Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: VEPZ01007772.1 Hibiscus syriacus cultivar Beakdansim tig00110053_pilon, whole genome shotgun sequence
Parameters: 2 7 7 80 10 50 1000
Pmatch=0.80,Pindel=0.10
tuple sizes 0,4,5,7
tuple distances 0, 29, 159, 1000
Length: 1636317
ACGTcount: A:0.33, C:0.17, G:0.17, T:0.33
File 6 of 9
Found at i:980521 original size:18 final size:17
Alignment explanation
Indices: 980498--980537 Score: 53
Period size: 17 Copynumber: 2.3 Consensus size: 17
980488 GCTTATAACG
* *
980498 TTTTATATTCATTTTATT
1 TTTTATAAT-ATTTTAAT
980516 TTTTATAATATTTTAAT
1 TTTTATAATATTTTAAT
980533 TTTTA
1 TTTTA
980538 ATGTTTTATT
Statistics
Matches: 20, Mismatches: 2, Indels: 1
0.87 0.09 0.04
Matches are distributed among these distances:
17 12 0.60
18 8 0.40
ACGTcount: A:0.28, C:0.03, G:0.00, T:0.70
Consensus pattern (17 bp):
TTTTATAATATTTTAAT
Found at i:980544 original size:15 final size:15
Alignment explanation
Indices: 980516--980554 Score: 51
Period size: 15 Copynumber: 2.5 Consensus size: 15
980506 TCATTTTATT
980516 TTTTATAATATTTTAA
1 TTTT-TAATATTTTAA
* *
980532 TTTTTAATGTTTTAT
1 TTTTTAATATTTTAA
980547 TTTTTAAT
1 TTTTTAAT
980555 TAAAATATTC
Statistics
Matches: 21, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
15 17 0.81
16 4 0.19
ACGTcount: A:0.28, C:0.00, G:0.03, T:0.69
Consensus pattern (15 bp):
TTTTTAATATTTTAA
Found at i:982556 original size:31 final size:30
Alignment explanation
Indices: 982485--982556 Score: 72
Period size: 30 Copynumber: 2.4 Consensus size: 30
982475 ACTGAAATGT
* * * * *
982485 AATTTTTGAAAGTTTGGGGACTAAAATGTA
1 AATTTTTAAAAATTTAGAGACTAAAATATA
* *
982515 AAGTTGTAAAAATTTAGAGACTAAAAATATA
1 AATTTTTAAAAATTTAGAGACT-AAAATATA
982546 AATTTTTAAAA
1 AATTTTTAAAA
982557 GTTACGTTTT
Statistics
Matches: 32, Mismatches: 9, Indels: 1
0.76 0.21 0.02
Matches are distributed among these distances:
30 16 0.50
31 16 0.50
ACGTcount: A:0.47, C:0.03, G:0.15, T:0.35
Consensus pattern (30 bp):
AATTTTTAAAAATTTAGAGACTAAAATATA
Found at i:985294 original size:36 final size:36
Alignment explanation
Indices: 985249--985318 Score: 88
Period size: 36 Copynumber: 1.9 Consensus size: 36
985239 AAAATATGGA
* *
985249 TTTGAAATGATCAT-ATTTTAAAAAGAAAAGTACAAT
1 TTTGAAATGAT-ATGAATTGAAAAAGAAAAGTACAAT
* *
985285 TTTGCAATGATATGAATTGAAATAGAAAAGTACA
1 TTTGAAATGATATGAATTGAAAAAGAAAAGTACA
985319 TATCTAAAAT
Statistics
Matches: 29, Mismatches: 4, Indels: 2
0.83 0.11 0.06
Matches are distributed among these distances:
35 2 0.07
36 27 0.93
ACGTcount: A:0.49, C:0.06, G:0.14, T:0.31
Consensus pattern (36 bp):
TTTGAAATGATATGAATTGAAAAAGAAAAGTACAAT
Found at i:985395 original size:16 final size:16
Alignment explanation
Indices: 985374--985407 Score: 68
Period size: 16 Copynumber: 2.1 Consensus size: 16
985364 TTGACAATTG
985374 ATTTTATACATGTTTT
1 ATTTTATACATGTTTT
985390 ATTTTATACATGTTTT
1 ATTTTATACATGTTTT
985406 AT
1 AT
985408 ACGATTCTGT
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 18 1.00
ACGTcount: A:0.26, C:0.06, G:0.06, T:0.62
Consensus pattern (16 bp):
ATTTTATACATGTTTT
Found at i:986527 original size:2 final size:2
Alignment explanation
Indices: 986520--986564 Score: 90
Period size: 2 Copynumber: 22.5 Consensus size: 2
986510 TACTTATTAT
986520 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
986562 TA T
1 TA T
986565 GATGAGAAAG
Statistics
Matches: 43, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 43 1.00
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (2 bp):
TA
Found at i:986937 original size:24 final size:24
Alignment explanation
Indices: 986884--986937 Score: 56
Period size: 24 Copynumber: 2.2 Consensus size: 24
986874 TGTGCTTTCA
* *
986884 GTACTCATGTATTAGTGTATTTGT
1 GTACTCATGAATTAGTGTATTTGG
* *
986908 GCACTCATGAATTAGTTTCA-TTGG
1 GTACTCATGAATTAGTGT-ATTTGG
986932 GTACTC
1 GTACTC
986938 CTTTATTTAA
Statistics
Matches: 24, Mismatches: 5, Indels: 2
0.77 0.16 0.06
Matches are distributed among these distances:
24 23 0.96
25 1 0.04
ACGTcount: A:0.22, C:0.15, G:0.20, T:0.43
Consensus pattern (24 bp):
GTACTCATGAATTAGTGTATTTGG
Found at i:992768 original size:18 final size:19
Alignment explanation
Indices: 992745--992796 Score: 74
Period size: 18 Copynumber: 2.9 Consensus size: 19
992735 CAAAGCAAAT
*
992745 AAAAAAGAAGAAA-AGAAG
1 AAAAAAGAAGAAAGAAAAG
992763 AAAAAAGAA-AAAGAAAAG
1 AAAAAAGAAGAAAGAAAAG
992781 AAAAAAGAAG-AAGAAA
1 AAAAAAGAAGAAAGAAA
992797 GAGACAAGAA
Statistics
Matches: 31, Mismatches: 1, Indels: 4
0.86 0.03 0.11
Matches are distributed among these distances:
17 3 0.10
18 28 0.90
ACGTcount: A:0.81, C:0.00, G:0.19, T:0.00
Consensus pattern (19 bp):
AAAAAAGAAGAAAGAAAAG
Found at i:992778 original size:21 final size:22
Alignment explanation
Indices: 992745--992807 Score: 57
Period size: 18 Copynumber: 3.0 Consensus size: 22
992735 CAAAGCAAAT
*
992745 AAAA-AAGAAGAAA-AGAAGAA
1 AAAAGAAGAAGAAAGAAAAGAA
992765 AAAAG-A-A--AAAGAAAAGAA
1 AAAAGAAGAAGAAAGAAAAGAA
992783 AAAAGAAGAAGAAAGAGACAAGAA
1 AAAAGAAGAAGAAAGA-A-AAGAA
992807 A
1 A
992808 CACATGCAAA
Statistics
Matches: 34, Mismatches: 1, Indels: 12
0.72 0.02 0.26
Matches are distributed among these distances:
17 3 0.09
18 11 0.32
19 2 0.06
20 6 0.18
22 5 0.15
23 1 0.03
24 6 0.18
ACGTcount: A:0.78, C:0.02, G:0.21, T:0.00
Consensus pattern (22 bp):
AAAAGAAGAAGAAAGAAAAGAA
Found at i:994036 original size:37 final size:37
Alignment explanation
Indices: 993993--994131 Score: 129
Period size: 36 Copynumber: 3.7 Consensus size: 37
993983 GCGTCATCTT
*
993993 GCTAGAGACAATTTTTCTTAAAAACAAATTTTTTCTC
1 GCTAGAGACAATTTTTCTTAAAAACAAATTTTGTCTC
* * * *
994030 TCTAGAGA-TAGTTTTCTCTAAAAACAAATTTTGTATC
1 GCTAGAGACAATTTTTCT-TAAAAACAAATTTTGTCTC
* * * * *
994067 GCTTGAGAAAATTTCTC-TCAAAACAAATTTCGTCTC
1 GCTAGAGACAATTTTTCTTAAAAACAAATTTTGTCTC
* *
994103 GCTTGAGACATTTTTTCGTTAAAACACAA
1 GCTAGAGACAATTTTTC-TTAAAA-ACAA
994132 GTTCTGAAGT
Statistics
Matches: 80, Mismatches: 17, Indels: 8
0.76 0.16 0.08
Matches are distributed among these distances:
36 37 0.46
37 30 0.38
38 9 0.11
39 4 0.05
ACGTcount: A:0.35, C:0.17, G:0.11, T:0.37
Consensus pattern (37 bp):
GCTAGAGACAATTTTTCTTAAAAACAAATTTTGTCTC
Found at i:994252 original size:66 final size:65
Alignment explanation
Indices: 994167--994365 Score: 256
Period size: 66 Copynumber: 3.0 Consensus size: 65
994157 AAAATTTATA
* * *
994167 ATCTTTGAGTCTATTTCCCTTGAAACAAATTTTGTCTCCCTTGAGACAATTTCTCTTGAAACAAT
1 ATCTTTGAGT-TGTTTCCCTTGAAACAAATTTTGTCTCCCTTGAGATAGTTTCTCTTGAAACAAT
994232 C
65 C
* * * * *
994233 ATCTTTGAGTATGTTTCCCTTGAAACTAGTTTTATCTCCCTTGAGATAGTTTCTCTTAAAATAAT
1 ATCTTTGAGT-TGTTTCCCTTGAAACAAATTTTGTCTCCCTTGAGATAGTTTCTCTTGAAACAAT
994298 C
65 C
* * * * *
994299 ATCTTTGAGTCGTTTCCCTTGAAACGAATTTTGTCTCTCTTGAGATAGTCTCTCTTGAGAC-ATC
1 ATCTTTGAGTTGTTTCCCTTGAAACAAATTTTGTCTCCCTTGAGATAGTTTCTCTTGAAACAATC
994363 ATC
1 ATC
994366 CCTAAAGATT
Statistics
Matches: 115, Mismatches: 18, Indels: 2
0.85 0.13 0.01
Matches are distributed among these distances:
64 6 0.05
65 42 0.37
66 67 0.58
ACGTcount: A:0.25, C:0.21, G:0.13, T:0.41
Consensus pattern (65 bp):
ATCTTTGAGTTGTTTCCCTTGAAACAAATTTTGTCTCCCTTGAGATAGTTTCTCTTGAAACAATC
Found at i:994285 original size:36 final size:34
Alignment explanation
Indices: 994180--994361 Score: 80
Period size: 36 Copynumber: 5.4 Consensus size: 34
994170 TTTGAGTCTA
* * *
994180 TTTCCCTTGAAACAAATTTTGTCTCCCTTGAGACAA
1 TTTCCCTTGAAAC--ATTTTATCTCCCTTGAGATAG
* * *
994216 TTTCTCTTGAAACA-ATCATCT---TTGAG-TATG
1 TTTCCCTTGAAACATTTTATCTCCCTTGAGATA-G
994246 TTTCCCTTGAAACTAGTTTTATCTCCCTTGAGATAG
1 TTTCCCTTGAAAC-A-TTTTATCTCCCTTGAGATAG
* * * *
994282 TTTCTCTT-AAA-A--TAATCAT-CTTTGAG-TCG
1 TTTCCCTTGAAACATTTTATC-TCCCTTGAGATAG
* *
994311 TTTCCCTTGAAACGAATTTTGTCTCTCTTGAGATAG
1 TTTCCCTTGAAAC--ATTTTATCTCCCTTGAGATAG
* * *
994347 TCTCTCTTGAGACAT
1 TTTCCCTTGAAACAT
994362 CATCCCTAAA
Statistics
Matches: 107, Mismatches: 22, Indels: 36
0.65 0.13 0.22
Matches are distributed among these distances:
29 10 0.09
30 30 0.28
31 2 0.02
33 11 0.10
34 4 0.04
35 11 0.10
36 37 0.35
37 2 0.02
ACGTcount: A:0.25, C:0.21, G:0.13, T:0.41
Consensus pattern (34 bp):
TTTCCCTTGAAACATTTTATCTCCCTTGAGATAG
Found at i:994632 original size:131 final size:130
Alignment explanation
Indices: 994360--994721 Score: 381
Period size: 131 Copynumber: 2.8 Consensus size: 130
994350 CTCTTGAGAC
* ** * * * *
994360 ATCATCCCTAAAGATTG-CATGATGTCCTCATCACATAGGAATCATGTCATCCCCCGACCAGACC
1 ATCATCCCTAAAGATAGCCA-GCCGTCCTCATCACGTAGGAACCATGTCATCCACCGACCAAACC
* * * *
994424 TCCTCATCACGTAGGAGCCGTGTCAACCATAGATAACCAGTCATCCTCATCACGTAGAAATCATG
65 TCCTCATCACGTAGGAGCCGTGTC-ACCCTAGATAACAAGCCATCCTCATCACGTAGAAACCATG
994489 TT
129 TT
* * * * *
994491 ATCATCCCTAAAGATGGTCTGCCGTCCTCATCACGTAGGAA-C-TGTCATCCACCTACCATACCT
1 ATCATCCCTAAAGATAGCCAGCCGTCCTCATCACGTAGGAACCATGTCATCCACCGACCAAACCT
* * * * *
994554 CCTCATCACGTAGGAGCCGTGTCACCCTAGATAACAAGCCGTCCTTATCGCGTAGGAACCGTGTT
66 CCTCATCACGTAGGAGCCGTGTCACCCTAGATAACAAGCCATCCTCATCACGTAGAAACCATGTT
* * * * * *
994619 ATCACCTTTCCTAAAGATAGCCAGTCTTTCTCATCGCGTAGGAACCGTGTCATCCACCGACCAAA
1 ATCA---TCCCTAAAGATAGCCAGCCGTCCTCATCACGTAGGAACCATGTCATCCACCGACCAAA
* *
994684 TCTCCTCATCACGTA-GAGCGGTGTCACCCTTAGATAAC
63 CCTCCTCATCACGTAGGAGCCGTGTCACCC-TAGATAAC
994722 CAGAACTCTT
Statistics
Matches: 195, Mismatches: 29, Indels: 12
0.83 0.12 0.05
Matches are distributed among these distances:
128 37 0.19
129 41 0.21
130 1 0.01
131 63 0.32
132 15 0.08
133 38 0.19
ACGTcount: A:0.27, C:0.32, G:0.17, T:0.25
Consensus pattern (130 bp):
ATCATCCCTAAAGATAGCCAGCCGTCCTCATCACGTAGGAACCATGTCATCCACCGACCAAACCT
CCTCATCACGTAGGAGCCGTGTCACCCTAGATAACAAGCCATCCTCATCACGTAGAAACCATGTT
Found at i:998063 original size:40 final size:40
Alignment explanation
Indices: 998008--998208 Score: 339
Period size: 40 Copynumber: 5.0 Consensus size: 40
997998 TCGATCCGAT
* *
998008 TATAGTTCCTAGGGTGGTTAGTATGACAAAAGTATTGGTA
1 TATAGTTCCTAGGGTGGTCAGTGTGACAAAAGTATTGGTA
* *
998048 TATAGTTCCTAGGGTGGTTAGTGTGACAAAAGGATTGGTA
1 TATAGTTCCTAGGGTGGTCAGTGTGACAAAAGTATTGGTA
* *
998088 TATAGTTCCTAGAGTGGTCAGTATGACAAAAGTATTGGTA
1 TATAGTTCCTAGGGTGGTCAGTGTGACAAAAGTATTGGTA
*
998128 CATAGTTCCTAGGGTGGTCAGTGTGACAAAAGTATTGGTA
1 TATAGTTCCTAGGGTGGTCAGTGTGACAAAAGTATTGGTA
998168 TATAGTTCCTAGGGTGGTCAGTGTGACAAAAGTATTGGTA
1 TATAGTTCCTAGGGTGGTCAGTGTGACAAAAGTATTGGTA
998208 T
1 T
998209 GATTCATGTC
Statistics
Matches: 151, Mismatches: 10, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
40 151 1.00
ACGTcount: A:0.29, C:0.09, G:0.29, T:0.33
Consensus pattern (40 bp):
TATAGTTCCTAGGGTGGTCAGTGTGACAAAAGTATTGGTA
Found at i:1001564 original size:21 final size:19
Alignment explanation
Indices: 1001493--1001600 Score: 72
Period size: 20 Copynumber: 5.3 Consensus size: 19
1001483 GTTTCTAGAT
* *
1001493 TCGCAACGCGATTTTGACCA
1 TCGCAATGCGATTTTGA-AA
*
1001513 TCGCATTGCGATTTTCGAAA
1 TCGCAATGCGATTTT-GAAA
**
1001533 TCCGCGTTGCGATTTTAGATAA
1 T-CGCAATGCGATTTT-GA-AA
* *
1001555 TCGCAATGCGAATATGTAAA
1 TCGCAATGCGATTTTG-AAA
* *
1001575 TCGCAATGCGAATATGTAAA
1 TCGCAATGCGATTTTG-AAA
1001595 TCGCAA
1 TCGCAA
1001601 CGTGATAACA
Statistics
Matches: 75, Mismatches: 9, Indels: 8
0.82 0.10 0.09
Matches are distributed among these distances:
20 44 0.59
21 28 0.37
22 3 0.04
ACGTcount: A:0.31, C:0.20, G:0.20, T:0.29
Consensus pattern (19 bp):
TCGCAATGCGATTTTGAAA
Found at i:1001578 original size:20 final size:20
Alignment explanation
Indices: 1001553--1001600 Score: 96
Period size: 20 Copynumber: 2.4 Consensus size: 20
1001543 GATTTTAGAT
1001553 AATCGCAATGCGAATATGTA
1 AATCGCAATGCGAATATGTA
1001573 AATCGCAATGCGAATATGTA
1 AATCGCAATGCGAATATGTA
1001593 AATCGCAA
1 AATCGCAA
1001601 CGTGATAACA
Statistics
Matches: 28, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
20 28 1.00
ACGTcount: A:0.42, C:0.17, G:0.19, T:0.23
Consensus pattern (20 bp):
AATCGCAATGCGAATATGTA
Found at i:1001643 original size:20 final size:20
Alignment explanation
Indices: 1001618--1001741 Score: 178
Period size: 20 Copynumber: 6.2 Consensus size: 20
1001608 ACACGTGATT
1001618 GCAACGCGATTCTGACTATC
1 GCAACGCGATTCTGACTATC
*
1001638 GCAACGCGATTCGGACTATC
1 GCAACGCGATTCTGACTATC
**
1001658 GCAACGCGATAAT-ACGTGATC
1 GCAACGCGATTCTGAC-T-ATC
1001679 GCAACGCGATTCTGACTATC
1 GCAACGCGATTCTGACTATC
*
1001699 GCAACGAGATTCTGACTATC
1 GCAACGCGATTCTGACTATC
*
1001719 GCAACGCGATTCTGACTAAC
1 GCAACGCGATTCTGACTATC
1001739 GCA
1 GCA
1001742 TCACTGAATT
Statistics
Matches: 92, Mismatches: 9, Indels: 6
0.86 0.08 0.06
Matches are distributed among these distances:
19 2 0.02
20 73 0.79
21 15 0.16
22 2 0.02
ACGTcount: A:0.28, C:0.28, G:0.22, T:0.22
Consensus pattern (20 bp):
GCAACGCGATTCTGACTATC
Found at i:1001669 original size:61 final size:61
Alignment explanation
Indices: 1001594--1001728 Score: 225
Period size: 61 Copynumber: 2.2 Consensus size: 61
1001584 GAATATGTAA
* * *
1001594 ATCGCAACGTGATAACACGTGATTGCAACGCGATTCTGACTATCGCAACGCGATTCGGACT
1 ATCGCAACGCGATAACACGTGATCGCAACGCGATTCTGACTATCGCAACGAGATTCGGACT
* *
1001655 ATCGCAACGCGATAATACGTGATCGCAACGCGATTCTGACTATCGCAACGAGATTCTGACT
1 ATCGCAACGCGATAACACGTGATCGCAACGCGATTCTGACTATCGCAACGAGATTCGGACT
1001716 ATCGCAACGCGAT
1 ATCGCAACGCGAT
1001729 TCTGACTAAC
Statistics
Matches: 69, Mismatches: 5, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
61 69 1.00
ACGTcount: A:0.29, C:0.27, G:0.22, T:0.22
Consensus pattern (61 bp):
ATCGCAACGCGATAACACGTGATCGCAACGCGATTCTGACTATCGCAACGAGATTCGGACT
Found at i:1001680 original size:41 final size:40
Alignment explanation
Indices: 1001630--1001741 Score: 154
Period size: 41 Copynumber: 2.8 Consensus size: 40
1001620 AACGCGATTC
* *
1001630 TGACTATCGCAACGCGATTCGGACTATCGCAACGCGATAA
1 TGACTATCGCAACGCGATTCTGACTATCGCAACGAGATAA
**
1001670 T-ACGTGATCGCAACGCGATTCTGACTATCGCAACGAGATTC
1 TGAC-T-ATCGCAACGCGATTCTGACTATCGCAACGAGATAA
*
1001711 TGACTATCGCAACGCGATTCTGACTAACGCA
1 TGACTATCGCAACGCGATTCTGACTATCGCA
1001742 TCACTGAATT
Statistics
Matches: 64, Mismatches: 5, Indels: 6
0.85 0.07 0.08
Matches are distributed among these distances:
39 2 0.03
40 27 0.42
41 33 0.52
42 2 0.03
ACGTcount: A:0.29, C:0.28, G:0.21, T:0.22
Consensus pattern (40 bp):
TGACTATCGCAACGCGATTCTGACTATCGCAACGAGATAA
Found at i:1002593 original size:24 final size:24
Alignment explanation
Indices: 1002561--1002607 Score: 85
Period size: 24 Copynumber: 2.0 Consensus size: 24
1002551 GTATTCGAAA
1002561 TTTGATCTTGGTCAATACCCGGAC
1 TTTGATCTTGGTCAATACCCGGAC
*
1002585 TTTGATCTTGGTCAATACTCGGA
1 TTTGATCTTGGTCAATACCCGGA
1002608 TTTTTATGAT
Statistics
Matches: 22, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
24 22 1.00
ACGTcount: A:0.21, C:0.21, G:0.21, T:0.36
Consensus pattern (24 bp):
TTTGATCTTGGTCAATACCCGGAC
Found at i:1004877 original size:12 final size:12
Alignment explanation
Indices: 1004860--1004890 Score: 53
Period size: 12 Copynumber: 2.6 Consensus size: 12
1004850 CAAGCAAAAG
1004860 GCAATCAAAATC
1 GCAATCAAAATC
1004872 GCAATCAAAATC
1 GCAATCAAAATC
*
1004884 CCAATCA
1 GCAATCA
1004891 CAACCGGCTT
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
12 18 1.00
ACGTcount: A:0.48, C:0.29, G:0.06, T:0.16
Consensus pattern (12 bp):
GCAATCAAAATC
Found at i:1005093 original size:20 final size:20
Alignment explanation
Indices: 1005068--1005328 Score: 224
Period size: 20 Copynumber: 13.7 Consensus size: 20
1005058 CACATTCATT
1005068 TGACTATCGCAACGCGAATA
1 TGACTATCGCAACGCGAATA
* * *
1005088 TGACTATCACAACGTGAATT
1 TGACTATCGCAACGCGAATA
* *
1005108 TGAATATCGCAACG-G--GA
1 TGACTATCGCAACGCGAATA
* *
1005125 T-A--ATCGCAATGCGAAAA
1 TGACTATCGCAACGCGAATA
*
1005142 TGACTATCGCAACGCGAATT
1 TGACTATCGCAACGCGAATA
*
1005162 TGACTATCGCAACG-G--GA
1 TGACTATCGCAACGCGAATA
* *
1005179 T-A--ATCGCAATGCGAAAA
1 TGACTATCGCAACGCGAATA
*
1005196 TGACTATCGCAACGCGAAAA
1 TGACTATCGCAACGCGAATA
* * * *
1005216 TGACTATTGCAATGTGAATT
1 TGACTATCGCAACGCGAATA
* * *
1005236 TAACTATCGCAACGTGAATT
1 TGACTATCGCAACGCGAATA
1005256 TGACTATCGCAACGCGAA-A
1 TGACTATCGCAACGCGAATA
*
1005275 TGACTATCGCAACGCGAATT
1 TGACTATCGCAACGCGAATA
* * *
1005295 TGATTATCGCAACGGGAATT
1 TGACTATCGCAACGCGAATA
1005315 TGACTATCGCAACG
1 TGACTATCGCAACG
1005329 AGAAAATCGT
Statistics
Matches: 196, Mismatches: 32, Indels: 26
0.77 0.13 0.10
Matches are distributed among these distances:
14 16 0.08
15 2 0.01
16 2 0.01
17 6 0.03
18 2 0.01
19 20 0.10
20 148 0.76
ACGTcount: A:0.35, C:0.21, G:0.21, T:0.23
Consensus pattern (20 bp):
TGACTATCGCAACGCGAATA
Found at i:1005139 original size:54 final size:54
Alignment explanation
Indices: 1005073--1005213 Score: 237
Period size: 54 Copynumber: 2.6 Consensus size: 54
1005063 TCATTTGACT
* * * *
1005073 ATCGCAACGCGAATATGACTATCACAACGTGAATTTGAATATCGCAACGGGATA
1 ATCGCAATGCGAAAATGACTATCGCAACGCGAATTTGAATATCGCAACGGGATA
*
1005127 ATCGCAATGCGAAAATGACTATCGCAACGCGAATTTGACTATCGCAACGGGATA
1 ATCGCAATGCGAAAATGACTATCGCAACGCGAATTTGAATATCGCAACGGGATA
1005181 ATCGCAATGCGAAAATGACTATCGCAACGCGAA
1 ATCGCAATGCGAAAATGACTATCGCAACGCGAA
1005214 AATGACTATT
Statistics
Matches: 82, Mismatches: 5, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
54 82 1.00
ACGTcount: A:0.37, C:0.22, G:0.21, T:0.20
Consensus pattern (54 bp):
ATCGCAATGCGAAAATGACTATCGCAACGCGAATTTGAATATCGCAACGGGATA
Found at i:1005220 original size:54 final size:54
Alignment explanation
Indices: 1005073--1005288 Score: 227
Period size: 54 Copynumber: 3.9 Consensus size: 54
1005063 TCATTTGACT
* * * ** *
1005073 ATCGCAACGCGAATATGACTATCACAACGTGAATTTGAATATCGCAACGGGATA
1 ATCGCAACGCGAAAATGACTATCGCAACGCGAAAATGACTATCGCAACGGGATA
* **
1005127 ATCGCAATGCGAAAATGACTATCGCAACGCGAATTTGACTATCGCAACGGGATA
1 ATCGCAACGCGAAAATGACTATCGCAACGCGAAAATGACTATCGCAACGGGATA
* * * *
1005181 ATCGCAATGCGAAAATGACTATCGCAACGCGAAAATGACTATTGCAATGTGAATTTAA
1 ATCGCAACGCGAAAATGACTATCGCAACGCGAAAATGACTATCGCAACG-GGA--T-A
* **
1005239 CTATCGCAACGTGAATTTGACTATCGCAACGCG-AAATGACTATCGCAACG
1 --ATCGCAACGCGAAAATGACTATCGCAACGCGAAAATGACTATCGCAACG
1005289 CGAATTTGAT
Statistics
Matches: 140, Mismatches: 16, Indels: 7
0.86 0.10 0.04
Matches are distributed among these distances:
54 94 0.67
55 2 0.01
57 1 0.01
58 1 0.01
59 15 0.11
60 27 0.19
ACGTcount: A:0.36, C:0.21, G:0.20, T:0.22
Consensus pattern (54 bp):
ATCGCAACGCGAAAATGACTATCGCAACGCGAAAATGACTATCGCAACGGGATA
Found at i:1005305 original size:59 final size:58
Alignment explanation
Indices: 1005065--1005333 Score: 225
Period size: 54 Copynumber: 4.7 Consensus size: 58
1005055 TTACACATTC
* * * * * *
1005065 ATTTGACTATCGCAACGCGAATATGACTATCACAACGTGAATTTGAATATCGCAACGG-
1 ATTTGATTATCGCAACGCGAATTTGACTATCGCAACGCGAA-ATGACTATCGCAACGGA
* * ** *
1005123 ----GATAATCGCAATGCGAAAATGACTATCGCAACGCGAATTTGACTATCGCAACGG-
1 ATTTGATTATCGCAACGCGAATTTGACTATCGCAACGCGAA-ATGACTATCGCAACGGA
* * ** * *
1005177 ----GATAATCGCAATGCGAAAATGACTATCGCAACGCGAAAATGACTATTGCAATGTGA
1 ATTTGATTATCGCAACGCGAATTTGACTATCGCAACGCG-AAATGACTATCGCAACG-GA
* * *
1005233 ATTTAACTATCGCAACGTGAATTTGACTATCGCAACGCGAAATGACTATCGCAACGCGA
1 ATTTGATTATCGCAACGCGAATTTGACTATCGCAACGCGAAATGACTATCGCAACG-GA
* *
1005292 ATTTGATTATCGCAACGGGAATTTGACTATCGCAACGAGAAA
1 ATTTGATTATCGCAACGCGAATTTGACTATCGCAACGCGAAA
1005334 ATCGTAAAGT
Statistics
Matches: 180, Mismatches: 24, Indels: 13
0.83 0.11 0.06
Matches are distributed among these distances:
54 94 0.52
55 3 0.02
59 55 0.31
60 28 0.16
ACGTcount: A:0.36, C:0.20, G:0.20, T:0.23
Consensus pattern (58 bp):
ATTTGATTATCGCAACGCGAATTTGACTATCGCAACGCGAAATGACTATCGCAACGGA
Found at i:1005513 original size:30 final size:30
Alignment explanation
Indices: 1005478--1005543 Score: 114
Period size: 30 Copynumber: 2.2 Consensus size: 30
1005468 TTAAACAAGC
* *
1005478 ACAAATAATAATTATTTACACATGAATTAA
1 ACAAATAAGAATTATTTACACATCAATTAA
1005508 ACAAATAAGAATTATTTACACATCAATTAA
1 ACAAATAAGAATTATTTACACATCAATTAA
1005538 ACAAAT
1 ACAAAT
1005544 CAACTCTTAT
Statistics
Matches: 34, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
30 34 1.00
ACGTcount: A:0.55, C:0.12, G:0.03, T:0.30
Consensus pattern (30 bp):
ACAAATAAGAATTATTTACACATCAATTAA
Found at i:1006950 original size:21 final size:21
Alignment explanation
Indices: 1006926--1007026 Score: 78
Period size: 21 Copynumber: 4.8 Consensus size: 21
1006916 GGGAGGGACA
*
1006926 TCTTCAACGATGACAGGGGCC
1 TCTTGAACGATGACAGGGGCC
* ** * *
1006947 TCTTGAACGGTGGGAGGTGAC
1 TCTTGAACGATGACAGGGGCC
** *
1006968 TCTTGAGGGATGATAGGGGCC
1 TCTTGAACGATGACAGGGGCC
* *
1006989 TCTTGAACGAT-AGGAGAGGCC
1 TCTTGAACGATGA-CAGGGGCC
*
1007010 TCTTGAATGATGACAGG
1 TCTTGAACGATGACAGG
1007027 TGAGTCGGGC
Statistics
Matches: 58, Mismatches: 20, Indels: 4
0.71 0.24 0.05
Matches are distributed among these distances:
20 1 0.02
21 56 0.97
22 1 0.02
ACGTcount: A:0.24, C:0.18, G:0.36, T:0.23
Consensus pattern (21 bp):
TCTTGAACGATGACAGGGGCC
Found at i:1007013 original size:42 final size:42
Alignment explanation
Indices: 1006934--1007026 Score: 116
Period size: 42 Copynumber: 2.2 Consensus size: 42
1006924 CATCTTCAAC
* *
1006934 GATGACAGGGGCCTCTTGAACGGTGGGAGGTGACTCTTGAGG
1 GATGACAGGGGCCTCTTGAACGATAGGAGGTGACTCTTGAGG
* * **
1006976 GATGATAGGGGCCTCTTGAACGATAGGAGAG-GCCTCTTGAAT
1 GATGACAGGGGCCTCTTGAACGATAGGAG-GTGACTCTTGAGG
1007018 GATGACAGG
1 GATGACAGG
1007027 TGAGTCGGGC
Statistics
Matches: 43, Mismatches: 7, Indels: 2
0.83 0.13 0.04
Matches are distributed among these distances:
42 42 0.98
43 1 0.02
ACGTcount: A:0.24, C:0.16, G:0.39, T:0.22
Consensus pattern (42 bp):
GATGACAGGGGCCTCTTGAACGATAGGAGGTGACTCTTGAGG
Found at i:1007527 original size:20 final size:20
Alignment explanation
Indices: 1007502--1007541 Score: 71
Period size: 20 Copynumber: 2.0 Consensus size: 20
1007492 GAATAGTTTC
1007502 TGAAACTTAAAACCGCAACA
1 TGAAACTTAAAACCGCAACA
*
1007522 TGAAACTTAAAATCGCAACA
1 TGAAACTTAAAACCGCAACA
1007542 CTAAAATTAT
Statistics
Matches: 19, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
20 19 1.00
ACGTcount: A:0.50, C:0.23, G:0.10, T:0.17
Consensus pattern (20 bp):
TGAAACTTAAAACCGCAACA
Found at i:1007618 original size:20 final size:20
Alignment explanation
Indices: 1007593--1007696 Score: 87
Period size: 20 Copynumber: 5.5 Consensus size: 20
1007583 AAACTAAATT
1007593 CGCGTTGCGATAGTCATTTC
1 CGCGTTGCGATAGTCATTTC
* *
1007613 CGCGTTGCGATAGTCGTTTT
1 CGCGTTGCGATAGTCATTTC
*
1007633 CGCATTGCGAT--T-A--TC
1 CGCGTTGCGATAGTCATTTC
*
1007648 C-CGTTGCGATAGTCAAATT-
1 CGCGTTGCGATAGTC-ATTTC
* *
1007667 CGCGTTGCGATAATCATTTT
1 CGCGTTGCGATAGTCATTTC
*
1007687 CGTGTTGCGA
1 CGCGTTGCGA
1007697 CTATTCTTCT
Statistics
Matches: 67, Mismatches: 9, Indels: 16
0.73 0.10 0.17
Matches are distributed among these distances:
14 8 0.12
15 2 0.03
16 1 0.01
18 2 0.03
19 4 0.06
20 50 0.75
ACGTcount: A:0.17, C:0.22, G:0.25, T:0.36
Consensus pattern (20 bp):
CGCGTTGCGATAGTCATTTC
Found at i:1008111 original size:21 final size:22
Alignment explanation
Indices: 1008064--1008111 Score: 55
Period size: 21 Copynumber: 2.3 Consensus size: 22
1008054 ATGTTACCAT
* * *
1008064 CTCACGTAGAGCCGCTACCTCA
1 CTCACGTAAAGCAGATACCTCA
1008086 C-CACGTAAAGCAGATACCTC-
1 CTCACGTAAAGCAGATACCTCA
1008106 CTCACG
1 CTCACG
1008112 CCATTCACCA
Statistics
Matches: 22, Mismatches: 3, Indels: 3
0.79 0.11 0.11
Matches are distributed among these distances:
20 1 0.05
21 20 0.91
22 1 0.05
ACGTcount: A:0.27, C:0.40, G:0.17, T:0.17
Consensus pattern (22 bp):
CTCACGTAAAGCAGATACCTCA
Found at i:1009720 original size:20 final size:20
Alignment explanation
Indices: 1009697--1009752 Score: 85
Period size: 20 Copynumber: 2.8 Consensus size: 20
1009687 TCTGAAACTT
1009697 AAAATCGCAACACGAAAATG
1 AAAATCGCAACACGAAAATG
1009717 AAAATCGCAACACGAAAATG
1 AAAATCGCAACACGAAAATG
** *
1009737 ATTATCGCAACGCGAA
1 AAAATCGCAACACGAA
1009753 TTTGACTATC
Statistics
Matches: 33, Mismatches: 3, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
20 33 1.00
ACGTcount: A:0.50, C:0.21, G:0.16, T:0.12
Consensus pattern (20 bp):
AAAATCGCAACACGAAAATG
Found at i:1009762 original size:20 final size:20
Alignment explanation
Indices: 1009700--1009792 Score: 80
Period size: 20 Copynumber: 4.7 Consensus size: 20
1009690 GAAACTTAAA
* * **
1009700 ATCGCAACACGAAAATGAAA
1 ATCGCAACGCGAATATGACT
* * *
1009720 ATCGCAACACGAAAATGATT
1 ATCGCAACGCGAATATGACT
*
1009740 ATCGCAACGCGAATTTGACT
1 ATCGCAACGCGAATATGACT
* *
1009760 ATCACAACGCGAA-ATGGCT
1 ATCGCAACGCGAATATGACT
*
1009779 ATCTCAACGCGAAT
1 ATCGCAACGCGAAT
1009793 TTGGTCGTTG
Statistics
Matches: 62, Mismatches: 10, Indels: 2
0.84 0.14 0.03
Matches are distributed among these distances:
19 16 0.26
20 46 0.74
ACGTcount: A:0.41, C:0.24, G:0.17, T:0.18
Consensus pattern (20 bp):
ATCGCAACGCGAATATGACT
Found at i:1010164 original size:22 final size:22
Alignment explanation
Indices: 1010137--1010201 Score: 103
Period size: 22 Copynumber: 3.0 Consensus size: 22
1010127 GAGATAGACA
1010137 GATTTCGCCGGAGATGGGGACG
1 GATTTCGCCGGAGATGGGGACG
* *
1010159 GATTTCGCTGGAAATGGGGACG
1 GATTTCGCCGGAGATGGGGACG
*
1010181 GATTTCGTCGGAGATGGGGAC
1 GATTTCGCCGGAGATGGGGAC
1010202 AGATGTCACC
Statistics
Matches: 38, Mismatches: 5, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
22 38 1.00
ACGTcount: A:0.20, C:0.15, G:0.43, T:0.22
Consensus pattern (22 bp):
GATTTCGCCGGAGATGGGGACG
Found at i:1010402 original size:20 final size:20
Alignment explanation
Indices: 1010378--1010480 Score: 127
Period size: 20 Copynumber: 5.1 Consensus size: 20
1010368 TCGCAACGTA
* *
1010378 ATAGTCAGAATCTCGTTGCA
1 ATAGTCAGAATCGCGTTGCG
1010398 ATAGTCAGAATCGCGTTGCG
1 ATAGTCAGAATCGCGTTGCG
**
1010418 ATCACGT-ATTATCGCGTTGCG
1 AT-A-GTCAGAATCGCGTTGCG
*
1010439 ATAGTCCGAATCGCGTTGCG
1 ATAGTCAGAATCGCGTTGCG
*
1010459 ATAGTCAGAATCGCATTGCG
1 ATAGTCAGAATCGCGTTGCG
1010479 AT
1 AT
1010481 CACGTGTTAT
Statistics
Matches: 71, Mismatches: 9, Indels: 6
0.83 0.10 0.07
Matches are distributed among these distances:
19 2 0.03
20 52 0.73
21 15 0.21
22 2 0.03
ACGTcount: A:0.25, C:0.21, G:0.25, T:0.28
Consensus pattern (20 bp):
ATAGTCAGAATCGCGTTGCG
Found at i:1010443 original size:61 final size:61
Alignment explanation
Indices: 1010378--1010501 Score: 203
Period size: 61 Copynumber: 2.0 Consensus size: 61
1010368 TCGCAACGTA
* *
1010378 ATAGTCAGAATCTCGTTGCAATAGTCAGAATCGCGTTGCGATCACGTATTATCGCGTTGCG
1 ATAGTCAGAATCGCGTTGCAATAGTCAGAATCGCATTGCGATCACGTATTATCGCGTTGCG
* * *
1010439 ATAGTCCGAATCGCGTTGCGATAGTCAGAATCGCATTGCGATCACGTGTTATCGCGTTGCG
1 ATAGTCAGAATCGCGTTGCAATAGTCAGAATCGCATTGCGATCACGTATTATCGCGTTGCG
1010500 AT
1 AT
1010502 TTATATATTC
Statistics
Matches: 58, Mismatches: 5, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
61 58 1.00
ACGTcount: A:0.23, C:0.22, G:0.26, T:0.29
Consensus pattern (61 bp):
ATAGTCAGAATCGCGTTGCAATAGTCAGAATCGCATTGCGATCACGTATTATCGCGTTGCG
Found at i:1010520 original size:20 final size:20
Alignment explanation
Indices: 1010495--1010542 Score: 78
Period size: 20 Copynumber: 2.4 Consensus size: 20
1010485 TGTTATCGCG
*
1010495 TTGCGATTTATATATTCACA
1 TTGCGATTTACATATTCACA
*
1010515 TTGCGATTTACATATTCGCA
1 TTGCGATTTACATATTCACA
1010535 TTGCGATT
1 TTGCGATT
1010543 ATCTAAAATC
Statistics
Matches: 26, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
20 26 1.00
ACGTcount: A:0.25, C:0.17, G:0.15, T:0.44
Consensus pattern (20 bp):
TTGCGATTTACATATTCACA
Found at i:1010640 original size:20 final size:19
Alignment explanation
Indices: 1010616--1010662 Score: 58
Period size: 19 Copynumber: 2.4 Consensus size: 19
1010606 TGGAAACTGA
*
1010616 ATTGCGATAATGGAGATCGC
1 ATTGCGAT-ATAGAGATCGC
* *
1010636 GTTGCGATTTAGAGATCGC
1 ATTGCGATATAGAGATCGC
1010655 ATTGCGAT
1 ATTGCGAT
1010663 TTTGTTGGTC
Statistics
Matches: 23, Mismatches: 4, Indels: 1
0.82 0.14 0.04
Matches are distributed among these distances:
19 16 0.70
20 7 0.30
ACGTcount: A:0.26, C:0.15, G:0.30, T:0.30
Consensus pattern (19 bp):
ATTGCGATATAGAGATCGC
Found at i:1010652 original size:19 final size:19
Alignment explanation
Indices: 1010628--1010664 Score: 65
Period size: 19 Copynumber: 1.9 Consensus size: 19
1010618 TGCGATAATG
*
1010628 GAGATCGCGTTGCGATTTA
1 GAGATCGCATTGCGATTTA
1010647 GAGATCGCATTGCGATTT
1 GAGATCGCATTGCGATTT
1010665 TGTTGGTCAT
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
19 17 1.00
ACGTcount: A:0.22, C:0.16, G:0.30, T:0.32
Consensus pattern (19 bp):
GAGATCGCATTGCGATTTA
Found at i:1013044 original size:13 final size:13
Alignment explanation
Indices: 1013026--1013052 Score: 54
Period size: 13 Copynumber: 2.1 Consensus size: 13
1013016 ACCATGCATG
1013026 TTAGCAGAAAAGT
1 TTAGCAGAAAAGT
1013039 TTAGCAGAAAAGT
1 TTAGCAGAAAAGT
1013052 T
1 T
1013053 GCACAGAAAT
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 14 1.00
ACGTcount: A:0.44, C:0.07, G:0.22, T:0.26
Consensus pattern (13 bp):
TTAGCAGAAAAGT
Found at i:1013932 original size:15 final size:15
Alignment explanation
Indices: 1013914--1013945 Score: 55
Period size: 15 Copynumber: 2.1 Consensus size: 15
1013904 TGAGGTTAAG
*
1013914 GAAGATGAAAAGGGA
1 GAAGATGAAAAGAGA
1013929 GAAGATGAAAAGAGA
1 GAAGATGAAAAGAGA
1013944 GA
1 GA
1013946 TACCTGAAAA
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
15 16 1.00
ACGTcount: A:0.56, C:0.00, G:0.38, T:0.06
Consensus pattern (15 bp):
GAAGATGAAAAGAGA
Found at i:1017111 original size:12 final size:12
Alignment explanation
Indices: 1017094--1017122 Score: 58
Period size: 12 Copynumber: 2.4 Consensus size: 12
1017084 GCTAGGTAAG
1017094 TGATTTTAAAGT
1 TGATTTTAAAGT
1017106 TGATTTTAAAGT
1 TGATTTTAAAGT
1017118 TGATT
1 TGATT
1017123 GTTTCTTGTA
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 17 1.00
ACGTcount: A:0.31, C:0.00, G:0.17, T:0.52
Consensus pattern (12 bp):
TGATTTTAAAGT
Found at i:1017305 original size:99 final size:99
Alignment explanation
Indices: 1017134--1017315 Score: 274
Period size: 99 Copynumber: 1.8 Consensus size: 99
1017124 TTTCTTGTAT
* * * *
1017134 AGGCTAGTTGAATCTTATCCATAAAGCCGGGGCGACTAACCAATTGCTCTAGAGAGACAACTCAA
1 AGGCTAGCTGAATCTTATCCATAAAACCAGGGAGACTAACCAATTGCTCTAGAGAGACAACTCAA
*
1017199 GCTTTATTGTATATATATTATAATCTCCTTTATC
66 GCTTTATTGTATACATATTATAATCTCCTTTATC
* * * * *
1017233 AGGCTAGCTGAATCTTATCCATAAAACTAGGGAGATTAACTAATTGCTCTAGAGGGTCAACTCAA
1 AGGCTAGCTGAATCTTATCCATAAAACCAGGGAGACTAACCAATTGCTCTAGAGAGACAACTCAA
1017298 GCTTTATTGTATACATAT
66 GCTTTATTGTATACATAT
1017316 AATATTATAA
Statistics
Matches: 73, Mismatches: 10, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
99 73 1.00
ACGTcount: A:0.32, C:0.19, G:0.17, T:0.32
Consensus pattern (99 bp):
AGGCTAGCTGAATCTTATCCATAAAACCAGGGAGACTAACCAATTGCTCTAGAGAGACAACTCAA
GCTTTATTGTATACATATTATAATCTCCTTTATC
Found at i:1020089 original size:20 final size:21
Alignment explanation
Indices: 1020060--1020106 Score: 60
Period size: 20 Copynumber: 2.3 Consensus size: 21
1020050 ATATATATAT
*
1020060 ATAATATAATAACG-AAAAAA
1 ATAATATAATAAAGTAAAAAA
* *
1020080 ATAATTTAATAAAGTAAAATA
1 ATAATATAATAAAGTAAAAAA
1020101 ATAATA
1 ATAATA
1020107 ATGTAATATA
Statistics
Matches: 22, Mismatches: 4, Indels: 1
0.81 0.15 0.04
Matches are distributed among these distances:
20 12 0.55
21 10 0.45
ACGTcount: A:0.66, C:0.02, G:0.04, T:0.28
Consensus pattern (21 bp):
ATAATATAATAAAGTAAAAAA
Found at i:1020107 original size:16 final size:16
Alignment explanation
Indices: 1020086--1020123 Score: 51
Period size: 16 Copynumber: 2.4 Consensus size: 16
1020076 AAAAATAATT
1020086 TAATAAAGTAAAATAA
1 TAATAAAGTAAAATAA
* *
1020102 TAATAATGTAATATAA
1 TAATAAAGTAAAATAA
1020118 T-ATAAA
1 TAATAAA
1020124 TACATGAAAA
Statistics
Matches: 19, Mismatches: 3, Indels: 1
0.83 0.13 0.04
Matches are distributed among these distances:
15 4 0.21
16 15 0.79
ACGTcount: A:0.63, C:0.00, G:0.05, T:0.32
Consensus pattern (16 bp):
TAATAAAGTAAAATAA
Found at i:1020878 original size:36 final size:37
Alignment explanation
Indices: 1020806--1020906 Score: 134
Period size: 36 Copynumber: 2.8 Consensus size: 37
1020796 GTGCTTGTGG
* * * *
1020806 ATCCTATCTTTAGGAGTTTAAAACATAGCAAAATTCT
1 ATCCTATTTTTAGGAGTTTGAATCCTAGCAAAATTCT
*
1020843 ATCCTATTTTTAGGAG-TTGAATCCTAGCAGAATTCT
1 ATCCTATTTTTAGGAGTTTGAATCCTAGCAAAATTCT
1020879 ATCCTATTTTT-GAGAGTTTGAATCCTAG
1 ATCCTATTTTTAG-GAGTTTGAATCCTAG
1020907 TAGGACGAAA
Statistics
Matches: 57, Mismatches: 5, Indels: 4
0.86 0.08 0.06
Matches are distributed among these distances:
35 1 0.02
36 30 0.53
37 26 0.46
ACGTcount: A:0.31, C:0.16, G:0.15, T:0.39
Consensus pattern (37 bp):
ATCCTATTTTTAGGAGTTTGAATCCTAGCAAAATTCT
Found at i:1021885 original size:218 final size:208
Alignment explanation
Indices: 1021368--1021934 Score: 610
Period size: 218 Copynumber: 2.7 Consensus size: 208
1021358 ATATTGTTCT
* ** *
1021368 GAGTCCAATATCCTCCGCTGTGAAGTTGAAATTGGTTCTGGAACCGGGAAATTGTTTGTTGACAG
1 GAGTCCAACATCCTCCGCTGTGAAGTTGAAATTGGTTCTGGAATTGGGAAATTGTTTGTTGACAA
* * * * * * * *
1021433 TCAGCTGCCCCTTCGCTGTGAAGTTGAGCTTGTGCTGTCTCGAGT-CTA--ATATCCTTCGTTGT
66 CCAGCCGTCCCTTCGTTGTGAAGTTGAACTTGTGTTGTCTCGAGTGC-ACGATATCCTCCGTCGT
* * ** *
1021495 GAAGTTGAAATTGACTCTGAACGAAATCTTGTTGACAATCAGCCATCCCTTCGTTGTGAAGTTGA
130 GGAGTTGAAATCGACGATGAACGAAATCTTGTTGACAACCAGCCATCCCTTCGTTGTGAAGTTGA
1021560 ACTTGTGTTGTTTC
195 ACTTGTGTTGTTTC
* * * * * * *
1021574 GAGTCCAATATCCTTCGCTGTGAAGTTGAAATTGGCTCTGAAATTTGAAAAATGTTTGTTGACAA
1 GAGTCCAACATCCTCCGCTGTGAAGTTGAAATTGGTTCTGGAATTGGGAAATTGTTTGTTGACAA
* *
1021639 CCAG-CTTGCCCTTCATTGTGAAGTTGAACTTGTGTTGTCTCGAGTGGCACGATATCCTCCGTCG
66 CCAGCCGT-CCCTTCGTTGTGAAGTTGAACTTGTGTTGTCTCGAGT-GCACGATATCCTCCGTCG
* *
1021703 TGGAGTTGAAATCG-CGGATGAAACTGAAAAGTTGTTCGTTGACAACCAGCCGTCCCTTCGTTGT
129 TGGAGTTGAAATCGAC-GATG-AAC-G-AAA--TCTT-GTTGACAACCAGCCATCCCTTCGTTGT
*
1021767 GAAGTTGGACTTGTGTT-TTCTC
187 GAAGTTGAACTTGTGTTGTT-TC
* * * * *
1021789 -AGGTAGCACGACATCCTCCG-TCGTGGAGTTGAAATCGGTTCTGGAATTGGGAAGTTGTTCGTT
1 GA-GT--C-CAACATCCTCCGCT-GTGAAGTTGAAATTGGTTCTGGAATTGGGAAATTGTTTGTT
*
1021852 GACAACCAGCCGTCCCTTCGTTGTGAAGTTGAACTTGTGTTGTCTCGGGTAGCACGATATCCTCC
61 GACAACCAGCCGTCCCTTCGTTGTGAAGTTGAACTTGTGTTGTCTCGAGT-GCACGATATCCTCC
1021917 GTCGTGGAGTTGAAATCG
125 GTCGTGGAGTTGAAATCG
1021935 GTTTCGAAAC
Statistics
Matches: 299, Mismatches: 43, Indels: 26
0.81 0.12 0.07
Matches are distributed among these distances:
206 92 0.31
207 1 0.00
208 2 0.01
209 25 0.08
210 3 0.01
211 1 0.00
212 3 0.01
214 6 0.02
215 45 0.15
217 2 0.01
218 117 0.39
219 2 0.01
ACGTcount: A:0.22, C:0.20, G:0.26, T:0.33
Consensus pattern (208 bp):
GAGTCCAACATCCTCCGCTGTGAAGTTGAAATTGGTTCTGGAATTGGGAAATTGTTTGTTGACAA
CCAGCCGTCCCTTCGTTGTGAAGTTGAACTTGTGTTGTCTCGAGTGCACGATATCCTCCGTCGTG
GAGTTGAAATCGACGATGAACGAAATCTTGTTGACAACCAGCCATCCCTTCGTTGTGAAGTTGAA
CTTGTGTTGTTTC
Found at i:1021936 original size:109 final size:109
Alignment explanation
Indices: 1021375--1021937 Score: 516
Period size: 109 Copynumber: 5.3 Consensus size: 109
1021365 TCTGAGTCCA
* * *** * **
1021375 ATATCCTCCG-CTGTGAAGTTGAAATTGGTTCTGGAACCGGGAAA-TTGTTTGTTGACAGTCAGC
1 ATATCCTCCGTC-GTGGAGTTGAAATCGGTTCT-GAAATTGGAAAGTTGTTCGTTGACAACCAGC
* * * * *
1021438 TGCCCCTTCGCTGTGAAGTTGAGCTTGTGCTGTCTCGAGT--CTA--
64 CGTCCCTTCGTTGTGAAGTTGAACTTGTGTTGTCTCGAGTAGC-ACG
* * * * ** * * * *
1021481 ATATCCTTCGTTGTGAAGTTGAAATTGACTCTG-AA--CGAAA--TCTT-GTTGACAATCAGCCA
1 ATATCCTCCGTCGTGGAGTTGAAATCGGTTCTGAAATTGGAAAGTTGTTCGTTGACAACCAGCCG
* *
1021540 TCCCTTCGTTGTGAAGTTGAACTTGTGTTGTTTCGAGT--C-CA
66 TCCCTTCGTTGTGAAGTTGAACTTGTGTTGTCTCGAGTAGCACG
* * * * * ** *
1021581 ATATCCTTCG-CTGTGAAGTTGAAATTGGCTCTGAAATTTGAAAAATGTTTGTTGACAACCAG-C
1 ATATCCTCCGTC-GTGGAGTTGAAATCGGTTCTGAAATTGGAAAGTTGTTCGTTGACAACCAGCC
* * *
1021644 TTGCCCTTCATTGTGAAGTTGAACTTGTGTTGTCTCGAGTGGCACG
65 GT-CCCTTCGTTGTGAAGTTGAACTTGTGTTGTCTCGAGTAGCACG
** * *
1021690 ATATCCTCCGTCGTGGAGTTGAAATCGCG-GATGAAACTGAAAAGTTGTTCGTTGACAACCAGCC
1 ATATCCTCCGTCGTGGAGTTGAAATCG-GTTCTGAAATTGGAAAGTTGTTCGTTGACAACCAGCC
* *
1021754 GTCCCTTCGTTGTGAAGTTGGACTTGTGTTTTCTC-AGGTAGCACG
65 GTCCCTTCGTTGTGAAGTTGAACTTGTGTTGTCTCGA-GTAGCACG
* * *
1021799 ACATCCTCCGTCGTGGAGTTGAAATCGGTTCTGGAATTGGGAAGTTGTTCGTTGACAACCAGCCG
1 ATATCCTCCGTCGTGGAGTTGAAATCGGTTCTGAAATTGGAAAGTTGTTCGTTGACAACCAGCCG
*
1021864 TCCCTTCGTTGTGAAGTTGAACTTGTGTTGTCTCGGGTAGCACG
66 TCCCTTCGTTGTGAAGTTGAACTTGTGTTGTCTCGAGTAGCACG
1021908 ATATCCTCCGTCGTGGAGTTGAAATCGGTT
1 ATATCCTCCGTCGTGGAGTTGAAATCGGTT
1021938 TCGAAACCAG
Statistics
Matches: 386, Mismatches: 51, Indels: 37
0.81 0.11 0.08
Matches are distributed among these distances:
100 76 0.20
101 5 0.01
102 4 0.01
103 4 0.01
104 1 0.00
105 6 0.02
106 73 0.19
108 3 0.01
109 210 0.54
110 4 0.01
ACGTcount: A:0.21, C:0.20, G:0.26, T:0.33
Consensus pattern (109 bp):
ATATCCTCCGTCGTGGAGTTGAAATCGGTTCTGAAATTGGAAAGTTGTTCGTTGACAACCAGCCG
TCCCTTCGTTGTGAAGTTGAACTTGTGTTGTCTCGAGTAGCACG
Found at i:1022711 original size:36 final size:36
Alignment explanation
Indices: 1022587--1023062 Score: 185
Period size: 36 Copynumber: 13.9 Consensus size: 36
1022577 AAAGATTTTG
* * * *
1022587 TGTTTCAAGAGAAACTGTCTCATGGGAGACAAAATT
1 TGTTTCAAGGGAAACTATCTCAAGAGAGACAAAATT
* * * **
1022623 TGTTTCGAGGAAAACAATCTCAA-AG-G----TTTT
1 TGTTTCAAGGGAAACTATCTCAAGAGAGACAAAATT
* * *
1022653 GTGTTTCAAGAGAAACTGTCTCAAGGGAGACAAAATT
1 -TGTTTCAAGGGAAACTATCTCAAGAGAGACAAAATT
* *
1022690 TGTTTCAAGGGAAATTATCTCAAGAGAGACGAAATT
1 TGTTTCAAGGGAAACTATCTCAAGAGAGACAAAATT
** * * * *
1022726 CATTTCAAGGGAAA-TGTTTTC-A-A-TG-----TTT
1 TGTTTCAAGGGAAACT-ATCTCAAGAGAGACAAAATT
* *
1022754 ATGTTTC-AGGAGAAACTGTCTCAAGGGAGACAAAATTT
1 -TGTTTCAAGG-GAAACTATCTCAAGAGAGACAAAA-TT
1022792 TGTTTCAAGGGAAACTATCTCAAGAGAGACAAAATT
1 TGTTTCAAGGGAAACTATCTCAAGAGAGACAAAATT
** * * * *
1022828 CATTTCAAGGGAAA-TGTTTTC-A-A-TG-----TTT
1 TGTTTCAAGGGAAACT-ATCTCAAGAGAGACAAAATT
* * *
1022856 ATGTTTCAAGAGAAACTATCTCAAGGGAGAAAAAATTT
1 -TGTTTCAAGGGAAACTATCTCAAGAGAGACAAAA-TT
*
1022894 TGTTTCAAGGGAAACTATCTCAAGAGAGACAAAACT
1 TGTTTCAAGGGAAACTATCTCAAGAGAGACAAAATT
** * * * *
1022930 CATTTCAAGGGAAA-TGTTTTC-A-A-TG-----TTT
1 TGTTTCAAGGGAAACT-ATCTCAAGAGAGACAAAATT
* * * **
1022958 ATGTTTCAAGAGAAACTGTCTCAAGGGAGA-AATTTT
1 -TGTTTCAAGGGAAACTATCTCAAGAGAGACAAAATT
* *
1022994 TTTTCTCAAGGGAAACTATCTCAAGAGAGACAAAGTT
1 TGTT-TCAAGGGAAACTATCTCAAGAGAGACAAAATT
* *
1023031 TATTTCAAGGGAAACTGTCTCAAGAGAGACAA
1 TGTTTCAAGGGAAACTATCTCAAGAGAGACAA
1023063 TGGTGAGCAC
Statistics
Matches: 318, Mismatches: 77, Indels: 90
0.66 0.16 0.19
Matches are distributed among these distances:
28 8 0.03
29 39 0.12
30 8 0.03
31 18 0.06
32 4 0.01
33 4 0.01
34 4 0.01
35 10 0.03
36 148 0.47
37 68 0.21
38 7 0.02
ACGTcount: A:0.37, C:0.13, G:0.21, T:0.29
Consensus pattern (36 bp):
TGTTTCAAGGGAAACTATCTCAAGAGAGACAAAATT
Found at i:1022829 original size:102 final size:102
Alignment explanation
Indices: 1022654--1023044 Score: 662
Period size: 102 Copynumber: 3.9 Consensus size: 102
1022644 AAAGGTTTTG
*
1022654 TGTTTCAAGAGAAACTGTCTCAAGGGAGACAAAA-TTTGTTTCAAGGGAAATTATCTCAAGAGAG
1 TGTTTCAAGAGAAACTGTCTCAAGGGAGACAAAATTTTGTTTCAAGGGAAACTATCTCAAGAGAG
*
1022718 ACGAAATTCATTTCAAGGGAAATGTTTTCAATGTTTA
66 ACAAAATTCATTTCAAGGGAAATGTTTTCAATGTTTA
*
1022755 TGTTTCAGGAGAAACTGTCTCAAGGGAGACAAAATTTTGTTTCAAGGGAAACTATCTCAAGAGAG
1 TGTTTCAAGAGAAACTGTCTCAAGGGAGACAAAATTTTGTTTCAAGGGAAACTATCTCAAGAGAG
1022820 ACAAAATTCATTTCAAGGGAAATGTTTTCAATGTTTA
66 ACAAAATTCATTTCAAGGGAAATGTTTTCAATGTTTA
* *
1022857 TGTTTCAAGAGAAACTATCTCAAGGGAGAAAAAATTTTGTTTCAAGGGAAACTATCTCAAGAGAG
1 TGTTTCAAGAGAAACTGTCTCAAGGGAGACAAAATTTTGTTTCAAGGGAAACTATCTCAAGAGAG
*
1022922 ACAAAACTCATTTCAAGGGAAATGTTTTCAATGTTTA
66 ACAAAATTCATTTCAAGGGAAATGTTTTCAATGTTTA
* *
1022959 TGTTTCAAGAGAAACTGTCTCAAGGGAG--AAATTTTTTTTCTCAAGGGAAACTATCTCAAGAGA
1 TGTTTCAAGAGAAACTGTCTCAAGGGAGACAAAATTTTGTT-TCAAGGGAAACTATCTCAAGAGA
* *
1023022 GACAAAGTTTATTTCAAGGGAAA
65 GACAAAATTCATTTCAAGGGAAA
1023045 CTGTCTCAAG
Statistics
Matches: 275, Mismatches: 13, Indels: 4
0.94 0.04 0.01
Matches are distributed among these distances:
100 9 0.03
101 76 0.28
102 190 0.69
ACGTcount: A:0.37, C:0.13, G:0.20, T:0.30
Consensus pattern (102 bp):
TGTTTCAAGAGAAACTGTCTCAAGGGAGACAAAATTTTGTTTCAAGGGAAACTATCTCAAGAGAG
ACAAAATTCATTTCAAGGGAAATGTTTTCAATGTTTA
Found at i:1024585 original size:20 final size:21
Alignment explanation
Indices: 1024555--1024619 Score: 62
Period size: 20 Copynumber: 3.1 Consensus size: 21
1024545 GTGCTTTTTG
*
1024555 TTCCTTTTTTTATTTTTGTTCT
1 TTCC-TTTTTTATTCTTGTTCT
* *
1024577 TT-CTTTTTTGTTCTTGTTTT
1 TTCCTTTTTTATTCTTGTTCT
*
1024597 TTCCTTTTTTGCTTCTT-TTCT
1 TTCCTTTTTT-ATTCTTGTTCT
1024618 TT
1 TT
1024620 TTTCTTTTTG
Statistics
Matches: 36, Mismatches: 5, Indels: 5
0.78 0.11 0.11
Matches are distributed among these distances:
20 16 0.44
21 13 0.36
22 7 0.19
ACGTcount: A:0.02, C:0.15, G:0.06, T:0.77
Consensus pattern (21 bp):
TTCCTTTTTTATTCTTGTTCT
Found at i:1024630 original size:22 final size:22
Alignment explanation
Indices: 1024576--1024628 Score: 72
Period size: 23 Copynumber: 2.4 Consensus size: 22
1024566 ATTTTTGTTC
1024576 TTTCTTTTTTG-TTCTTGTTTT
1 TTTCTTTTTTGCTTCTTGTTTT
* *
1024597 TTCCTTTTTTGCTTCTTTTCTTT
1 TTTCTTTTTTGCTTCTTGT-TTT
1024620 TTTCTTTTT
1 TTTCTTTTT
1024629 GCCCTTTTTG
Statistics
Matches: 27, Mismatches: 3, Indels: 2
0.84 0.09 0.06
Matches are distributed among these distances:
21 10 0.37
22 6 0.22
23 11 0.41
ACGTcount: A:0.00, C:0.15, G:0.06, T:0.79
Consensus pattern (22 bp):
TTTCTTTTTTGCTTCTTGTTTT
Found at i:1027974 original size:16 final size:16
Alignment explanation
Indices: 1027953--1027990 Score: 51
Period size: 16 Copynumber: 2.4 Consensus size: 16
1027943 AAAAATGATT
1027953 TAATAAAGTAAAATAA
1 TAATAAAGTAAAATAA
* *
1027969 TAATAATGTAATATAA
1 TAATAAAGTAAAATAA
1027985 T-ATAAA
1 TAATAAA
1027991 TACATGAAAA
Statistics
Matches: 19, Mismatches: 3, Indels: 1
0.83 0.13 0.04
Matches are distributed among these distances:
15 4 0.21
16 15 0.79
ACGTcount: A:0.63, C:0.00, G:0.05, T:0.32
Consensus pattern (16 bp):
TAATAAAGTAAAATAA
Found at i:1028248 original size:2 final size:2
Alignment explanation
Indices: 1028241--1028269 Score: 58
Period size: 2 Copynumber: 14.5 Consensus size: 2
1028231 AAAATAATTA
1028241 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 A
1028270 ATAATACGAA
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 27 1.00
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (2 bp):
AT
Found at i:1028736 original size:37 final size:37
Alignment explanation
Indices: 1028686--1028779 Score: 104
Period size: 36 Copynumber: 2.6 Consensus size: 37
1028676 GTGCTTGTGG
*
1028686 ATCCTATCTTTAGGAGTTTAAAACATAGCAAAATTAT
1 ATCCTATTTTTAGGAGTTTAAAACATAGCAAAATTAT
* * * * *
1028723 ATCCTATTTTTAGGAG-TTGAATCCTAGCAGAATTCT
1 ATCCTATTTTTAGGAGTTTAAAACATAGCAAAATTAT
1028759 AT-CTATTTTT-GAGAGTTTAAA
1 ATCCTATTTTTAG-GAGTTTAAA
1028780 TCTAGTAGGA
Statistics
Matches: 48, Mismatches: 7, Indels: 5
0.80 0.12 0.08
Matches are distributed among these distances:
34 1 0.02
35 11 0.23
36 21 0.44
37 15 0.31
ACGTcount: A:0.34, C:0.13, G:0.14, T:0.39
Consensus pattern (37 bp):
ATCCTATTTTTAGGAGTTTAAAACATAGCAAAATTAT
Found at i:1031858 original size:31 final size:30
Alignment explanation
Indices: 1031797--1031902 Score: 83
Period size: 31 Copynumber: 3.6 Consensus size: 30
1031787 CTTTTTTATT
* *
1031797 TAAGTATCTAAAGTATTTTTTTAGTTAAAA
1 TAAGTATCTAAAGTATTTTTTGAGTCAAAA
* * *
1031827 TAAGTATTTATAGTTATTTTTTGGGTCAAAA
1 TAAGTATCTAAAG-TATTTTTTGAGTCAAAA
* *
1031858 T-AGCTACCTAAAGTATTTTAT--GTCAAAA
1 TAAG-TATCTAAAGTATTTTTTGAGTCAAAA
* * *
1031886 TAGGTACCTAAACTATT
1 TAAGTATCTAAAGTATT
1031903 CAATTTTTTT
Statistics
Matches: 62, Mismatches: 11, Indels: 8
0.77 0.14 0.10
Matches are distributed among these distances:
28 20 0.32
29 1 0.02
30 20 0.32
31 21 0.34
ACGTcount: A:0.37, C:0.08, G:0.12, T:0.42
Consensus pattern (30 bp):
TAAGTATCTAAAGTATTTTTTGAGTCAAAA
Found at i:1032024 original size:21 final size:23
Alignment explanation
Indices: 1031998--1032042 Score: 67
Period size: 21 Copynumber: 2.0 Consensus size: 23
1031988 TTTAGATATC
1031998 TATTTTGA-CAAAAAAAT-ACTT
1 TATTTTGACCAAAAAAATAACTT
*
1032019 TATTTTGACCAAAAAGATAACTT
1 TATTTTGACCAAAAAAATAACTT
1032042 T
1 T
1032043 TGGGTACTTA
Statistics
Matches: 21, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
21 8 0.38
22 8 0.38
23 5 0.24
ACGTcount: A:0.44, C:0.11, G:0.07, T:0.38
Consensus pattern (23 bp):
TATTTTGACCAAAAAAATAACTT
Found at i:1040780 original size:83 final size:83
Alignment explanation
Indices: 1040640--1040865 Score: 274
Period size: 83 Copynumber: 2.7 Consensus size: 83
1040630 GCGTTTCTTA
* * *
1040640 AACAAACGTCTCGATAGAGTAGTACTTTAGCTA-CGTTTTTATACAAACACCGTAATAGGGATCG
1 AACAAACGTCACGATAGAGTAGTACTTTAGC-AGCGTTTTTATACAAACGCCGCAATAGGGATCG
**
1040704 TTTATAGTGGCATTTTTTT
65 TTTATAGTGGCATTTTTCC
* * * * * *
1040723 AACAAACGCCGCGATTGAGTAGTCCTTTAGCAGCGTTTTTATACAAATGCCGCAATAGGGATTGT
1 AACAAACGTCACGATAGAGTAGTACTTTAGCAGCGTTTTTATACAAACGCCGCAATAGGGATCGT
**
1040788 TTATAGTGGTGTTTTTCC
66 TTATAGTGGCATTTTTCC
* * * * *
1040806 AACAAATGTCACGATAGAGTATTACTTTAACGGCATTTTTATACAAACGCCGCAATAGGG
1 AACAAACGTCACGATAGAGTAGTACTTTAGCAGCGTTTTTATACAAACGCCGCAATAGGG
1040866 TTCTCTGCCA
Statistics
Matches: 120, Mismatches: 22, Indels: 2
0.83 0.15 0.01
Matches are distributed among these distances:
82 1 0.01
83 119 0.99
ACGTcount: A:0.30, C:0.17, G:0.20, T:0.33
Consensus pattern (83 bp):
AACAAACGTCACGATAGAGTAGTACTTTAGCAGCGTTTTTATACAAACGCCGCAATAGGGATCGT
TTATAGTGGCATTTTTCC
Found at i:1041060 original size:43 final size:41
Alignment explanation
Indices: 1040990--1041101 Score: 143
Period size: 43 Copynumber: 2.7 Consensus size: 41
1040980 TACATATAGC
* * * *
1040990 GGCGTTTTCAAAACAAACGCTGTAATAAATCAGTGCATTAGT
1 GGCGTTTTTAAAA-AAACGCCGCAATAAATCAGTGCAGTAGT
*
1041032 GGCGTTTTTAGATAAAAACGCCGCAATAAATCAGTTCAGTAGT
1 GGCGTTTTTA-A-AAAAACGCCGCAATAAATCAGTGCAGTAGT
*
1041075 GGCGTTTTTAAACAAACGCCGCAATAA
1 GGCGTTTTTAAAAAAACGCCGCAATAA
1041102 GTTAGTGAAG
Statistics
Matches: 62, Mismatches: 6, Indels: 5
0.85 0.08 0.07
Matches are distributed among these distances:
41 15 0.24
42 10 0.16
43 35 0.56
44 2 0.03
ACGTcount: A:0.36, C:0.18, G:0.20, T:0.27
Consensus pattern (41 bp):
GGCGTTTTTAAAAAAACGCCGCAATAAATCAGTGCAGTAGT
Found at i:1042633 original size:22 final size:22
Alignment explanation
Indices: 1042608--1042684 Score: 154
Period size: 22 Copynumber: 3.5 Consensus size: 22
1042598 TTTGTAAAGC
1042608 CTTCTTGATCCTTGAATGTTTA
1 CTTCTTGATCCTTGAATGTTTA
1042630 CTTCTTGATCCTTGAATGTTTA
1 CTTCTTGATCCTTGAATGTTTA
1042652 CTTCTTGATCCTTGAATGTTTA
1 CTTCTTGATCCTTGAATGTTTA
1042674 CTTCTTGATCC
1 CTTCTTGATCC
1042685 GTTTATTTTT
Statistics
Matches: 55, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
22 55 1.00
ACGTcount: A:0.17, C:0.21, G:0.13, T:0.49
Consensus pattern (22 bp):
CTTCTTGATCCTTGAATGTTTA
Found at i:1044663 original size:43 final size:43
Alignment explanation
Indices: 1044615--1044847 Score: 238
Period size: 43 Copynumber: 5.4 Consensus size: 43
1044605 GCCACTAAAT
*
1044615 ACTTATTGCGGCGTTTGCGATAAAAACGCTGCTAAATCTCAAC
1 ACTTATTGCGGCGTTTGTGATAAAAACGCTGCTAAATCTCAAC
* * * * * *
1044658 ACTTATTGCGGCGTTTTTTAGAAAAACACCT-CTAATTCTCAAT
1 ACTTATTGCGGCGTTTGTGATAAAAAC-GCTGCTAAATCTCAAC
** * * *
1044701 ACTTATTATGGCATTTGTGAGAAAAACGCCGCTAAATCTCAAC
1 ACTTATTGCGGCGTTTGTGATAAAAACGCTGCTAAATCTCAAC
* *
1044744 ACTTATTGCGACGTTTGTGATAAAAACGCAGCTAAATCTCAAC
1 ACTTATTGCGGCGTTTGTGATAAAAACGCTGCTAAATCTCAAC
* * * * *
1044787 ACCTACTGCGGCGTTTGTGGTAAAAATG-TCGTTAAA-CATCAAC
1 ACTTATTGCGGCGTTTGTGATAAAAACGCT-GCTAAATC-TCAAC
*
1044830 ACGTATTGCGGCGTTTGT
1 ACTTATTGCGGCGTTTGT
1044848 TTAACAAACG
Statistics
Matches: 155, Mismatches: 31, Indels: 8
0.80 0.16 0.04
Matches are distributed among these distances:
42 2 0.01
43 151 0.97
44 2 0.01
ACGTcount: A:0.30, C:0.21, G:0.18, T:0.30
Consensus pattern (43 bp):
ACTTATTGCGGCGTTTGTGATAAAAACGCTGCTAAATCTCAAC
Found at i:1044863 original size:43 final size:43
Alignment explanation
Indices: 1044618--1044906 Score: 226
Period size: 43 Copynumber: 6.7 Consensus size: 43
1044608 ACTAAATACT
* * * *
1044618 TATTGCGGCGTTTGCGATAAAAACGCTGCTAAATCTCAACACT
1 TATTGCGGCGTTTGTGTTAAAAACGCCGCTAAATCTCAACACC
* * * * *
1044661 TATTGCGGCGTTT-T-TTAGAAAAACACCTCTAATTCTCAATACT
1 TATTGCGGCGTTTGTGTT--AAAAACGCCGCTAAATCTCAACACC
** * ** *
1044704 TATTATGGCATTTGTGAGAAAAACGCCGCTAAATCTCAACACT
1 TATTGCGGCGTTTGTGTTAAAAACGCCGCTAAATCTCAACACC
* * *
1044747 TATTGCGACGTTTGTGATAAAAACGCAGCTAAATCTCAACACC
1 TATTGCGGCGTTTGTGTTAAAAACGCCGCTAAATCTCAACACC
* * * * * *
1044790 TACTGCGGCGTTTGTGGTAAAAATGTCGTTAAA-CATCAACACG
1 TATTGCGGCGTTTGTGTTAAAAACGCCGCTAAATC-TCAACACC
* * * **
1044833 TATTGCGGCGTTTGT-TTAACAAACGCCGTTATATATCGTCACC
1 TATTGCGGCGTTTGTGTTAA-AAACGCCGCTAAATCTCAACACC
*
1044876 TATTGCGGCGTTTTTCGTTAACAAACGCCGC
1 TATTGCGGCGTTTGT-GTTAA-AAACGCCGC
1044907 GAACTTTAGC
Statistics
Matches: 195, Mismatches: 42, Indels: 16
0.77 0.17 0.06
Matches are distributed among these distances:
41 1 0.01
42 4 0.02
43 176 0.90
44 1 0.01
45 13 0.07
ACGTcount: A:0.29, C:0.22, G:0.18, T:0.30
Consensus pattern (43 bp):
TATTGCGGCGTTTGTGTTAAAAACGCCGCTAAATCTCAACACC
Found at i:1045248 original size:60 final size:60
Alignment explanation
Indices: 1045168--1045455 Score: 308
Period size: 60 Copynumber: 4.8 Consensus size: 60
1045158 ACGAGGATGA
* * * * *
1045168 AGATGGAATAGCACTAGAGATGGAGTTATGTGGAGATGGATTAATAGAAGTGAAATGTTG
1 AGATGAAATAGCAGTAGAGATGGAATTATGTGGAGATGGATTGATAGAAGTGAAATGTGG
* * * * *
1045228 AGATAAAATAGCAGTAGAGATGGAATTATGTAGAGATGGATTGGTAGAAGTGGAGTGTGG
1 AGATGAAATAGCAGTAGAGATGGAATTATGTGGAGATGGATTGATAGAAGTGAAATGTGG
* * * * * *
1045288 AGACGAAATAACAGTAGAGAT-GATATTTTGTGGAGATGGATTGATAGAGGTGGAGTGTGG
1 AGATGAAATAGCAGTAGAGATGGA-ATTATGTGGAGATGGATTGATAGAAGTGAAATGTGG
* * * *
1045348 AGATGGAATAGCAGTAGAGATGGAATTATGTGAAGATGGATTGGTAGGAGTGAAATGTGG
1 AGATGAAATAGCAGTAGAGATGGAATTATGTGGAGATGGATTGATAGAAGTGAAATGTGG
* * * * * * * *
1045408 AGAGGGAATAGTAGTAGGGATGGAGTTATGTGGAAATGAATTAATAGA
1 AGATGAAATAGCAGTAGAGATGGAATTATGTGGAGATGGATTGATAGA
1045456 GGTTATAGGA
Statistics
Matches: 189, Mismatches: 37, Indels: 4
0.82 0.16 0.02
Matches are distributed among these distances:
59 2 0.01
60 185 0.98
61 2 0.01
ACGTcount: A:0.36, C:0.02, G:0.36, T:0.26
Consensus pattern (60 bp):
AGATGAAATAGCAGTAGAGATGGAATTATGTGGAGATGGATTGATAGAAGTGAAATGTGG
Found at i:1045440 original size:120 final size:120
Alignment explanation
Indices: 1045172--1045458 Score: 362
Period size: 120 Copynumber: 2.4 Consensus size: 120
1045162 GGATGAAGAT
* * *
1045172 GGAATAGCACTAGAGATGGAGTTATGTGGAGATGGATTAATAGAAGTGAAATGTTGAGATAAAAT
1 GGAATAGCAGTAGAGATGGAGTTATGTGGAGATGGATTAATAGAGGTGAAATGTGGAGATAAAAT
* *
1045237 AGCAGTAGAGATGGAATTATGTAGAGATGGATTGGTAGAAGTGGAGTGTGGAGAC
66 AGCAGTAGAGATGGAATTATGTAGAGATGGATTGGTAGAAGTGAAATGTGGAGAC
* * * * * * * **
1045292 GAAATAACAGTAGAGAT-GATATTTTGTGGAGATGGATTGATAGAGGTGGAGTGTGGAGATGGAA
1 GGAATAGCAGTAGAGATGGA-GTTATGTGGAGATGGATTAATAGAGGTGAAATGTGGAGATAAAA
* *
1045356 TAGCAGTAGAGATGGAATTATGT-GAAGATGGATTGGTAGGAGTGAAATGTGGAGAG
65 TAGCAGTAGAGATGGAATTATGTAG-AGATGGATTGGTAGAAGTGAAATGTGGAGAC
* * * *
1045412 GGAATAGTAGTAGGGATGGAGTTATGTGGAAATGAATTAATAGAGGT
1 GGAATAGCAGTAGAGATGGAGTTATGTGGAGATGGATTAATAGAGGT
1045459 TATAGGAGGG
Statistics
Matches: 139, Mismatches: 25, Indels: 6
0.82 0.15 0.04
Matches are distributed among these distances:
119 3 0.02
120 134 0.96
121 2 0.01
ACGTcount: A:0.36, C:0.02, G:0.37, T:0.26
Consensus pattern (120 bp):
GGAATAGCAGTAGAGATGGAGTTATGTGGAGATGGATTAATAGAGGTGAAATGTGGAGATAAAAT
AGCAGTAGAGATGGAATTATGTAGAGATGGATTGGTAGAAGTGAAATGTGGAGAC
Found at i:1053357 original size:17 final size:18
Alignment explanation
Indices: 1053332--1053368 Score: 51
Period size: 17 Copynumber: 2.1 Consensus size: 18
1053322 ATATTAAAAA
1053332 TAAATAAATAT-TATTATT
1 TAAATAAATATATA-TATT
1053350 TAAA-AAATATATATATT
1 TAAATAAATATATATATT
1053367 TA
1 TA
1053369 TAAGACTAAG
Statistics
Matches: 18, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
17 12 0.67
18 6 0.33
ACGTcount: A:0.54, C:0.00, G:0.00, T:0.46
Consensus pattern (18 bp):
TAAATAAATATATATATT
Found at i:1053393 original size:11 final size:11
Alignment explanation
Indices: 1053379--1053443 Score: 57
Period size: 11 Copynumber: 6.0 Consensus size: 11
1053369 TAAGACTAAG
1053379 ATAAAATAATA
1 ATAAAATAATA
1053390 ATAAAATAATA
1 ATAAAATAATA
*
1053401 AT-TAATGCAATA
1 ATAAAAT--AATA
1053413 ATCAAAAT-AT-
1 AT-AAAATAATA
*
1053423 A-AAAGTAATA
1 ATAAAATAATA
1053433 ATAAAATAATA
1 ATAAAATAATA
1053444 TTGCAAATAA
Statistics
Matches: 43, Mismatches: 4, Indels: 14
0.70 0.07 0.23
Matches are distributed among these distances:
8 4 0.09
9 2 0.05
10 5 0.12
11 23 0.53
12 6 0.14
14 3 0.07
ACGTcount: A:0.66, C:0.03, G:0.03, T:0.28
Consensus pattern (11 bp):
ATAAAATAATA
Found at i:1054344 original size:11 final size:11
Alignment explanation
Indices: 1054328--1054364 Score: 56
Period size: 11 Copynumber: 3.4 Consensus size: 11
1054318 TCGGCTTTAA
1054328 GTTTCTTCTCT
1 GTTTCTTCTCT
1054339 GTTTCTTCTCT
1 GTTTCTTCTCT
* *
1054350 CTTTCTTTTCT
1 GTTTCTTCTCT
1054361 GTTT
1 GTTT
1054365 GCTGTTATGG
Statistics
Matches: 23, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
11 23 1.00
ACGTcount: A:0.00, C:0.24, G:0.08, T:0.68
Consensus pattern (11 bp):
GTTTCTTCTCT
Found at i:1054816 original size:19 final size:18
Alignment explanation
Indices: 1054783--1054825 Score: 68
Period size: 19 Copynumber: 2.3 Consensus size: 18
1054773 AATATTTATT
1054783 TAATAATATTAATAAAAA
1 TAATAATATTAATAAAAA
*
1054801 TAATAATGTATAATAAAAA
1 TAATAATAT-TAATAAAAA
1054820 TAATAA
1 TAATAA
1054826 AAATTAAAAT
Statistics
Matches: 23, Mismatches: 1, Indels: 1
0.92 0.04 0.04
Matches are distributed among these distances:
18 8 0.35
19 15 0.65
ACGTcount: A:0.65, C:0.00, G:0.02, T:0.33
Consensus pattern (18 bp):
TAATAATATTAATAAAAA
Found at i:1055213 original size:74 final size:73
Alignment explanation
Indices: 1054990--1055419 Score: 682
Period size: 74 Copynumber: 5.8 Consensus size: 73
1054980 AGAGGTCTTA
*
1054990 AGGCTTTAAAATCAAAAAGCTCCTGAAGGCTTTTTGAAAACATCATGCACTGTAGGTCTTACAGA
1 AGGCTTTAAAATCAAAAAGCTCCCGAAGGCTTTTTGAAAACATCATGCACTGTAGGTCTTACAGA
1055055 TGACCCTG
66 TGACCCTG
* * * *
1055063 AGGCTTTAAGATCAAAAAGCTCCCGAAGGCTTTTTGAAAACATCCTGTACTGTAAGTCTTACAGA
1 AGGCTTTAAAATCAAAAAGCTCCCGAAGGCTTTTTGAAAACATCATGCACTGTAGGTCTTACAGA
*
1055128 GGACCCTG
66 TGACCCTG
1055136 AGGCTTTAAAATCAAAAAGCTCCCGAAGGCTTTTTTGAAAACATCATGCACTGTAGGTCTTACAG
1 AGGCTTTAAAATCAAAAAGCTCCCGAAGGC-TTTTTGAAAACATCATGCACTGTAGGTCTTACAG
1055201 ATGACCCTG
65 ATGACCCTG
* *
1055210 AGGCTTTAAAATCAAAAAGCTCCTGAAGGCTTTTTTGAAAACATCATGCATTGTAGGTCTTACAG
1 AGGCTTTAAAATCAAAAAGCTCCCGAAGGC-TTTTTGAAAACATCATGCACTGTAGGTCTTACAG
1055275 ATGACCCTG
65 ATGACCCTG
* *
1055284 AGGCTTTAAAATCAAAAAGCTCCTGAAGGC-TTTTGAAAACATCATGCACTATAGGTCTTACAGA
1 AGGCTTTAAAATCAAAAAGCTCCCGAAGGCTTTTTGAAAACATCATGCACTGTAGGTCTTACAGA
* *
1055348 TGATCCTA
66 TGACCCTG
* *
1055356 AGGCTTTAAAATCAAAAAGCTCCCGAAGGTTTTTTTTTGAAAACATCATGCACTATAGGTCTTA
1 AGGCTTTAAAATCAAAAAGCTCCCGAAGG---CTTTTTGAAAACATCATGCACTGTAGGTCTTA
1055420 AAGTTGTAGG
Statistics
Matches: 333, Mismatches: 19, Indels: 7
0.93 0.05 0.02
Matches are distributed among these distances:
72 66 0.20
73 96 0.29
74 141 0.42
76 30 0.09
ACGTcount: A:0.33, C:0.20, G:0.18, T:0.28
Consensus pattern (73 bp):
AGGCTTTAAAATCAAAAAGCTCCCGAAGGCTTTTTGAAAACATCATGCACTGTAGGTCTTACAGA
TGACCCTG
Found at i:1056118 original size:22 final size:21
Alignment explanation
Indices: 1056090--1056167 Score: 120
Period size: 22 Copynumber: 3.6 Consensus size: 21
1056080 AATAAAGTTT
1056090 TCATCTTTGTAAAGAGAATCTA
1 TCATCTTTG-AAAGAGAATCTA
1056112 TCATCTTTGAAAAGAGAATCTA
1 TCATCTTTG-AAAGAGAATCTA
*
1056134 TCATCTTTGAAGAGAAAATCTA
1 TCATCTTTGAA-AGAGAATCTA
1056156 TCATCTTTGAAA
1 TCATCTTTGAAA
1056168 AATATAGATG
Statistics
Matches: 53, Mismatches: 2, Indels: 3
0.91 0.03 0.05
Matches are distributed among these distances:
21 3 0.06
22 50 0.94
ACGTcount: A:0.38, C:0.14, G:0.13, T:0.35
Consensus pattern (21 bp):
TCATCTTTGAAAGAGAATCTA
Found at i:1060914 original size:19 final size:19
Alignment explanation
Indices: 1060892--1060929 Score: 51
Period size: 19 Copynumber: 2.1 Consensus size: 19
1060882 TTTTCCTCAC
*
1060892 TTTTTCCTT-TTTCATCTT
1 TTTTTTCTTCTTTCATCTT
*
1060910 TTTTTTCTTCTTTCTTCTT
1 TTTTTTCTTCTTTCATCTT
1060929 T
1 T
1060930 CTTTGCTGGA
Statistics
Matches: 17, Mismatches: 2, Indels: 1
0.85 0.10 0.05
Matches are distributed among these distances:
18 8 0.47
19 9 0.53
ACGTcount: A:0.03, C:0.21, G:0.00, T:0.76
Consensus pattern (19 bp):
TTTTTTCTTCTTTCATCTT
Found at i:1066301 original size:27 final size:26
Alignment explanation
Indices: 1066234--1066301 Score: 84
Period size: 27 Copynumber: 2.5 Consensus size: 26
1066224 ATGAAATTTA
*
1066234 AATAAAATAAAAATATTAATAAAAAT
1 AATATAATAAAAATATTAATAAAAAT
*
1066260 AATATACATATAAATATT-ATAAAAAT
1 AATATA-ATAAAAATATTAATAAAAAT
1066286 AATAAGTAATAAAAAT
1 AAT-A-TAATAAAAAT
1066302 TTTGAAAGAA
Statistics
Matches: 36, Mismatches: 3, Indels: 5
0.82 0.07 0.11
Matches are distributed among these distances:
26 16 0.44
27 18 0.50
28 2 0.06
ACGTcount: A:0.68, C:0.01, G:0.01, T:0.29
Consensus pattern (26 bp):
AATATAATAAAAATATTAATAAAAAT
Found at i:1067218 original size:18 final size:18
Alignment explanation
Indices: 1067192--1067229 Score: 51
Period size: 18 Copynumber: 2.1 Consensus size: 18
1067182 ATATTAAAAA
*
1067192 TAAATAAATAT-TATTATT
1 TAAACAAATATATA-TATT
1067210 TAAACAAATATATATATT
1 TAAACAAATATATATATT
1067228 TA
1 TA
1067230 TAAGACTAAG
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
18 16 0.89
19 2 0.11
ACGTcount: A:0.53, C:0.03, G:0.00, T:0.45
Consensus pattern (18 bp):
TAAACAAATATATATATT
Found at i:1067259 original size:16 final size:16
Alignment explanation
Indices: 1067240--1067331 Score: 53
Period size: 16 Copynumber: 5.4 Consensus size: 16
1067230 TAAGACTAAG
1067240 ATAAAATAATAATAAA
1 ATAAAATAATAATAAA
*
1067256 ATAAAA-ATTAATGCAATA
1 ATAAAATAATAAT--AA-A
*
1067274 ATCAAAATATTAACTAATA
1 AT-AAAATAATAA-TAA-A
* *
1067293 ATAAAATAATATTGCAA
1 ATAAAATAATAAT-AAA
*
1067310 AT-AAATAATGATTAAA
1 ATAAAATAAT-AATAAA
1067326 ATAAAA
1 ATAAAA
1067332 GAAATTAAAA
Statistics
Matches: 62, Mismatches: 5, Indels: 17
0.74 0.06 0.20
Matches are distributed among these distances:
15 5 0.08
16 17 0.27
17 12 0.19
18 12 0.19
19 10 0.16
20 5 0.08
21 1 0.02
ACGTcount: A:0.64, C:0.04, G:0.03, T:0.28
Consensus pattern (16 bp):
ATAAAATAATAATAAA
Found at i:1067291 original size:24 final size:23
Alignment explanation
Indices: 1067247--1067291 Score: 54
Period size: 24 Copynumber: 1.9 Consensus size: 23
1067237 AAGATAAAAT
*
1067247 AATAATAAAATAAAAATTAATGC
1 AATAATAAAATAAAAACTAATGC
**
1067270 AATAATCAAAATATTAACTAAT
1 AATAAT-AAAATAAAAACTAAT
1067292 AATAAAATAA
Statistics
Matches: 18, Mismatches: 3, Indels: 1
0.82 0.14 0.05
Matches are distributed among these distances:
23 6 0.33
24 12 0.67
ACGTcount: A:0.62, C:0.07, G:0.02, T:0.29
Consensus pattern (23 bp):
AATAATAAAATAAAAACTAATGC
Found at i:1067298 original size:18 final size:17
Alignment explanation
Indices: 1067240--1067300 Score: 63
Period size: 19 Copynumber: 3.5 Consensus size: 17
1067230 TAAGACTAAG
*
1067240 ATAAAATAATAATAA-A
1 ATAAAATATTAATAATA
1067256 ATAAAA-ATTAATGCAATA
1 ATAAAATATTAAT--AATA
1067274 ATCAAAATATTAACTAATA
1 AT-AAAATATTAA-TAATA
1067293 ATAAAATA
1 ATAAAATA
1067301 ATATTGCAAA
Statistics
Matches: 38, Mismatches: 1, Indels: 10
0.78 0.02 0.20
Matches are distributed among these distances:
15 5 0.13
16 6 0.16
17 2 0.05
18 9 0.24
19 10 0.26
20 5 0.13
21 1 0.03
ACGTcount: A:0.66, C:0.05, G:0.02, T:0.28
Consensus pattern (17 bp):
ATAAAATATTAATAATA
Found at i:1068686 original size:3 final size:3
Alignment explanation
Indices: 1068664--1068742 Score: 113
Period size: 3 Copynumber: 26.0 Consensus size: 3
1068654 AATATTTATT
* * *
1068664 TAA TAA TAT TAA TAA AAA TAA TAA TGTA TAA TAA TAA TAA TAA TAA
1 TAA TAA TAA TAA TAA TAA TAA TAA T-AA TAA TAA TAA TAA TAA TAA
*
1068710 TAA TAA TAA TAA TAA TAA TAA TAA TAA AAA TAA
1 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA
1068743 AAACAAATTG
Statistics
Matches: 67, Mismatches: 8, Indels: 2
0.87 0.10 0.03
Matches are distributed among these distances:
3 65 0.97
4 2 0.03
ACGTcount: A:0.66, C:0.00, G:0.01, T:0.33
Consensus pattern (3 bp):
TAA
Found at i:1070216 original size:32 final size:32
Alignment explanation
Indices: 1070180--1070290 Score: 123
Period size: 32 Copynumber: 3.5 Consensus size: 32
1070170 AGAAGTAAAG
1070180 TGGCTGATTATTCATTCTACCCATTGTTTAAC
1 TGGCTGATTATTCATTCTACCCATTGTTTAAC
* * * *
1070212 TGGCTTACTCTTCATTCTCCCCATTGTTTAAC
1 TGGCTGATTATTCATTCTACCCATTGTTTAAC
** * * *
1070244 TGATTGATTATTCATTCTATCTATTGTTTAAA
1 TGGCTGATTATTCATTCTACCCATTGTTTAAC
* *
1070276 TGGTTGATTCTTCAT
1 TGGCTGATTATTCAT
1070291 GTAAAATTAA
Statistics
Matches: 64, Mismatches: 15, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
32 64 1.00
ACGTcount: A:0.21, C:0.20, G:0.12, T:0.48
Consensus pattern (32 bp):
TGGCTGATTATTCATTCTACCCATTGTTTAAC
Found at i:1071129 original size:30 final size:30
Alignment explanation
Indices: 1071095--1071171 Score: 136
Period size: 30 Copynumber: 2.6 Consensus size: 30
1071085 ATGGTCCAAA
1071095 TGACCGGTTTGACCGGTTTTGGAGCAAAGT
1 TGACCGGTTTGACCGGTTTTGGAGCAAAGT
* *
1071125 TGACCGGTTTGACCGGTTTTGGAGTAGAGT
1 TGACCGGTTTGACCGGTTTTGGAGCAAAGT
1071155 TGACCGGTTTGACCGGT
1 TGACCGGTTTGACCGGT
1071172 CACAACCTGA
Statistics
Matches: 45, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
30 45 1.00
ACGTcount: A:0.17, C:0.17, G:0.35, T:0.31
Consensus pattern (30 bp):
TGACCGGTTTGACCGGTTTTGGAGCAAAGT
Found at i:1071206 original size:13 final size:13
Alignment explanation
Indices: 1071179--1071256 Score: 56
Period size: 13 Copynumber: 5.9 Consensus size: 13
1071169 GGTCACAACC
*
1071179 TGACCCGA-ACGT
1 TGACCCGACCCGT
1071191 TGACCCGACCCGT
1 TGACCCGACCCGT
*
1071204 TGACCAGACCAGACCCTT
1 TGA-C---CC-GACCCGT
1071222 TGACCCGACCC--
1 TGACCCGACCCGT
1071233 -GACCCGACCCGT
1 TGACCCGACCCGT
*
1071245 TGACCTGACCCG
1 TGACCCGACCCG
1071257 ATCCGTTGAC
Statistics
Matches: 54, Mismatches: 3, Indels: 17
0.73 0.04 0.23
Matches are distributed among these distances:
10 10 0.19
12 8 0.15
13 21 0.39
14 3 0.06
17 3 0.06
18 9 0.17
ACGTcount: A:0.21, C:0.44, G:0.22, T:0.14
Consensus pattern (13 bp):
TGACCCGACCCGT
Found at i:1071218 original size:18 final size:18
Alignment explanation
Indices: 1071192--1071267 Score: 71
Period size: 18 Copynumber: 3.9 Consensus size: 18
1071182 CCCGAACGTT
1071192 GACCCGACCCGTTGACCA
1 GACCCGACCCGTTGACCA
* *
1071210 GACCAGACCCTTTGACCCGA
1 GACCCGACCCGTTGA-CC-A
*
1071230 CCCGACCCGACCCGTTGACCT
1 ---GACCCGACCCGTTGACCA
*
1071251 GACCCGATCCGTTGACC
1 GACCCGACCCGTTGACC
1071268 GACTCGTTGA
Statistics
Matches: 47, Mismatches: 6, Indels: 10
0.75 0.10 0.16
Matches are distributed among these distances:
18 29 0.62
19 2 0.04
20 1 0.02
22 2 0.04
23 13 0.28
ACGTcount: A:0.20, C:0.45, G:0.21, T:0.14
Consensus pattern (18 bp):
GACCCGACCCGTTGACCA
Found at i:1071255 original size:23 final size:23
Alignment explanation
Indices: 1071204--1071257 Score: 72
Period size: 23 Copynumber: 2.3 Consensus size: 23
1071194 CCCGACCCGT
* *
1071204 TGACCAGACCAGACCCTTTGACC
1 TGACCCGACCAGACCCGTTGACC
* *
1071227 CGACCCGACCCGACCCGTTGACC
1 TGACCCGACCAGACCCGTTGACC
1071250 TGACCCGA
1 TGACCCGA
1071258 TCCGTTGACC
Statistics
Matches: 26, Mismatches: 5, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
23 26 1.00
ACGTcount: A:0.22, C:0.44, G:0.20, T:0.13
Consensus pattern (23 bp):
TGACCCGACCAGACCCGTTGACC
Found at i:1074278 original size:63 final size:63
Alignment explanation
Indices: 1074176--1074299 Score: 153
Period size: 63 Copynumber: 2.0 Consensus size: 63
1074166 CTAATGTGAC
** * * *
1074176 TCTTAGGTAGGCTCTGCGGCCCTGAGATCATTCTCGGGTAGGCCCTGC-GGCCCTAAGATGTGT
1 TCTTAGGTAGGCTCCACGGCCCCGAAATCATTCTCGGGTAGGCACT-CAGGCCCTAAGATGTGT
* *
1074239 TCTTAGGTAGGCTCCATGGCCCCGAAATC-TATCTTGGGTAGGCACTCAGGCCCTAAGATGT
1 TCTTAGGTAGGCTCCACGGCCCCGAAATCAT-TCTCGGGTAGGCACTCAGGCCCTAAGATGT
1074300 TCCCTTAGGT
Statistics
Matches: 52, Mismatches: 7, Indels: 4
0.83 0.11 0.06
Matches are distributed among these distances:
62 2 0.04
63 50 0.96
ACGTcount: A:0.18, C:0.27, G:0.29, T:0.27
Consensus pattern (63 bp):
TCTTAGGTAGGCTCCACGGCCCCGAAATCATTCTCGGGTAGGCACTCAGGCCCTAAGATGTGT
Found at i:1075513 original size:43 final size:43
Alignment explanation
Indices: 1075432--1075527 Score: 104
Period size: 43 Copynumber: 2.2 Consensus size: 43
1075422 CTTGATAAAA
* * *
1075432 TAAATAAATTTAAATATAATATTTTATAATTCCATTATATATT
1 TAAATAATTTTAAATATAATATTTAATAATTCCATTATAGATT
* * ** *
1075475 TGAATAATTTTAAACTA-AATATTTAATATTTCTTTTATAGGTT
1 TAAATAATTTTAAA-TATAATATTTAATAATTCCATTATAGATT
1075518 TAAATAATTT
1 TAAATAATTT
1075528 AAAAGTTGAA
Statistics
Matches: 43, Mismatches: 9, Indels: 2
0.80 0.17 0.04
Matches are distributed among these distances:
43 41 0.95
44 2 0.05
ACGTcount: A:0.43, C:0.04, G:0.03, T:0.50
Consensus pattern (43 bp):
TAAATAATTTTAAATATAATATTTAATAATTCCATTATAGATT
Found at i:1077777 original size:26 final size:26
Alignment explanation
Indices: 1077748--1077801 Score: 108
Period size: 26 Copynumber: 2.1 Consensus size: 26
1077738 GTTTTTCTTT
1077748 CTCCAAAATCCTCTTGTATTTTATTC
1 CTCCAAAATCCTCTTGTATTTTATTC
1077774 CTCCAAAATCCTCTTGTATTTTATTC
1 CTCCAAAATCCTCTTGTATTTTATTC
1077800 CT
1 CT
1077802 TCATATTAGT
Statistics
Matches: 28, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
26 28 1.00
ACGTcount: A:0.22, C:0.28, G:0.04, T:0.46
Consensus pattern (26 bp):
CTCCAAAATCCTCTTGTATTTTATTC
Found at i:1083225 original size:113 final size:113
Alignment explanation
Indices: 1083027--1083252 Score: 434
Period size: 113 Copynumber: 2.0 Consensus size: 113
1083017 TACATTGGTA
* *
1083027 TTTATATTTCGATGGAAGCGGTCATTGGAAAACTGCTGAGACATTCGCACCTAAATCTATTTTCT
1 TTTATATTTCGATGGAAGCAGTCATTGGAAAACTGCTGAGACATTCGCACCTAAATCCATTTTCT
1083092 CGACCCCGGTAAGCTTCCTTTTAGTCGTACAGAGATCCTTCAAAAACC
66 CGACCCCGGTAAGCTTCCTTTTAGTCGTACAGAGATCCTTCAAAAACC
1083140 TTTATATTTCGATGGAAGCAGTCATTGGAAAACTGCTGAGACATTCGCACCTAAATCCATTTTCT
1 TTTATATTTCGATGGAAGCAGTCATTGGAAAACTGCTGAGACATTCGCACCTAAATCCATTTTCT
1083205 CGACCCCGGTAAGCTTCCTTTTAGTCGTACAGAGATCCTTCAAAAACC
66 CGACCCCGGTAAGCTTCCTTTTAGTCGTACAGAGATCCTTCAAAAACC
1083253 GACAATACCT
Statistics
Matches: 111, Mismatches: 2, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
113 111 1.00
ACGTcount: A:0.28, C:0.24, G:0.17, T:0.31
Consensus pattern (113 bp):
TTTATATTTCGATGGAAGCAGTCATTGGAAAACTGCTGAGACATTCGCACCTAAATCCATTTTCT
CGACCCCGGTAAGCTTCCTTTTAGTCGTACAGAGATCCTTCAAAAACC
Found at i:1085159 original size:18 final size:15
Alignment explanation
Indices: 1085125--1085172 Score: 51
Period size: 19 Copynumber: 2.9 Consensus size: 15
1085115 TTTAAATAGT
1085125 AATAAAAAAAGATTA
1 AATAAAAAAAGATTA
1085140 AATAAAATAAAGCAATTA
1 AATAAAA-AAAG--ATTA
1085158 AAGTAAAAATAAGAT
1 AA-TAAAAA-AAGAT
1085173 GATAGAGATT
Statistics
Matches: 28, Mismatches: 0, Indels: 8
0.78 0.00 0.22
Matches are distributed among these distances:
15 7 0.25
16 4 0.14
17 2 0.07
18 7 0.25
19 8 0.29
ACGTcount: A:0.69, C:0.02, G:0.08, T:0.21
Consensus pattern (15 bp):
AATAAAAAAAGATTA
Found at i:1091655 original size:32 final size:31
Alignment explanation
Indices: 1091614--1091721 Score: 108
Period size: 32 Copynumber: 3.4 Consensus size: 31
1091604 CTAAGGTGAC
* * *
1091614 CTTGGGTAGGCTGTGAGGCCCCAAGGCATTTT
1 CTTGGGTAGGCTTTAAGGCCCCAAGGCA-CTT
*
1091646 CTTGGGTAGGCTTTAAGGCCCCAAGGTACTT
1 CTTGGGTAGGCTTTAAGGCCCCAAGGCACTT
* * * *
1091677 CATTGGGTAGGCTTTTAGGCCCTAAGGTACTCC
1 C-TTGGGTAGGCTTTAAGGCCCCAAGGCACT-T
*
1091710 CTTAGGTAGGCT
1 CTTGGGTAGGCT
1091722 CTCAAGCCCT
Statistics
Matches: 66, Mismatches: 8, Indels: 4
0.85 0.10 0.05
Matches are distributed among these distances:
31 3 0.05
32 62 0.94
33 1 0.02
ACGTcount: A:0.18, C:0.22, G:0.31, T:0.30
Consensus pattern (31 bp):
CTTGGGTAGGCTTTAAGGCCCCAAGGCACTT
Found at i:1091731 original size:32 final size:31
Alignment explanation
Indices: 1091650--1091748 Score: 90
Period size: 32 Copynumber: 3.1 Consensus size: 31
1091640 CATTTTCTTG
* * * *
1091650 GGTAGGCTTTAAGGCCCCAAGGTACTTCATTG
1 GGTAGGCTTTAA-GCCCTAAGGTACTCCCTTA
*
1091682 GGTAGGCTTTTAGGCCCTAAGGTACTCCCTTA
1 GGTAGGC-TTTAAGCCCTAAGGTACTCCCTTA
* * * *
1091714 GGTAGGCTCTCAAGCCCTATGATATTCCCTTA
1 GGTAGGCT-TTAAGCCCTAAGGTACTCCCTTA
1091746 GGT
1 GGT
1091749 TGGCACCTAC
Statistics
Matches: 55, Mismatches: 10, Indels: 4
0.80 0.14 0.06
Matches are distributed among these distances:
31 1 0.02
32 50 0.91
33 4 0.07
ACGTcount: A:0.20, C:0.24, G:0.25, T:0.30
Consensus pattern (31 bp):
GGTAGGCTTTAAGCCCTAAGGTACTCCCTTA
Found at i:1098867 original size:2 final size:2
Alignment explanation
Indices: 1098862--1098895 Score: 68
Period size: 2 Copynumber: 17.0 Consensus size: 2
1098852 ATATTCATCC
1098862 AT AT AT 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 AT AT AT
1098896 TAAAAAAATA
Statistics
Matches: 32, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 32 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:1099647 original size:87 final size:87
Alignment explanation
Indices: 1099501--1099677 Score: 336
Period size: 87 Copynumber: 2.0 Consensus size: 87
1099491 TCCGAGACAG
1099501 ATGATGCTGAGCTGTCAGATTGCACGTTGATGGCGCTGAGATACCATGAGTTGGCAGATCAGCGC
1 ATGATGCTGAGCTGTCAGATTGCACGTTGATGGCGCTGAGATACCATGAGTTGGCAGATCAGCGC
**
1099566 AAAGGCGGGAATTGATTGTGAC
66 AAAGGCAAGAATTGATTGTGAC
1099588 ATGATGCTGAGCTGTCAGATTGCACGTTGATGGCGCTGAGATACCATGAGTTGGCAGATCAGCGC
1 ATGATGCTGAGCTGTCAGATTGCACGTTGATGGCGCTGAGATACCATGAGTTGGCAGATCAGCGC
1099653 AAAGGCAAGAATTGATTGTGAC
66 AAAGGCAAGAATTGATTGTGAC
1099675 ATG
1 ATG
1099678 TTCCTCATTG
Statistics
Matches: 88, Mismatches: 2, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
87 88 1.00
ACGTcount: A:0.27, C:0.17, G:0.32, T:0.24
Consensus pattern (87 bp):
ATGATGCTGAGCTGTCAGATTGCACGTTGATGGCGCTGAGATACCATGAGTTGGCAGATCAGCGC
AAAGGCAAGAATTGATTGTGAC
Found at i:1104069 original size:38 final size:37
Alignment explanation
Indices: 1104022--1104103 Score: 101
Period size: 37 Copynumber: 2.2 Consensus size: 37
1104012 ATTCTAAATA
* * * *
1104022 TTCGGGTCAGGTCAAAGTCGATTGGAGGATATATATTT
1 TTCGAGTCAGGTCAAA-TCGATTGAAAGATATATAATT
* *
1104060 TTCGAGTCAGTTTAAATCGATTGAAAGATATATAATT
1 TTCGAGTCAGGTCAAATCGATTGAAAGATATATAATT
1104097 TTCGAGT
1 TTCGAGT
1104104 TAAATCGAAT
Statistics
Matches: 38, Mismatches: 6, Indels: 1
0.84 0.13 0.02
Matches are distributed among these distances:
37 25 0.66
38 13 0.34
ACGTcount: A:0.30, C:0.10, G:0.23, T:0.37
Consensus pattern (37 bp):
TTCGAGTCAGGTCAAATCGATTGAAAGATATATAATT
Found at i:1105292 original size:30 final size:27
Alignment explanation
Indices: 1105232--1105292 Score: 68
Period size: 30 Copynumber: 2.1 Consensus size: 27
1105222 ATTAGAATTT
* *
1105232 AAATTTTTTAATATTTGATTCAAGTAA
1 AAATTTTTTAATATTTGATTAAAATAA
*
1105259 AAATATTTTTAATATTTTTATTTAAAATAA
1 AAAT-TTTTTAATA-TTTGA-TTAAAATAA
1105289 AAAT
1 AAAT
1105293 CGTAATTTTA
Statistics
Matches: 28, Mismatches: 3, Indels: 3
0.82 0.09 0.09
Matches are distributed among these distances:
27 4 0.14
28 9 0.32
29 4 0.14
30 11 0.39
ACGTcount: A:0.46, C:0.02, G:0.03, T:0.49
Consensus pattern (27 bp):
AAATTTTTTAATATTTGATTAAAATAA
Found at i:1108438 original size:183 final size:182
Alignment explanation
Indices: 1107922--1108578 Score: 944
Period size: 182 Copynumber: 3.6 Consensus size: 182
1107912 CAAATGAAAT
* * *
1107922 ATGTATCGCTCCATAGCAATATTACAGGTAAAAATATGATAAAACCGGTCTCAAAATGACAAAAC
1 ATGTATCGATCCATAACAATATAACAGGTAAAAATATGATAAAACCGGTCTCAAAATGACAAAAC
* *
1107987 CGGTAAAACGCTACCAGATATGTTGAAAGTGTCGATAATTTAATATAAGTATCGACACTTTCT-G
66 CGGTAAAAAGCTACCGGATATGTTGAAAGTGTCGATAATTTAATATAAGTATCGACACTTT-TGG
* * * *
1108051 AATTTAAAAGAGAAGAAGTTATAGCGCTTAAAAAGTGTCGACAC-TTTATGAAA
130 AATTTAAAAGAGAAGAAGTTATAGCGCCTATAAAGTGTCGATACTTTTA-AAAA
* *
1108104 ATGTATCGATCCATAACAATATAACAGTTAAAAATATAATAAAACCGGTCTCAAAATGACAAAAC
1 ATGTATCGATCCATAACAATATAACAGGTAAAAATATGATAAAACCGGTCTCAAAATGACAAAAC
* * * *
1108169 AGATAAATAA-CTACCGAATATGTTGAAAGTGTCGATACTTTAATATAAGTATCGACACTTTTGG
66 CGGTAAA-AAGCTACCGGATATGTTGAAAGTGTCGATAATTTAATATAAGTATCGACACTTTTGG
*
1108233 AATTTAAAAGAGAAGAAGTTATAGAGCCTATAAAGTGTCGATACTTTTAAAAA
130 AATTTAAAAGAGAAGAAGTTATAGCGCCTATAAAGTGTCGATACTTTTAAAAA
* * **
1108286 ATGTATCGATCCATAATAATATAACAGGTAAAAATATGACAAAACATGTCTCAAAAATGACAAAA
1 ATGTATCGATCCATAACAATATAACAGGTAAAAATATGATAAAACCGGTCTC-AAAATGACAAAA
* *
1108351 CCGGTAAAAAGATACTGGATATGTTGAAAGTGTCGATAATTTAATATAAGTATCGACACTTTTGG
65 CCGGTAAAAAGCTACCGGATATGTTGAAAGTGTCGATAATTTAATATAAGTATCGACACTTTTGG
* *
1108416 AATTTAAAAGAGAATAAGTTATAGCGTCTATAAAGTGTCGATACTTTTAAAAA
130 AATTTAAAAGAGAAGAAGTTATAGCGCCTATAAAGTGTCGATACTTTTAAAAA
* * * *
1108469 ATGTATCGATCCATAATAATATAACATGCAAAAATATGATAAAACCGGTCTCAAAATAACAAAAC
1 ATGTATCGATCCATAACAATATAACAGGTAAAAATATGATAAAACCGGTCTCAAAATGACAAAAC
* * * * *
1108534 CGGTAAAGCA-CTACCGTATATGTTGAGAGTGTAGATACTTTAATA
66 CGGTAAA-AAGCTACCGGATATGTTGAAAGTGTCGATAATTTAATA
1108579 AGTACGCGTA
Statistics
Matches: 425, Mismatches: 44, Indels: 12
0.88 0.09 0.02
Matches are distributed among these distances:
181 1 0.00
182 253 0.60
183 171 0.40
ACGTcount: A:0.44, C:0.13, G:0.16, T:0.28
Consensus pattern (182 bp):
ATGTATCGATCCATAACAATATAACAGGTAAAAATATGATAAAACCGGTCTCAAAATGACAAAAC
CGGTAAAAAGCTACCGGATATGTTGAAAGTGTCGATAATTTAATATAAGTATCGACACTTTTGGA
ATTTAAAAGAGAAGAAGTTATAGCGCCTATAAAGTGTCGATACTTTTAAAAA
Found at i:1108573 original size:365 final size:364
Alignment explanation
Indices: 1107922--1108578 Score: 1007
Period size: 365 Copynumber: 1.8 Consensus size: 364
1107912 CAAATGAAAT
* * * * *
1107922 ATGTATCGCTCCATAGCAATATTACAGGTAAAAATATGATAAAACCGGTCTCAAAATGACAAAAC
1 ATGTATCGATCCATAACAATATAACAGGTAAAAATATGACAAAACAGGTCTCAAAATGACAAAAC
* *
1107987 CGGTAAAACGCTACCAGATATGTTGAAAGTGTCGATAATTTAATATAAGTATCGACACTTTCTGA
66 CGGTAAAAAGATACCAGATATGTTGAAAGTGTCGATAATTTAATATAAGTATCGACACTTTCTGA
*
1108052 ATTTAAAAGAGAAGAAGTTATAGCGCTTAAAAAGTGTCGACACTTTATGAAAATGTATCGATCCA
131 ATTTAAAAGAGAAGAAGTTATAGCGCTTAAAAAGTGTCGACACTTTATAAAAATGTATCGATCCA
* * *
1108117 TAACAATATAACAGTTAAAAATATAATAAAACCGGTCTCAAAATGACAAAACAGATAAATAACTA
196 TAACAATATAACAGTCAAAAATATAATAAAACCGGTCTCAAAATAACAAAACAGATAAAGAACTA
*
1108182 CCGAATATGTTGAAAGTGTCGATACTTTAATATAAGTATCGACACTTTTGGAATTTAAAAGAGAA
261 CCGAATATGTTGAAAGTGTAGATACTTTAATATAAGTATCGACACTTTTGGAATTTAAAAGAGAA
1108247 GAAGTTATAGAGCCTATAAAGTGTCGATACTTTTAAAAA
326 GAAGTTATAGAGCCTATAAAGTGTCGATACTTTTAAAAA
* *
1108286 ATGTATCGATCCATAATAATATAACAGGTAAAAATATGACAAAACATGTCTCAAAAATGACAAAA
1 ATGTATCGATCCATAACAATATAACAGGTAAAAATATGACAAAACAGGTCTC-AAAATGACAAAA
**
1108351 CCGGTAAAAAGATACTGGATATGTTGAAAGTGTCGATAATTTAATATAAGTATCGACACTTT-TG
65 CCGGTAAAAAGATACCAGATATGTTGAAAGTGTCGATAATTTAATATAAGTATCGACACTTTCT-
* * *
1108415 GAATTTAAAAGAGAATAAGTTATAGCG-TCTATAAAGTGTCGATACTTT-TAAAAAATGTATCGA
129 GAATTTAAAAGAGAAGAAGTTATAGCGCT-TAAAAAGTGTCGACACTTTAT-AAAAATGTATCGA
* * * *
1108478 TCCATAATAATATAACA-TGCAAAAATATGATAAAACCGGTCTCAAAATAACAAAACCGGTAAAG
192 TCCATAACAATATAACAGT-CAAAAATATAATAAAACCGGTCTCAAAATAACAAAACAGATAAAG
* * *
1108542 CACTACCGTATATGTTGAGAGTGTAGATACTTTAATA
256 AACTACCGAATATGTTGAAAGTGTAGATACTTTAATA
1108579 AGTACGCGTA
Statistics
Matches: 262, Mismatches: 26, Indels: 9
0.88 0.09 0.03
Matches are distributed among these distances:
364 49 0.19
365 213 0.81
ACGTcount: A:0.44, C:0.13, G:0.16, T:0.28
Consensus pattern (364 bp):
ATGTATCGATCCATAACAATATAACAGGTAAAAATATGACAAAACAGGTCTCAAAATGACAAAAC
CGGTAAAAAGATACCAGATATGTTGAAAGTGTCGATAATTTAATATAAGTATCGACACTTTCTGA
ATTTAAAAGAGAAGAAGTTATAGCGCTTAAAAAGTGTCGACACTTTATAAAAATGTATCGATCCA
TAACAATATAACAGTCAAAAATATAATAAAACCGGTCTCAAAATAACAAAACAGATAAAGAACTA
CCGAATATGTTGAAAGTGTAGATACTTTAATATAAGTATCGACACTTTTGGAATTTAAAAGAGAA
GAAGTTATAGAGCCTATAAAGTGTCGATACTTTTAAAAA
Found at i:1109698 original size:23 final size:23
Alignment explanation
Indices: 1109642--1109698 Score: 69
Period size: 23 Copynumber: 2.4 Consensus size: 23
1109632 TTTATGAGAA
1109642 AATATGTTAATATAAACGCTACCT
1 AATATGTT-ATATAAACGCTACCT
* ** *
1109666 ATTACATTATATAAGCGCTACCT
1 AATATGTTATATAAACGCTACCT
1109689 AATATGTTAT
1 AATATGTTAT
1109699 TGTACTTGAT
Statistics
Matches: 26, Mismatches: 7, Indels: 1
0.76 0.21 0.03
Matches are distributed among these distances:
23 21 0.81
24 5 0.19
ACGTcount: A:0.39, C:0.16, G:0.09, T:0.37
Consensus pattern (23 bp):
AATATGTTATATAAACGCTACCT
Found at i:1109785 original size:23 final size:23
Alignment explanation
Indices: 1109735--1109779 Score: 72
Period size: 23 Copynumber: 2.0 Consensus size: 23
1109725 TGCATATTTT
*
1109735 ATTATATAAGCGCTACCTATTAC
1 ATTATATAAGCGCTACCTAATAC
*
1109758 ATTATATAAGCGCTATCTAATA
1 ATTATATAAGCGCTACCTAATA
1109780 TGTTATTGTG
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
23 20 1.00
ACGTcount: A:0.38, C:0.18, G:0.09, T:0.36
Consensus pattern (23 bp):
ATTATATAAGCGCTACCTAATAC
Found at i:1109810 original size:87 final size:87
Alignment explanation
Indices: 1109651--1109812 Score: 270
Period size: 87 Copynumber: 1.9 Consensus size: 87
1109641 AAATATGTTA
1109651 ATATAAACGCTACCTATTACATTATATAAGCGCTACCTAATATGTTATTGTACTTGATAATATTT
1 ATATAAACGCTACCTATTACATTATATAAGCGCTACCTAATATGTTATTGTACTTGATAATATTT
**
1109716 CCGGTTAAATGCATATTTTATT
66 CAAGTTAAATGCATATTTTATT
* * *
1109738 ATATAAGCGCTACCTATTACATTATATAAGCGCTATCTAATATGTTATTGTGCTTGATAATATTT
1 ATATAAACGCTACCTATTACATTATATAAGCGCTACCTAATATGTTATTGTACTTGATAATATTT
*
1109803 TAAGTTAAAT
66 CAAGTTAAAT
1109813 AATATAATAT
Statistics
Matches: 69, Mismatches: 6, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
87 69 1.00
ACGTcount: A:0.34, C:0.14, G:0.11, T:0.41
Consensus pattern (87 bp):
ATATAAACGCTACCTATTACATTATATAAGCGCTACCTAATATGTTATTGTACTTGATAATATTT
CAAGTTAAATGCATATTTTATT
Found at i:1121887 original size:3 final size:3
Alignment explanation
Indices: 1121879--1121920 Score: 57
Period size: 3 Copynumber: 13.7 Consensus size: 3
1121869 TGGATATGTA
* *
1121879 AAT AAT AAT AAT AAT AAT AAT AAT ACT AAAT ATT AAT AAT AA
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT -AAT AAT AAT AAT AA
1121921 CCCGGATAAA
Statistics
Matches: 34, Mismatches: 4, Indels: 2
0.85 0.10 0.05
Matches are distributed among these distances:
3 32 0.94
4 2 0.06
ACGTcount: A:0.64, C:0.02, G:0.00, T:0.33
Consensus pattern (3 bp):
AAT
Found at i:1131868 original size:13 final size:13
Alignment explanation
Indices: 1131831--1131870 Score: 55
Period size: 14 Copynumber: 3.1 Consensus size: 13
1131821 TTGATATTAA
1131831 AAAATAAATA-TT
1 AAAATAAATATTT
*
1131843 AAAATAATTTATTT
1 AAAATAA-ATATTT
1131857 AAAATAAATATTT
1 AAAATAAATATTT
1131870 A
1 A
1131871 TTTATTATAT
Statistics
Matches: 24, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
12 7 0.29
13 8 0.33
14 9 0.38
ACGTcount: A:0.60, C:0.00, G:0.00, T:0.40
Consensus pattern (13 bp):
AAAATAAATATTT
Found at i:1133322 original size:3 final size:3
Alignment explanation
Indices: 1133314--1133363 Score: 82
Period size: 3 Copynumber: 16.7 Consensus size: 3
1133304 TTAATATTTT
* *
1133314 TAA TAA TAA TAA TAA TGA TAA TAA TAA TAA TAA TAA TAA TAA TTA TAA
1 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA
1133362 TA
1 TA
1133364 TGGGTAAAAA
Statistics
Matches: 43, Mismatches: 4, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
3 43 1.00
ACGTcount: A:0.62, C:0.00, G:0.02, T:0.36
Consensus pattern (3 bp):
TAA
Found at i:1133920 original size:113 final size:112
Alignment explanation
Indices: 1133682--1134573 Score: 1534
Period size: 113 Copynumber: 7.9 Consensus size: 112
1133672 TAGAATTATG
* * * * * *
1133682 CAAAAAGTTGAACAAGTTCTTCTTATTATGAACTTCTTCTTTCTTCTTCAGATGAGTTTTTTTCA
1 CAAAAGGTTGAACAAATTCTTCTCATTATGAACTTCTTCTTCCTTCTTCAGATGAGTTCTTCTCA
* * *
1133747 TTATGAAC-TTCTCTGGAAAAGATAATCCATCAATTGATGAATTTAGG
66 TTATGAACTTTCTCTGGAAAA-ATAATCCATCAAGTGATGAATTCAGA
*
1133794 TAAAAGGTTGAACAAATTCTTCTCATTATGAACTTCTTCTTCCTTCTTCAGATGAGTTCTTCTCA
1 CAAAAGGTTGAACAAATTCTTCTCATTATGAACTTCTTCTTCCTTCTTCAGATGAGTTCTTCTCA
* * *
1133859 TTATGAACTTTCTCTGGAAAAGATAATCCATCAATTGATGAATTTAGG
66 TTATGAACTTTCTCTGGAAAA-ATAATCCATCAAGTGATGAATTCAGA
*
1133907 TAAAAGGTTGAACAAATTCTTCTCATTATGAACTTCTTCTTCCTTCTTCAGATGAGTTCTTCTCA
1 CAAAAGGTTGAACAAATTCTTCTCATTATGAACTTCTTCTTCCTTCTTCAGATGAGTTCTTCTCA
1133972 TTATGAACTTTCTCTGGAAAAGATAATCCATCAAGTGATGAATTCAGA
66 TTATGAACTTTCTCTGGAAAA-ATAATCCATCAAGTGATGAATTCAGA
1134020 CAAAAGGTTGAACAAATTCTTCTCATTATGAACTTCTTCTTCCTTCTTCAGATGAGTTCTTCTCA
1 CAAAAGGTTGAACAAATTCTTCTCATTATGAACTTCTTCTTCCTTCTTCAGATGAGTTCTTCTCA
1134085 TTATGAACTTTCTCTGGCAAAAATAATCCATCAAGTGATGAATTCAGA
66 TTATGAACTTTCTCTGG-AAAAATAATCCATCAAGTGATGAATTCAGA
*
1134133 CAAAAGGTTGAACAAATTCTTCTCATTATGAATTTCTTCTTCCTTCTTCAGATGAGTTCTTCTCA
1 CAAAAGGTTGAACAAATTCTTCTCATTATGAACTTCTTCTTCCTTCTTCAGATGAGTTCTTCTCA
1134198 TTATGAACTTTCTCTGGCAAAAATAATCCATCAAGTGATGAATTCAGA
66 TTATGAACTTTCTCTGG-AAAAATAATCCATCAAGTGATGAATTCAGA
1134246 CAAAAGGTTGAACAAATTCTTCTCATTATGAACTTCTTCTTCCTTCTTCAGATGAGTTCTTCTCA
1 CAAAAGGTTGAACAAATTCTTCTCATTATGAACTTCTTCTTCCTTCTTCAGATGAGTTCTTCTCA
*
1134311 TTATGAACTTTCTCTGGCAAAATAATCCATCAAGTGATGAATTCAGA
66 TTATGAACTTTCTCTGGAAAAATAATCCATCAAGTGATGAATTCAGA
1134358 CAAAAGGTTGAACAAATTCTTCTCATTATGAACTTCTTCTTCCTTCTTCAGATGAGTTCTTCTCA
1 CAAAAGGTTGAACAAATTCTTCTCATTATGAACTTCTTCTTCCTTCTTCAGATGAGTTCTTCTCA
*
1134423 TTATGAACTTTCTCTGGCAAAATAATCCATCAAGTGATGAATTCAGA
66 TTATGAACTTTCTCTGGAAAAATAATCCATCAAGTGATGAATTCAGA
1134470 CAAAAGGTTGAACAAATTCTTCTCATTATGAACTTCTTCTTCCTTCTTCAGATGAGTTCTTCTCA
1 CAAAAGGTTGAACAAATTCTTCTCATTATGAACTTCTTCTTCCTTCTTCAGATGAGTTCTTCTCA
* ** *
1134535 TTATGAACCTTCTCTGGAAATGTCAATCCATCAAATGAT
66 TTATGAACTTTCTCTGGAAAAAT-AATCCATCAAGTGAT
1134574 AGATTTGAAT
Statistics
Matches: 758, Mismatches: 19, Indels: 5
0.97 0.02 0.01
Matches are distributed among these distances:
112 291 0.38
113 463 0.61
114 4 0.01
ACGTcount: A:0.30, C:0.19, G:0.13, T:0.38
Consensus pattern (112 bp):
CAAAAGGTTGAACAAATTCTTCTCATTATGAACTTCTTCTTCCTTCTTCAGATGAGTTCTTCTCA
TTATGAACTTTCTCTGGAAAAATAATCCATCAAGTGATGAATTCAGA
Found at i:1135510 original size:83 final size:83
Alignment explanation
Indices: 1135371--1135552 Score: 337
Period size: 83 Copynumber: 2.2 Consensus size: 83
1135361 TCTACTATGA
* *
1135371 GCAAATTCATCTTCCAAATTTAATGATTGGTTCTGTCCAACCAGATCAGATAACTCAAAGAACAC
1 GCAAATTCATCTTCCAAATTCAATGATTGATTCTGTCCAACCAGATCAGATAACTCAAAGAACAC
1135436 TTCCAGAAGATGCTATTG
66 TTCCAGAAGATGCTATTG
*
1135454 GCAAATTCATCTTCTAAATTCAATGATTGATTCTGTCCAACCAGATCAGATAACTCAAAGAACAC
1 GCAAATTCATCTTCCAAATTCAATGATTGATTCTGTCCAACCAGATCAGATAACTCAAAGAACAC
1135519 TTCCAGAAGATGCTATTG
66 TTCCAGAAGATGCTATTG
1135537 GCAAATTCATCTTCCA
1 GCAAATTCATCTTCCA
1135553 GTTAATGTTT
Statistics
Matches: 95, Mismatches: 4, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
83 95 1.00
ACGTcount: A:0.35, C:0.23, G:0.13, T:0.29
Consensus pattern (83 bp):
GCAAATTCATCTTCCAAATTCAATGATTGATTCTGTCCAACCAGATCAGATAACTCAAAGAACAC
TTCCAGAAGATGCTATTG
Found at i:1136701 original size:9 final size:9
Alignment explanation
Indices: 1136687--1136722 Score: 54
Period size: 9 Copynumber: 3.9 Consensus size: 9
1136677 TTGACCCCCA
1136687 TTTTTCTTT
1 TTTTTCTTT
1136696 TTTTTCTTTT
1 TTTTTC-TTT
1136706 TTTTTCTTT
1 TTTTTCTTT
*
1136715 CTTTTCTT
1 TTTTTCTT
1136723 CAAGCATAAT
Statistics
Matches: 25, Mismatches: 1, Indels: 2
0.89 0.04 0.07
Matches are distributed among these distances:
9 16 0.64
10 9 0.36
ACGTcount: A:0.00, C:0.14, G:0.00, T:0.86
Consensus pattern (9 bp):
TTTTTCTTT
Found at i:1136706 original size:10 final size:10
Alignment explanation
Indices: 1136687--1136719 Score: 50
Period size: 10 Copynumber: 3.3 Consensus size: 10
1136677 TTGACCCCCA
1136687 TTTTTC-TTT
1 TTTTTCTTTT
1136696 TTTTTCTTTT
1 TTTTTCTTTT
1136706 TTTTTCTTTCT
1 TTTTTCTTT-T
1136717 TTT
1 TTT
1136720 CTTCAAGCAT
Statistics
Matches: 22, Mismatches: 0, Indels: 2
0.92 0.00 0.08
Matches are distributed among these distances:
9 6 0.27
10 12 0.55
11 4 0.18
ACGTcount: A:0.00, C:0.12, G:0.00, T:0.88
Consensus pattern (10 bp):
TTTTTCTTTT
Found at i:1151884 original size:21 final size:21
Alignment explanation
Indices: 1151858--1151902 Score: 63
Period size: 21 Copynumber: 2.1 Consensus size: 21
1151848 GATTTCTGGG
* *
1151858 CAAGGGGAATCGGTACCCATT
1 CAAGGGGAACCGATACCCATT
*
1151879 CAAGGGGAACCGATACCCCTT
1 CAAGGGGAACCGATACCCATT
1151900 CAA
1 CAA
1151903 ACGAACAAAA
Statistics
Matches: 21, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
21 21 1.00
ACGTcount: A:0.31, C:0.29, G:0.24, T:0.16
Consensus pattern (21 bp):
CAAGGGGAACCGATACCCATT
Found at i:1152754 original size:31 final size:31
Alignment explanation
Indices: 1152716--1152840 Score: 198
Period size: 31 Copynumber: 4.0 Consensus size: 31
1152706 AGGGTCGAGG
*
1152716 GTTTACCTATGTTCTTCAGGACATATGGACT
1 GTTTACCTATGTTCTTCGGGACATATGGACT
1152747 GTTTACCTATGTTCTTCGGGACATATGGACT
1 GTTTACCTATGTTCTTCGGGACATATGGACT
1152778 GTTTACCTATGTTCTTCGGGACATATGGACT
1 GTTTACCTATGTTCTTCGGGACATATGGACT
* * *
1152809 GATTACCTAGGTTCTTCGGAATC-TATGGACT
1 GTTTACCTATGTTCTTCGGGA-CATATGGACT
1152840 G
1 G
1152841 GTCCTTCGGG
Statistics
Matches: 89, Mismatches: 4, Indels: 2
0.94 0.04 0.02
Matches are distributed among these distances:
31 88 0.99
32 1 0.01
ACGTcount: A:0.21, C:0.19, G:0.22, T:0.38
Consensus pattern (31 bp):
GTTTACCTATGTTCTTCGGGACATATGGACT
Found at i:1156356 original size:70 final size:70
Alignment explanation
Indices: 1156260--1156394 Score: 234
Period size: 70 Copynumber: 1.9 Consensus size: 70
1156250 TTTAAAACAA
* * *
1156260 CTCAAAGGAATACACAATCACTTGGAAACAATATAGTTGTTGTGGGTTAATTTGATTTATATTTT
1 CTCAAAGGAATACACAACCACATGGAAACAATATAGTAGTTGTGGGTTAATTTGATTTATATTTT
1156325 TACAT
66 TACAT
*
1156330 CTCAGAGGAATACACAACCACATGGAAACAATATAGTAGTTGTGGGTTAATTTGATTTATATTTT
1 CTCAAAGGAATACACAACCACATGGAAACAATATAGTAGTTGTGGGTTAATTTGATTTATATTTT
1156395 ACAACATCCA
Statistics
Matches: 61, Mismatches: 4, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
70 61 1.00
ACGTcount: A:0.35, C:0.12, G:0.17, T:0.36
Consensus pattern (70 bp):
CTCAAAGGAATACACAACCACATGGAAACAATATAGTAGTTGTGGGTTAATTTGATTTATATTTT
TACAT
Found at i:1169638 original size:20 final size:20
Alignment explanation
Indices: 1169610--1169659 Score: 66
Period size: 20 Copynumber: 2.5 Consensus size: 20
1169600 TTAAAATCAA
*
1169610 TATCAATACCAC-CCTACGAG
1 TATCGATACCACACCTAC-AG
1169630 TATCGATACCACACCTACAG
1 TATCGATACCACACCTACAG
*
1169650 TATGGATACC
1 TATCGATACC
1169660 CATTGCATGA
Statistics
Matches: 27, Mismatches: 2, Indels: 2
0.87 0.06 0.06
Matches are distributed among these distances:
20 22 0.81
21 5 0.19
ACGTcount: A:0.34, C:0.32, G:0.12, T:0.22
Consensus pattern (20 bp):
TATCGATACCACACCTACAG
Found at i:1173066 original size:20 final size:19
Alignment explanation
Indices: 1173038--1173087 Score: 55
Period size: 20 Copynumber: 2.5 Consensus size: 19
1173028 TTTTTCTAGA
* *
1173038 TTTAATTTTTCACAATCACT
1 TTTACTTTTTCAAAAT-ACT
*
1173058 TTTACTTTTTTGAAAATACT
1 TTTAC-TTTTTCAAAATACT
1173078 TTTACTTTTT
1 TTTACTTTTT
1173088 TACATTATTT
Statistics
Matches: 26, Mismatches: 3, Indels: 3
0.81 0.09 0.09
Matches are distributed among these distances:
19 5 0.19
20 12 0.46
21 9 0.35
ACGTcount: A:0.26, C:0.14, G:0.02, T:0.58
Consensus pattern (19 bp):
TTTACTTTTTCAAAATACT
Found at i:1183217 original size:15 final size:16
Alignment explanation
Indices: 1183175--1183219 Score: 51
Period size: 15 Copynumber: 2.9 Consensus size: 16
1183165 TGTTATATAT
1183175 GAATGTGTTCTACGTGAA
1 GAATGTGTTCTA--TGAA
1183193 GAA-G-GTTCTATG-A
1 GAATGTGTTCTATGAA
1183206 GAATGTGTTCTATG
1 GAATGTGTTCTATG
1183220 TGGATAAGAG
Statistics
Matches: 25, Mismatches: 0, Indels: 7
0.78 0.00 0.22
Matches are distributed among these distances:
13 4 0.16
14 3 0.12
15 8 0.32
16 6 0.24
17 1 0.04
18 3 0.12
ACGTcount: A:0.27, C:0.09, G:0.29, T:0.36
Consensus pattern (16 bp):
GAATGTGTTCTATGAA
Found at i:1183376 original size:24 final size:24
Alignment explanation
Indices: 1183348--1183456 Score: 100
Period size: 24 Copynumber: 4.6 Consensus size: 24
1183338 CCTTCAGGTC
*
1183348 AATTCTATGTGGTCA-TTCGG-GACA
1 AATTCTACGTGG-CACTTCGGTG-CA
* *
1183372 AATTCTACGCGGTC-CTTCGG-GAA
1 AATTCTACGTGG-CACTTCGGTGCA
* * *
1183395 AAATCTATGCGGCACTTCGGTGCA
1 AATTCTACGTGGCACTTCGGTGCA
*
1183419 TATTCTACGTGGCACTTCGGTGCA
1 AATTCTACGTGGCACTTCGGTGCA
1183443 AATTCTACGTGGCA
1 AATTCTACGTGGCA
1183457 GTTTCAACTG
Statistics
Matches: 71, Mismatches: 11, Indels: 6
0.81 0.12 0.07
Matches are distributed among these distances:
22 1 0.01
23 17 0.24
24 53 0.75
ACGTcount: A:0.23, C:0.23, G:0.25, T:0.29
Consensus pattern (24 bp):
AATTCTACGTGGCACTTCGGTGCA
Found at i:1183406 original size:23 final size:24
Alignment explanation
Indices: 1183351--1183414 Score: 69
Period size: 23 Copynumber: 2.7 Consensus size: 24
1183341 TCAGGTCAAT
* * *
1183351 TCTATGTGGTCATTCGGGACAAAT
1 TCTATGCGGTCCTTCGGGACAAAA
*
1183375 TCTACGCGGTCCTTCGGGA-AAAA
1 TCTATGCGGTCCTTCGGGACAAAA
1183398 TCTATGCGG-CACTTCGG
1 TCTATGCGGTC-CTTCGG
1183415 TGCATATTCT
Statistics
Matches: 34, Mismatches: 5, Indels: 3
0.81 0.12 0.07
Matches are distributed among these distances:
22 1 0.03
23 17 0.50
24 16 0.47
ACGTcount: A:0.22, C:0.23, G:0.27, T:0.28
Consensus pattern (24 bp):
TCTATGCGGTCCTTCGGGACAAAA
Found at i:1183414 original size:47 final size:47
Alignment explanation
Indices: 1183327--1183427 Score: 107
Period size: 47 Copynumber: 2.1 Consensus size: 47
1183317 GAGTCGAGGG
** * *
1183327 TTCTACGCAGTCCTTCAGGTCAATTCTATGTGGTCATTCGG-GACAAA
1 TTCTACGCAGTCCTTCAGGAAAAATCTATGCGGTCATTCGGTG-CAAA
* * *
1183374 TTCTACGCGGTCCTTCGGGAAAAATCTATGCGG-CACTTCGGTGCATA
1 TTCTACGCAGTCCTTCAGGAAAAATCTATGCGGTCA-TTCGGTGCAAA
1183421 TTCTACG
1 TTCTACG
1183428 TGGCACTTCG
Statistics
Matches: 45, Mismatches: 7, Indels: 4
0.80 0.12 0.07
Matches are distributed among these distances:
46 2 0.04
47 42 0.93
48 1 0.02
ACGTcount: A:0.22, C:0.25, G:0.23, T:0.31
Consensus pattern (47 bp):
TTCTACGCAGTCCTTCAGGAAAAATCTATGCGGTCATTCGGTGCAAA
Found at i:1193926 original size:20 final size:20
Alignment explanation
Indices: 1193901--1193944 Score: 63
Period size: 20 Copynumber: 2.2 Consensus size: 20
1193891 TGTTATTTTT
*
1193901 AAAAAAAAAA-AGAAAAAGGC
1 AAAAAAAAAACA-AAAAAGCC
1193921 AAAAAAAAAACAAAAAAGCC
1 AAAAAAAAAACAAAAAAGCC
1193941 AAAA
1 AAAA
1193945 TTTCAAAAAA
Statistics
Matches: 22, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
20 21 0.95
21 1 0.05
ACGTcount: A:0.82, C:0.09, G:0.09, T:0.00
Consensus pattern (20 bp):
AAAAAAAAAACAAAAAAGCC
Found at i:1193944 original size:19 final size:19
Alignment explanation
Indices: 1193902--1193944 Score: 59
Period size: 19 Copynumber: 2.2 Consensus size: 19
1193892 GTTATTTTTA
* *
1193902 AAAAAAAAAAGAAAAAGGC
1 AAAAAAAAAACAAAAAAGC
1193921 AAAAAAAAAACAAAAAAGCC
1 AAAAAAAAAACAAAAAAG-C
1193941 AAAA
1 AAAA
1193945 TTTCAAAAAA
Statistics
Matches: 21, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
19 16 0.76
20 5 0.24
ACGTcount: A:0.81, C:0.09, G:0.09, T:0.00
Consensus pattern (19 bp):
AAAAAAAAAACAAAAAAGC
Found at i:1197112 original size:13 final size:13
Alignment explanation
Indices: 1197094--1197125 Score: 64
Period size: 13 Copynumber: 2.5 Consensus size: 13
1197084 ACAAAGTTCA
1197094 GCTTGTATGAATG
1 GCTTGTATGAATG
1197107 GCTTGTATGAATG
1 GCTTGTATGAATG
1197120 GCTTGT
1 GCTTGT
1197126 TATGCCCTTT
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 19 1.00
ACGTcount: A:0.19, C:0.09, G:0.31, T:0.41
Consensus pattern (13 bp):
GCTTGTATGAATG
Found at i:1200596 original size:23 final size:23
Alignment explanation
Indices: 1200534--1200596 Score: 72
Period size: 23 Copynumber: 2.7 Consensus size: 23
1200524 AAATTTGTCG
*
1200534 CGAATGACCATGTAGAATTTATCC
1 CGAATGACCACGTAG-ATTTATCC
* *
1200558 CGAAGGACCACATAGATTTATCC
1 CGAATGACCACGTAGATTTATCC
* *
1200581 TGAATGACCGCGTAGA
1 CGAATGACCACGTAGA
1200597 ACCCTCGACT
Statistics
Matches: 32, Mismatches: 7, Indels: 1
0.80 0.17 0.03
Matches are distributed among these distances:
23 20 0.62
24 12 0.38
ACGTcount: A:0.33, C:0.22, G:0.21, T:0.24
Consensus pattern (23 bp):
CGAATGACCACGTAGATTTATCC
Found at i:1200645 original size:21 final size:21
Alignment explanation
Indices: 1200621--1200669 Score: 89
Period size: 21 Copynumber: 2.3 Consensus size: 21
1200611 GCATGCCAAC
1200621 TATACCTCTAATTCTCAAACA
1 TATACCTCTAATTCTCAAACA
*
1200642 TATACCTCTAATTCTCATACA
1 TATACCTCTAATTCTCAAACA
1200663 TATACCT
1 TATACCT
1200670 TAAGATTTAA
Statistics
Matches: 27, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
21 27 1.00
ACGTcount: A:0.35, C:0.29, G:0.00, T:0.37
Consensus pattern (21 bp):
TATACCTCTAATTCTCAAACA
Found at i:1204558 original size:15 final size:15
Alignment explanation
Indices: 1204538--1204604 Score: 62
Period size: 15 Copynumber: 4.4 Consensus size: 15
1204528 ATTTTATTTG
1204538 TATGTGAATATGTTA
1 TATGTGAATATGTTA
* *
1204553 TATGTGAATGTGTTC
1 TATGTGAATATGTTA
* * *
1204568 TACGTGAAGAAGGTTA
1 TATGTGAA-TATGTTA
* *
1204584 TATGAGAATATGTTT
1 TATGTGAATATGTTA
1204599 TATGTG
1 TATGTG
1204605 GATAACAAAT
Statistics
Matches: 38, Mismatches: 13, Indels: 2
0.72 0.25 0.04
Matches are distributed among these distances:
15 29 0.76
16 9 0.24
ACGTcount: A:0.30, C:0.03, G:0.25, T:0.42
Consensus pattern (15 bp):
TATGTGAATATGTTA
Done.