875 original size:16 final size:15
Alignment explanation
Indices: 956852--956899 Score: 51
Period size: 15 Copynumber: 3.0 Consensus size: 15
956842 AAGAGAATGG
956852 AAAAAAAAGAAAAAA
1 AAAAAAAAGAAAAAA
956867 AAAAGAAAAGTTAAAAAA
1 AAAA-AAAAG--AAAAAA
* *
956885 ACATAAAAGAAAAAA
1 AAAAAAAAGAAAAAA
956900 TTAAATTACG
Statistics
Matches: 28, Mismatches: 2, Indels: 6
0.78 0.06 0.17
Matches are distributed among these distances:
15 10 0.36
16 5 0.18
17 5 0.18
18 8 0.29
ACGTcount: A:0.83, C:0.02, G:0.08, T:0.06
Consensus pattern (15 bp):
AAAAAAAAGAAAAAA
Found at i:959531 original size:20 final size:20
Alignment explanation
Indices: 959508--959555 Score: 64
Period size: 20 Copynumber: 2.5 Consensus size: 20
959498 TTGCTATTTG
959508 AAAATTTTTATTAAG-CTCC
1 AAAATTTTTATTAAGCCTCC
*
959527 TAAAATTTTAATTAAGCCTCC
1 -AAAATTTTTATTAAGCCTCC
959548 -AAATTTTT
1 AAAATTTTT
959556 TTGGAAATTT
Statistics
Matches: 25, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
19 7 0.28
20 14 0.56
21 4 0.16
ACGTcount: A:0.38, C:0.15, G:0.04, T:0.44
Consensus pattern (20 bp):
AAAATTTTTATTAAGCCTCC
Found at i:959594 original size:30 final size:30
Alignment explanation
Indices: 959528--959601 Score: 96
Period size: 31 Copynumber: 2.4 Consensus size: 30
959518 TTAAGCTCCT
959528 AAAATTTTAATTAAGCCTCCAAATTTTTTTG
1 AAAATTTTAATTAAGCCTCCAAA-TTTTTTG
* * *
959559 GAAATTTTCATTAAGCCTCTAGAA-TTTTTG
1 AAAATTTTAATTAAGCCTCCA-AATTTTTTG
959589 AAAATTTTAATTA
1 AAAATTTTAATTA
959602 CCCCCTCCTC
Statistics
Matches: 37, Mismatches: 5, Indels: 3
0.82 0.11 0.07
Matches are distributed among these distances:
30 17 0.46
31 18 0.49
32 2 0.05
ACGTcount: A:0.36, C:0.11, G:0.08, T:0.45
Consensus pattern (30 bp):
AAAATTTTAATTAAGCCTCCAAATTTTTTG
Found at i:966063 original size:24 final size:25
Alignment explanation
Indices: 966018--966070 Score: 65
Period size: 24 Copynumber: 2.2 Consensus size: 25
966008 GTTTAAATTT
* *
966018 TATAATAATTAATTTAGATTAAAAC
1 TATAATAAATAATTTAGATTAAAAA
966043 TATAA-AAATAATTTA-ATTTAAAAA
1 TATAATAAATAATTTAGA-TTAAAAA
966067 TATA
1 TATA
966071 TTAATCAGTA
Statistics
Matches: 25, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
23 1 0.04
24 19 0.76
25 5 0.20
ACGTcount: A:0.57, C:0.02, G:0.02, T:0.40
Consensus pattern (25 bp):
TATAATAAATAATTTAGATTAAAAA
Found at i:966202 original size:3 final size:3
Alignment explanation
Indices: 966194--966228 Score: 70
Period size: 3 Copynumber: 11.7 Consensus size: 3
966184 AAGTCAACAT
966194 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA AT
1 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA AT
966229 TTAACCTCTA
Statistics
Matches: 32, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 32 1.00
ACGTcount: A:0.66, C:0.00, G:0.00, T:0.34
Consensus pattern (3 bp):
ATA
Found at i:967320 original size:14 final size:15
Alignment explanation
Indices: 967282--967323 Score: 50
Period size: 15 Copynumber: 2.9 Consensus size: 15
967272 AAAAAGTATA
*
967282 CTTATAAATTTTTAT
1 CTTATATATTTTTAT
* *
967297 CATATCTATTTTTAT
1 CTTATATATTTTTAT
967312 -TTATATATTTTT
1 CTTATATATTTTT
967324 TTATTTTCTG
Statistics
Matches: 22, Mismatches: 5, Indels: 1
0.79 0.18 0.04
Matches are distributed among these distances:
14 10 0.45
15 12 0.55
ACGTcount: A:0.29, C:0.07, G:0.00, T:0.64
Consensus pattern (15 bp):
CTTATATATTTTTAT
Found at i:968080 original size:60 final size:60
Alignment explanation
Indices: 967981--968096 Score: 187
Period size: 60 Copynumber: 1.9 Consensus size: 60
967971 ACACATGTTA
* * * *
967981 ATACGATATGGGTTCGCCTTTATGATGGTGCGAACCTACATCGTGTGGTCTCATAGAAGT
1 ATACGATATGGGTTCACCTATATGATGGTACGAACCTACATCATGTGGTCTCATAGAAGT
*
968041 ATACGATATGGGTTCACCTATATGATGGTACGAAGCTACATCATGTGGTCTCATAG
1 ATACGATATGGGTTCACCTATATGATGGTACGAACCTACATCATGTGGTCTCATAG
968097 GAGCATATGC
Statistics
Matches: 51, Mismatches: 5, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
60 51 1.00
ACGTcount: A:0.26, C:0.18, G:0.25, T:0.31
Consensus pattern (60 bp):
ATACGATATGGGTTCACCTATATGATGGTACGAACCTACATCATGTGGTCTCATAGAAGT
Found at i:969779 original size:13 final size:14
Alignment explanation
Indices: 969761--969789 Score: 51
Period size: 13 Copynumber: 2.1 Consensus size: 14
969751 TGAATTGTAC
969761 GAACTTATG-TGAT
1 GAACTTATGATGAT
969774 GAACTTATGATGAT
1 GAACTTATGATGAT
969788 GA
1 GA
969790 TGATGATGGT
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:0.34, C:0.07, G:0.24, T:0.34
Consensus pattern (14 bp):
GAACTTATGATGAT
Found at i:970383 original size:21 final size:22
Alignment explanation
Indices: 970357--970415 Score: 61
Period size: 21 Copynumber: 2.8 Consensus size: 22
970347 GTTTTAAGAA
*
970357 TTGTTTTAGTA-TTATTTTTAT
1 TTGTTTTAATATTTATTTTTAT
*
970378 TTGTTTTAATATTTGTTTTTAT
1 TTGTTTTAATATTTATTTTTAT
* *
970400 GT-TTTTAA-ATATATTT
1 TTGTTTTAATATTTATTT
970416 GATTTATTAA
Statistics
Matches: 32, Mismatches: 5, Indels: 3
0.80 0.12 0.08
Matches are distributed among these distances:
20 6 0.19
21 16 0.50
22 10 0.31
ACGTcount: A:0.22, C:0.00, G:0.08, T:0.69
Consensus pattern (22 bp):
TTGTTTTAATATTTATTTTTAT
Found at i:970449 original size:9 final size:8
Alignment explanation
Indices: 970417--970447 Score: 53
Period size: 8 Copynumber: 3.8 Consensus size: 8
970407 AATATATTTG
970417 ATTTATTAA
1 ATTT-TTAA
970426 ATTTTTAA
1 ATTTTTAA
970434 ATTTTTAA
1 ATTTTTAA
970442 ATTTTT
1 ATTTTT
970448 TATTTAATAA
Statistics
Matches: 22, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
8 18 0.82
9 4 0.18
ACGTcount: A:0.35, C:0.00, G:0.00, T:0.65
Consensus pattern (8 bp):
ATTTTTAA
Found at i:970700 original size:26 final size:26
Alignment explanation
Indices: 970670--970726 Score: 78
Period size: 26 Copynumber: 2.2 Consensus size: 26
970660 ATTTGAGTTC
*
970670 AGTTTTATTGCTTAATTTGGTACTTA
1 AGTTTTATTGCTTAATTTGATACTTA
* **
970696 AGTTTTTTTTTTTAATTTGATACTTA
1 AGTTTTATTGCTTAATTTGATACTTA
970722 AGTTT
1 AGTTT
970727 GACTTTAATG
Statistics
Matches: 27, Mismatches: 4, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
26 27 1.00
ACGTcount: A:0.23, C:0.05, G:0.12, T:0.60
Consensus pattern (26 bp):
AGTTTTATTGCTTAATTTGATACTTA
Found at i:971877 original size:18 final size:18
Alignment explanation
Indices: 971854--971888 Score: 61
Period size: 18 Copynumber: 1.9 Consensus size: 18
971844 TCGATTGACA
971854 TGAATATTATTAAGAATG
1 TGAATATTATTAAGAATG
*
971872 TGAATATTGTTAAGAAT
1 TGAATATTATTAAGAAT
971889 ATGAGTTCGA
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
18 16 1.00
ACGTcount: A:0.43, C:0.00, G:0.17, T:0.40
Consensus pattern (18 bp):
TGAATATTATTAAGAATG
Found at i:972159 original size:20 final size:21
Alignment explanation
Indices: 972123--972165 Score: 61
Period size: 20 Copynumber: 2.1 Consensus size: 21
972113 AGATCCAACA
*
972123 TGAATCATAATTTTAAACATG
1 TGAATCATAATTATAAACATG
*
972144 TGAATCA-AATTATAAATATG
1 TGAATCATAATTATAAACATG
972164 TG
1 TG
972166 TATTTATAGC
Statistics
Matches: 20, Mismatches: 2, Indels: 1
0.87 0.09 0.04
Matches are distributed among these distances:
20 13 0.65
21 7 0.35
ACGTcount: A:0.44, C:0.07, G:0.12, T:0.37
Consensus pattern (21 bp):
TGAATCATAATTATAAACATG
Found at i:973148 original size:20 final size:21
Alignment explanation
Indices: 973100--973154 Score: 67
Period size: 20 Copynumber: 2.6 Consensus size: 21
973090 TAAAAATTAG
*
973100 TTAAAAATATTATAAATTATTT
1 TTAAAAATAAT-TAAATTATTT
*
973122 TTTAAAATAATTAAATT-TTT
1 TTAAAAATAATTAAATTATTT
*
973142 TTAAAAAAAATTA
1 TTAAAAATAATTA
973155 TTTAAAAAAA
Statistics
Matches: 29, Mismatches: 4, Indels: 2
0.83 0.11 0.06
Matches are distributed among these distances:
20 14 0.48
21 6 0.21
22 9 0.31
ACGTcount: A:0.53, C:0.00, G:0.00, T:0.47
Consensus pattern (21 bp):
TTAAAAATAATTAAATTATTT
Found at i:975067 original size:2 final size:2
Alignment explanation
Indices: 975060--975092 Score: 66
Period size: 2 Copynumber: 16.5 Consensus size: 2
975050 AATTGTGGTT
975060 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
975093 GAAACTTTGT
Statistics
Matches: 31, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 31 1.00
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (2 bp):
TA
Found at i:978268 original size:4 final size:4
Alignment explanation
Indices: 978259--978284 Score: 52
Period size: 4 Copynumber: 6.5 Consensus size: 4
978249 ATATTTTTTA
978259 TAAT TAAT TAAT TAAT TAAT TAAT TA
1 TAAT TAAT TAAT TAAT TAAT TAAT TA
978285 TGTGGTTAGA
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
4 22 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (4 bp):
TAAT
Found at i:978679 original size:9 final size:8
Alignment explanation
Indices: 978665--978716 Score: 50
Period size: 9 Copynumber: 6.1 Consensus size: 8
978655 TTGTTAAAAA
978665 AATTATTTT
1 AATT-TTTT
978674 AATTATTTT
1 AATT-TTTT
978683 AATTTTTT
1 AATTTTTT
* * *
978691 TATGTATT
1 AATTTTTT
978699 ATATTTTTT
1 A-ATTTTTT
978708 AATTTTTT
1 AATTTTTT
978716 A
1 A
978717 TTTAAAAACA
Statistics
Matches: 36, Mismatches: 6, Indels: 3
0.80 0.13 0.07
Matches are distributed among these distances:
8 17 0.47
9 19 0.53
ACGTcount: A:0.29, C:0.00, G:0.02, T:0.69
Consensus pattern (8 bp):
AATTTTTT
Found at i:978717 original size:17 final size:17
Alignment explanation
Indices: 978670--978717 Score: 53
Period size: 17 Copynumber: 2.8 Consensus size: 17
978660 AAAAAAATTA
978670 TTTTAATTATTTTA-ATT
1 TTTTAATT-TTTTATATT
* * *
978687 TTTTTATGTATTATATT
1 TTTTAATTTTTTATATT
978704 TTTTAATTTTTTAT
1 TTTTAATTTTTTAT
978718 TTAAAAACAA
Statistics
Matches: 24, Mismatches: 6, Indels: 2
0.75 0.19 0.06
Matches are distributed among these distances:
16 4 0.17
17 20 0.83
ACGTcount: A:0.25, C:0.00, G:0.02, T:0.73
Consensus pattern (17 bp):
TTTTAATTTTTTATATT
Found at i:982645 original size:16 final size:16
Alignment explanation
Indices: 982626--982682 Score: 55
Period size: 16 Copynumber: 3.5 Consensus size: 16
982616 TTATACCTGG
982626 TTTGAGTTATTTTATA
1 TTTGAGTTATTTTATA
* *
982642 TTTG-GATAATTTA-A
1 TTTGAGTTATTTTATA
982656 TTGGCTGAGTTATTTTATA
1 TT---TGAGTTATTTTATA
982675 TTTGAGTT
1 TTTGAGTT
982683 GGCTCACAGA
Statistics
Matches: 32, Mismatches: 4, Indels: 10
0.70 0.09 0.22
Matches are distributed among these distances:
14 3 0.09
15 7 0.22
16 10 0.31
17 2 0.06
18 7 0.22
19 3 0.09
ACGTcount: A:0.25, C:0.02, G:0.18, T:0.56
Consensus pattern (16 bp):
TTTGAGTTATTTTATA
Found at i:985294 original size:21 final size:21
Alignment explanation
Indices: 985254--985301 Score: 55
Period size: 22 Copynumber: 2.3 Consensus size: 21
985244 CTCTCTGAAT
*
985254 AAAAATTAAATAAATCCCCA-
1 AAAAATTAAATAAATACCCAG
985274 AAAAATTAAAAATAAA-ACCCAG
1 AAAAATT--AAATAAATACCCAG
985296 AAAAAT
1 AAAAAT
985302 AGTAGCTTAA
Statistics
Matches: 24, Mismatches: 1, Indels: 4
0.83 0.03 0.14
Matches are distributed among these distances:
20 7 0.29
21 4 0.17
22 13 0.54
ACGTcount: A:0.67, C:0.15, G:0.02, T:0.17
Consensus pattern (21 bp):
AAAAATTAAATAAATACCCAG
Found at i:986233 original size:195 final size:195
Alignment explanation
Indices: 985994--986379 Score: 578
Period size: 195 Copynumber: 2.0 Consensus size: 195
985984 AGGTAATGGA
* * *
985994 AGTGATAAAATCTTGATCTCTTAGTTGGAATTTTACTTAGCACCTATGTTACTCCGATTTGGGTG
1 AGTGATAAAATCGTGATCTCTTAGTTGGAAATTTACTTAGCACCTATATTACTCCGATTTGGGTG
* * * * ***
986059 TAGTTGTCCAATACTGGTAGTGTCTGACATGAGTTTAGAGGTTGTATCTCTGTATTTGTGTGTCT
66 TAGTTGTCCAATACTAGTAGTGTCGGACACGAGTTTAGAGGTTGTATCTCCGTATTACAGTGT-T
986124 -GACATGAGGGTCAGACACAGATACTTCAAGAAAAATGAAGAGTCCGA-CTATCATAGCTTAGCA
130 GGACATGAGGGTCAGACACAGATACTTCAAGAAAAATGAAGAGTCCGAGC-ATCATAGCTTAGCA
986187 GT
194 GT
* * * * *
986189 AGTGATAAAATCGTGTTCTCTTATTTGGAAATTTACTTAGCACCTGTATTTCTCGGATTTGGGTG
1 AGTGATAAAATCGTGATCTCTTAGTTGGAAATTTACTTAGCACCTATATTACTCCGATTTGGGTG
986254 TAGTTGTCCAATACTAGTAGTGTCGGACACGAGTTTAGAGGTTGTATCTCCGTATTACAGTGTTG
66 TAGTTGTCCAATACTAGTAGTGTCGGACACGAGTTTAGAGGTTGTATCTCCGTATTACAGTGTTG
* * *
986319 GACATGAGTGTCAGGCACAGATACTTCAAGAAAAATGAAGAGTTCGAGCATCATAGCTTAG
131 GACATGAGGGTCAGACACAGATACTTCAAGAAAAATGAAGAGTCCGAGCATCATAGCTTAG
986380 GACAAACTAA
Statistics
Matches: 171, Mismatches: 18, Indels: 4
0.89 0.09 0.02
Matches are distributed among these distances:
194 1 0.01
195 169 0.99
196 1 0.01
ACGTcount: A:0.27, C:0.15, G:0.24, T:0.34
Consensus pattern (195 bp):
AGTGATAAAATCGTGATCTCTTAGTTGGAAATTTACTTAGCACCTATATTACTCCGATTTGGGTG
TAGTTGTCCAATACTAGTAGTGTCGGACACGAGTTTAGAGGTTGTATCTCCGTATTACAGTGTTG
GACATGAGGGTCAGACACAGATACTTCAAGAAAAATGAAGAGTCCGAGCATCATAGCTTAGCAGT
Found at i:990696 original size:12 final size:12
Alignment explanation
Indices: 990679--990703 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
990669 AAACAGGGAT
990679 TCATCATCTTCA
1 TCATCATCTTCA
990691 TCATCATCTTCA
1 TCATCATCTTCA
990703 T
1 T
990704 TCGGTTCAAG
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 13 1.00
ACGTcount: A:0.24, C:0.32, G:0.00, T:0.44
Consensus pattern (12 bp):
TCATCATCTTCA
Found at i:993414 original size:16 final size:16
Alignment explanation
Indices: 993366--993416 Score: 59
Period size: 16 Copynumber: 3.1 Consensus size: 16
993356 ATTTGAATCA
993366 TTCTAGGTTCTGATTAT
1 TTCTA-GTTCTGATTAT
*
993383 TTCTAGTTCAGATTAT
1 TTCTAGTTCTGATTAT
*
993399 TT-TGAGTTCTGGTTAT
1 TTCT-AGTTCTGATTAT
993415 TT
1 TT
993417 AATTTAAGTT
Statistics
Matches: 30, Mismatches: 3, Indels: 3
0.83 0.08 0.08
Matches are distributed among these distances:
15 1 0.03
16 24 0.80
17 5 0.17
ACGTcount: A:0.18, C:0.10, G:0.18, T:0.55
Consensus pattern (16 bp):
TTCTAGTTCTGATTAT
Found at i:997141 original size:16 final size:16
Alignment explanation
Indices: 997122--997152 Score: 53
Period size: 16 Copynumber: 1.9 Consensus size: 16
997112 TTTTTATCTA
997122 AATCATTTCAAATTTT
1 AATCATTTCAAATTTT
*
997138 AATCATTTTAAATTT
1 AATCATTTCAAATTT
997153 AAACTGTTTT
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
16 14 1.00
ACGTcount: A:0.39, C:0.10, G:0.00, T:0.52
Consensus pattern (16 bp):
AATCATTTCAAATTTT
Found at i:1005680 original size:40 final size:40
Alignment explanation
Indices: 1005635--1005711 Score: 129
Period size: 40 Copynumber: 1.9 Consensus size: 40
1005625 GCATACATGC
1005635 ATACATATTAAGAC-AAATGTAAAAAGAGTGGCATGCGTGT
1 ATACATATTAAGACAAAATGTAAAAA-AGTGGCATGCGTGT
1005675 ATACATATTAAGACAAAAATGTAAAAAAGTGGCATGC
1 ATACATATTAAGAC-AAAATGTAAAAAAGTGGCATGC
1005712 ATGCATATAT
Statistics
Matches: 35, Mismatches: 0, Indels: 3
0.92 0.00 0.08
Matches are distributed among these distances:
40 14 0.40
41 10 0.29
42 11 0.31
ACGTcount: A:0.47, C:0.10, G:0.19, T:0.23
Consensus pattern (40 bp):
ATACATATTAAGACAAAATGTAAAAAAGTGGCATGCGTGT
Found at i:1009987 original size:31 final size:31
Alignment explanation
Indices: 1009952--1010016 Score: 85
Period size: 31 Copynumber: 2.1 Consensus size: 31
1009942 CAACCCAATT
*
1009952 ATTTAAATAAAAACTTACGAATAGTTCAACG
1 ATTTAAATAAAAACTTACAAATAGTTCAACG
* ** *
1009983 ATTTAAATCAAAACTTTTAAATAGTTCAATG
1 ATTTAAATAAAAACTTACAAATAGTTCAACG
1010014 ATT
1 ATT
1010017 ATTTTGTAAC
Statistics
Matches: 29, Mismatches: 5, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
31 29 1.00
ACGTcount: A:0.46, C:0.11, G:0.08, T:0.35
Consensus pattern (31 bp):
ATTTAAATAAAAACTTACAAATAGTTCAACG
Found at i:1021830 original size:30 final size:29
Alignment explanation
Indices: 1021789--1021860 Score: 83
Period size: 30 Copynumber: 2.4 Consensus size: 29
1021779 ACAATGTGGC
*
1021789 CACTGAACTATTTG-ATTTTCAGTTATAACT
1 CACTAAACTATTTGAATTTTCA-TT-TAACT
* *
1021819 CACTAAACTATTTGAAATTTTTATTTAAGT
1 CACTAAACTATTTG-AATTTTCATTTAACT
1021849 CACTAAACTATT
1 CACTAAACTATT
1021861 AATTTTTTTT
Statistics
Matches: 37, Mismatches: 3, Indels: 4
0.84 0.07 0.09
Matches are distributed among these distances:
30 29 0.78
31 2 0.05
32 6 0.16
ACGTcount: A:0.35, C:0.15, G:0.07, T:0.43
Consensus pattern (29 bp):
CACTAAACTATTTGAATTTTCATTTAACT
Found at i:1023916 original size:235 final size:232
Alignment explanation
Indices: 1023657--1024116 Score: 565
Period size: 230 Copynumber: 2.0 Consensus size: 232
1023647 CGTTTTTGAA
*
1023657 GTTCGTCATTGACGAAACCAGCTTTAGTTTTT-TTT-TTTTTTTCAAGTAAATGACTGATCGGAT
1 GTTCGTCATTGACGAAACCAGCTTTAGTTTTTCTTTCTTTTTTTCAAATAAATGACTGATCGG--
* * * ** *
1023720 TATAAGAAACGTGAAG-AATTTGTTGTTTCGTTTACCTTTGTTTTTGCGTTTTC-TTTCCGGTGA
64 ----A-AAACGTG-AGCAAATTGTTATTTCGTTTACCTGTGTTTAAG-GTTTTCTTTTCCGGTCA
* *
1023783 TGCAAAAAAATTTAAACTAATCCGTCATGTTCTTAGATTAGAAATAG-CT-T-TCTGTTCTTCTT
122 TGCAAAAAAATTTAAACTAATCCGCCATGATCTTAGATTAGAAATAGTCTGTATCTGTTCTTCTT
*
1023845 TGAGCCTGTTATGTTTGATTTATCGTTTCATGCATTTTTCTCTTTGT
187 TGAGCCTGTTATATTTGATTTATCGTTTCATGC-TTTTTCTCTTTGT
* * *
1023892 GTTCGTCTTTGACGAAACCAGCTTTAGTTTTTCTTTCTTTTTTTTAAATGAATGACTGATCGGAA
1 GTTCGTCATTGACGAAACCAGCTTTAGTTTTTCTTTCTTTTTTTCAAATAAATGACTGATCGGAA
* * **
1023957 AACGTGAGCAAATTGTTATTTCTTTTACCTGTGTTTAAGGTTTTCTTTTTCGGTCATGCAAATTA
66 AACGTGAGCAAATTGTTATTTCGTTTACCTGTGTTTAAGGTTTTCTTTTCCGGTCATGCAAAAAA
* * * * *
1024022 ATTTAAGCTAATCTGCCATGATCTTGGATTAGAAATAGTTTTGTAATCTGTTCTTCTTTGAGCTT
131 ATTTAAACTAATCCGCCATGATCTTAGATTAGAAATAG-TCTGT-ATCTGTTCTTCTTTGAGCCT
1024087 GTTATATTTGATTTATCGTTTCATGCTTTT
194 GTTATATTTGATTTATCGTTTCATGCTTTT
1024117 CTTGGAAACA
Statistics
Matches: 194, Mismatches: 22, Indels: 19
0.83 0.09 0.08
Matches are distributed among these distances:
229 8 0.04
230 79 0.41
231 1 0.01
232 1 0.01
233 1 0.01
234 4 0.02
235 74 0.38
236 3 0.02
237 23 0.12
ACGTcount: A:0.23, C:0.14, G:0.17, T:0.47
Consensus pattern (232 bp):
GTTCGTCATTGACGAAACCAGCTTTAGTTTTTCTTTCTTTTTTTCAAATAAATGACTGATCGGAA
AACGTGAGCAAATTGTTATTTCGTTTACCTGTGTTTAAGGTTTTCTTTTCCGGTCATGCAAAAAA
ATTTAAACTAATCCGCCATGATCTTAGATTAGAAATAGTCTGTATCTGTTCTTCTTTGAGCCTGT
TATATTTGATTTATCGTTTCATGCTTTTTCTCTTTGT
Found at i:1026036 original size:21 final size:21
Alignment explanation
Indices: 1026003--1026043 Score: 66
Period size: 21 Copynumber: 2.0 Consensus size: 21
1025993 TTTGATGTGA
1026003 ATTAAAAATAATTATTTATTC
1 ATTAAAAATAATTATTTATTC
1026024 ATTATAAAA-AATTATTTATT
1 ATTA-AAAATAATTATTTATT
1026044 TAGATGTGGT
Statistics
Matches: 19, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
21 15 0.79
22 4 0.21
ACGTcount: A:0.49, C:0.02, G:0.00, T:0.49
Consensus pattern (21 bp):
ATTAAAAATAATTATTTATTC
Found at i:1030532 original size:3 final size:3
Alignment explanation
Indices: 1030524--1030548 Score: 50
Period size: 3 Copynumber: 8.3 Consensus size: 3
1030514 GATGAAGGTC
1030524 CAT CAT CAT CAT CAT CAT CAT CAT C
1 CAT CAT CAT CAT CAT CAT CAT CAT C
1030549 TGTTAAACCG
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 22 1.00
ACGTcount: A:0.32, C:0.36, G:0.00, T:0.32
Consensus pattern (3 bp):
CAT
Found at i:1031111 original size:21 final size:22
Alignment explanation
Indices: 1031073--1031113 Score: 59
Period size: 21 Copynumber: 1.9 Consensus size: 22
1031063 GACTCGATTG
1031073 AGATTTTGACATGTTAAATAGA
1 AGATTTTGACATGTTAAATAGA
1031095 AGATCTTTGA-AT-TTAAATA
1 AGAT-TTTGACATGTTAAATA
1031114 TCATCATATG
Statistics
Matches: 18, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
21 7 0.39
22 6 0.33
23 5 0.28
ACGTcount: A:0.41, C:0.05, G:0.15, T:0.39
Consensus pattern (22 bp):
AGATTTTGACATGTTAAATAGA
Found at i:1032886 original size:15 final size:16
Alignment explanation
Indices: 1032868--1032905 Score: 51
Period size: 16 Copynumber: 2.4 Consensus size: 16
1032858 TTCCACCAAT
*
1032868 TTCAAATCAT-ATTTA
1 TTCAAATCATAAATTA
*
1032883 TTCAAATCTTAAATTA
1 TTCAAATCATAAATTA
1032899 TTCAAAT
1 TTCAAAT
1032906 TTAAAATAAT
Statistics
Matches: 20, Mismatches: 2, Indels: 1
0.87 0.09 0.04
Matches are distributed among these distances:
15 9 0.45
16 11 0.55
ACGTcount: A:0.42, C:0.13, G:0.00, T:0.45
Consensus pattern (16 bp):
TTCAAATCATAAATTA
Found at i:1032912 original size:16 final size:16
Alignment explanation
Indices: 1032880--1032910 Score: 55
Period size: 16 Copynumber: 2.0 Consensus size: 16
1032870 CAAATCATAT
1032880 TTATTCAAATCTTAAA
1 TTATTCAAATCTTAAA
1032896 TTATTCAAAT-TTAAA
1 TTATTCAAATCTTAAA
1032911 ATAATGAAAA
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
15 5 0.33
16 10 0.67
ACGTcount: A:0.45, C:0.10, G:0.00, T:0.45
Consensus pattern (16 bp):
TTATTCAAATCTTAAA
Found at i:1035671 original size:29 final size:31
Alignment explanation
Indices: 1035631--1035700 Score: 81
Period size: 31 Copynumber: 2.3 Consensus size: 31
1035621 AACGATAGCG
* * *
1035631 TAAGTGATTAAAACGTAA-C-ATGTCAAACA
1 TAAGTGACTAAAACGTAATCGAAGGCAAACA
*
1035660 TAAGTGACTAAAATGTAATCGAAGGCAAACA
1 TAAGTGACTAAAACGTAATCGAAGGCAAACA
*
1035691 AAAGTGACTA
1 TAAGTGACTA
1035701 TTTTTGTAGT
Statistics
Matches: 34, Mismatches: 5, Indels: 2
0.83 0.12 0.05
Matches are distributed among these distances:
29 16 0.47
30 1 0.03
31 17 0.50
ACGTcount: A:0.49, C:0.13, G:0.17, T:0.21
Consensus pattern (31 bp):
TAAGTGACTAAAACGTAATCGAAGGCAAACA
Found at i:1042032 original size:2 final size:2
Alignment explanation
Indices: 1042025--1042055 Score: 53
Period size: 2 Copynumber: 15.5 Consensus size: 2
1042015 GGGCTGTATA
*
1042025 TG TG TG TG TT TG TG TG TG TG TG TG TG TG TG T
1 TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG T
1042056 ATTTGCTTAT
Statistics
Matches: 27, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
2 27 1.00
ACGTcount: A:0.00, C:0.00, G:0.45, T:0.55
Consensus pattern (2 bp):
TG
Found at i:1047252 original size:2 final size:2
Alignment explanation
Indices: 1047245--1047272 Score: 56
Period size: 2 Copynumber: 14.0 Consensus size: 2
1047235 CATTTGTATG
1047245 TA TA TA TA TA TA TA TA TA TA TA TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA
1047273 CAAAAATTAA
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:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
TA
Found at i:1048410 original size:14 final size:14
Alignment explanation
Indices: 1048380--1048426 Score: 62
Period size: 14 Copynumber: 3.5 Consensus size: 14
1048370 GGCAAAGAGC
*
1048380 TTCTTTT-TGTATT
1 TTCTTTTATGTTTT
1048393 TTCTTTTATGTTTT
1 TTCTTTTATGTTTT
*
1048407 TTCTTTTATCTTTT
1 TTCTTTTATGTTTT
1048421 TT-TTTT
1 TTCTTTT
1048427 GTAAGAAATA
Statistics
Matches: 31, Mismatches: 2, Indels: 2
0.89 0.06 0.06
Matches are distributed among these distances:
13 11 0.35
14 20 0.65
ACGTcount: A:0.06, C:0.09, G:0.04, T:0.81
Consensus pattern (14 bp):
TTCTTTTATGTTTT
Found at i:1048485 original size:12 final size:12
Alignment explanation
Indices: 1048468--1048492 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
1048458 AAGCATTGTC
1048468 TCCAATTATAAA
1 TCCAATTATAAA
1048480 TCCAATTATAAA
1 TCCAATTATAAA
1048492 T
1 T
1048493 AGAAGATCGA
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 13 1.00
ACGTcount: A:0.48, C:0.16, G:0.00, T:0.36
Consensus pattern (12 bp):
TCCAATTATAAA
Found at i:1048582 original size:22 final size:22
Alignment explanation
Indices: 1048557--1048600 Score: 54
Period size: 22 Copynumber: 2.0 Consensus size: 22
1048547 TTAAAAAATT
* *
1048557 AATATTTATCTTTTAAT-TTTTA
1 AATATATAT-TTTAAATATTTTA
1048579 AATATATATTTTAAATATTTTA
1 AATATATATTTTAAATATTTTA
1048601 TTATATTCCT
Statistics
Matches: 19, Mismatches: 2, Indels: 2
0.83 0.09 0.09
Matches are distributed among these distances:
21 6 0.32
22 13 0.68
ACGTcount: A:0.39, C:0.02, G:0.00, T:0.59
Consensus pattern (22 bp):
AATATATATTTTAAATATTTTA
Found at i:1049204 original size:31 final size:32
Alignment explanation
Indices: 1049150--1049221 Score: 110
Period size: 31 Copynumber: 2.2 Consensus size: 32
1049140 AAATAAAAAC
1049150 TCAATGACTTAAATAAAAAAACTTTTAAATAAT
1 TCAATGACTTAAAT-AAAAAACTTTTAAATAAT
* *
1049183 TCAATGATTTAAAT-AAAAACTTTTAAATAGT
1 TCAATGACTTAAATAAAAAACTTTTAAATAAT
1049214 TCAATGAC
1 TCAATGAC
1049222 CATTTTTTAA
Statistics
Matches: 36, Mismatches: 3, Indels: 2
0.88 0.07 0.05
Matches are distributed among these distances:
31 23 0.64
33 13 0.36
ACGTcount: A:0.50, C:0.10, G:0.06, T:0.35
Consensus pattern (32 bp):
TCAATGACTTAAATAAAAAACTTTTAAATAAT
Found at i:1057080 original size:3 final size:3
Alignment explanation
Indices: 1057072--1057098 Score: 54
Period size: 3 Copynumber: 9.0 Consensus size: 3
1057062 TAAAAGCTTA
1057072 ATT ATT ATT ATT ATT ATT ATT ATT ATT
1 ATT ATT ATT ATT ATT ATT ATT ATT ATT
1057099 TGTTGATAAG
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 24 1.00
ACGTcount: A:0.33, C:0.00, G:0.00, T:0.67
Consensus pattern (3 bp):
ATT
Found at i:1057730 original size:3 final size:3
Alignment explanation
Indices: 1057722--1057750 Score: 58
Period size: 3 Copynumber: 9.7 Consensus size: 3
1057712 ATATCATTGA
1057722 ATT ATT ATT ATT ATT ATT ATT ATT ATT AT
1 ATT ATT ATT ATT ATT ATT ATT ATT ATT AT
1057751 CAATTAAGTC
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 26 1.00
ACGTcount: A:0.34, C:0.00, G:0.00, T:0.66
Consensus pattern (3 bp):
ATT
Done.