Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Dt_chr3
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: 42799318
ACGTcount: A:0.32, C:0.17, G:0.16, T:0.32
Warning! 891409 characters in sequence are not A, C, G, or T
File 7 of 141
Found at i:1713560 original size:23 final size:23
Alignment explanation
Indices: 1713534--1713588 Score: 56
Period size: 27 Copynumber: 2.2 Consensus size: 23
1713524 CGGAACAGTT
*
1713534 TATTCAGAGCTTGCCATACGTAC
1 TATTCAAAGCTTGCCATACGTAC
*
1713557 TATTCCTTCAAAGTTTGCCATACGTAC
1 TA----TTCAAAGCTTGCCATACGTAC
1713584 TATTC
1 TATTC
1713589 CTTCAATGTT
Statistics
Matches: 26, Mismatches: 2, Indels: 8
0.72 0.06 0.22
Matches are distributed among these distances:
23 5 0.19
27 21 0.81
ACGTcount: A:0.25, C:0.25, G:0.13, T:0.36
Consensus pattern (23 bp):
TATTCAAAGCTTGCCATACGTAC
Found at i:1713574 original size:27 final size:27
Alignment explanation
Indices: 1713544--1713603 Score: 102
Period size: 27 Copynumber: 2.2 Consensus size: 27
1713534 TATTCAGAGC
1713544 TTGCCATACGTACTATTCCTTCAAAGT
1 TTGCCATACGTACTATTCCTTCAAAGT
*
1713571 TTGCCATACGTACTATTCCTTCAATGT
1 TTGCCATACGTACTATTCCTTCAAAGT
*
1713598 TCGCCA
1 TTGCCA
1713604 CACATATCAT
Statistics
Matches: 31, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
27 31 1.00
ACGTcount: A:0.23, C:0.28, G:0.12, T:0.37
Consensus pattern (27 bp):
TTGCCATACGTACTATTCCTTCAAAGT
Found at i:1713615 original size:27 final size:27
Alignment explanation
Indices: 1713554--1713619 Score: 80
Period size: 27 Copynumber: 2.4 Consensus size: 27
1713544 TTGCCATACG
* * *
1713554 TACTATTCCTTCAAAGTTTGCCATACG
1 TACTATTCCTTCAAAGTTCGCCACACA
*
1713581 TACTATTCCTTCAATGTTCGCCACACA
1 TACTATTCCTTCAAAGTTCGCCACACA
1713608 TA-TCATTCCTTC
1 TACT-ATTCCTTC
1713620 GAGGTTTATC
Statistics
Matches: 34, Mismatches: 4, Indels: 2
0.85 0.10 0.05
Matches are distributed among these distances:
26 1 0.03
27 33 0.97
ACGTcount: A:0.24, C:0.30, G:0.08, T:0.38
Consensus pattern (27 bp):
TACTATTCCTTCAAAGTTCGCCACACA
Found at i:1713670 original size:148 final size:148
Alignment explanation
Indices: 1713366--1713667 Score: 532
Period size: 148 Copynumber: 2.0 Consensus size: 148
1713356 ATACGCCACG
* *
1713366 ACATTTCTTGCAGAACATTTTCTTCAGAGCTTGCCATACGTACTATTCCTTCAAAGTTCGCCATA
1 ACATTTCTTGCAGAACAGTTTATTCAGAGCTTGCCATACGTACTATTCCTTCAAAGTTCGCCATA
* *
1713431 CGTACTATTCCTTCAATGTTTGCCACACATATCATTCCTTCGAGGTTTGTCACACTTACAATTCT
66 CGTACTATTCCTTCAATGTTCGCCACACATATCATTCCTTCGAGGTTTATCACACTTACAATTCT
1713496 TCAGAGTTAGCCATACAT
131 TCAGAGTTAGCCATACAT
* *
1713514 ACATTTCTTGCGGAACAGTTTATTCAGAGCTTGCCATACGTACTATTCCTTCAAAGTTTGCCATA
1 ACATTTCTTGCAGAACAGTTTATTCAGAGCTTGCCATACGTACTATTCCTTCAAAGTTCGCCATA
*
1713579 CGTACTATTCCTTCAATGTTCGCCACACATATCATTCCTTCGAGGTTTATCATACTTACAATTCT
66 CGTACTATTCCTTCAATGTTCGCCACACATATCATTCCTTCGAGGTTTATCACACTTACAATTCT
1713644 TCAGAGTTAGCCATACAT
131 TCAGAGTTAGCCATACAT
1713662 ATCATT
1 A-CATT
1713668 CTTCTAGGGT
Statistics
Matches: 146, Mismatches: 7, Indels: 1
0.95 0.05 0.01
Matches are distributed among these distances:
148 142 0.97
149 4 0.03
ACGTcount: A:0.26, C:0.25, G:0.12, T:0.36
Consensus pattern (148 bp):
ACATTTCTTGCAGAACAGTTTATTCAGAGCTTGCCATACGTACTATTCCTTCAAAGTTCGCCATA
CGTACTATTCCTTCAATGTTCGCCACACATATCATTCCTTCGAGGTTTATCACACTTACAATTCT
TCAGAGTTAGCCATACAT
Found at i:1713694 original size:27 final size:27
Alignment explanation
Indices: 1713628--1713699 Score: 83
Period size: 27 Copynumber: 2.7 Consensus size: 27
1713618 TCGAGGTTTA
*
1713628 TCATACTTACAATTCTTC-AGAGTTAG
1 TCATACTTACCATTCTTCTAGAGTTAG
* * * * *
1713654 CCATACATATCATTCTTCTAGGGTTGG
1 TCATACTTACCATTCTTCTAGAGTTAG
1713681 TCATACTTACCATTCTTCT
1 TCATACTTACCATTCTTCT
1713700 CATTCAAGGT
Statistics
Matches: 36, Mismatches: 9, Indels: 1
0.78 0.20 0.02
Matches are distributed among these distances:
26 14 0.39
27 22 0.61
ACGTcount: A:0.25, C:0.24, G:0.11, T:0.40
Consensus pattern (27 bp):
TCATACTTACCATTCTTCTAGAGTTAG
Found at i:1713941 original size:27 final size:27
Alignment explanation
Indices: 1713766--1713973 Score: 176
Period size: 27 Copynumber: 7.7 Consensus size: 27
1713756 TGTAGAGTGC
* *
1713766 GCCACAAAGGCGTTCCT-TTCCATAGATC
1 GCCACAAAGGC-TT-CTATTTCATAGATT
1713794 GCCACAAAGGCTT-TAATTTCATAGATT
1 GCCACAAAGGCTTCT-ATTTCATAGATT
** *
1713821 TACACAAAGGCTT-TAATATCATAGATT
1 GCCACAAAGGCTTCT-ATTTCATAGATT
* * * * * *
1713848 TCTACAAAAGTTTCCATTTCAGAGATT
1 GCCACAAAGGCTTCTATTTCATAGATT
* *
1713875 GTCACAAAGTCTTAC-ATTTCATA-ATT
1 GCCACAAAGGCTT-CTATTTCATAGATT
*
1713901 GCCACAAAGGCTTCTACTTCATAGATT
1 GCCACAAAGGCTTCTATTTCATAGATT
1713928 GCCACAAAGGCTTCTATATT-ATAGATT
1 GCCACAAAGGCTTCTAT-TTCATAGATT
* *
1713955 GCCACAAAGACTTCCATTT
1 GCCACAAAGGCTTCTATTT
1713974 TCTAGCGCGT
Statistics
Matches: 148, Mismatches: 25, Indels: 16
0.78 0.13 0.08
Matches are distributed among these distances:
25 2 0.01
26 23 0.16
27 109 0.74
28 14 0.09
ACGTcount: A:0.33, C:0.22, G:0.13, T:0.32
Consensus pattern (27 bp):
GCCACAAAGGCTTCTATTTCATAGATT
Found at i:1714709 original size:13 final size:13
Alignment explanation
Indices: 1714691--1714715 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
1714681 TAAGTTATAT
1714691 GTGTGAAAATTTC
1 GTGTGAAAATTTC
1714704 GTGTGAAAATTT
1 GTGTGAAAATTT
1714716 GATCGTTTGA
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.32, C:0.04, G:0.24, T:0.40
Consensus pattern (13 bp):
GTGTGAAAATTTC
Found at i:1722678 original size:13 final size:13
Alignment explanation
Indices: 1722660--1722684 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
1722650 TAAGTTATAT
1722660 GTGTGAAAATTTC
1 GTGTGAAAATTTC
1722673 GTGTGAAAATTT
1 GTGTGAAAATTT
1722685 GATCGTTTGA
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.32, C:0.04, G:0.24, T:0.40
Consensus pattern (13 bp):
GTGTGAAAATTTC
Found at i:1723139 original size:25 final size:25
Alignment explanation
Indices: 1723111--1723165 Score: 60
Period size: 24 Copynumber: 2.2 Consensus size: 25
1723101 ATGCTTGAAT
* *
1723111 TTTTGTA-ATTGTTGATTATTTTGTG
1 TTTTGTACATTGATGA-TAATTTGTG
1723136 TTTT-TACATTGATGATAATTTGTG
1 TTTTGTACATTGATGATAATTTGTG
*
1723160 GTTTGT
1 TTTTGT
1723166 GATGTTAGTT
Statistics
Matches: 25, Mismatches: 3, Indels: 4
0.78 0.09 0.12
Matches are distributed among these distances:
24 13 0.52
25 12 0.48
ACGTcount: A:0.18, C:0.02, G:0.20, T:0.60
Consensus pattern (25 bp):
TTTTGTACATTGATGATAATTTGTG
Found at i:1723509 original size:25 final size:25
Alignment explanation
Indices: 1723481--1723535 Score: 60
Period size: 24 Copynumber: 2.2 Consensus size: 25
1723471 ATGCTTGAAT
* *
1723481 TTTTGTA-ATTGTTGATTATTTTGTG
1 TTTTGTACATTGATGA-TAATTTGTG
1723506 TTTT-TACATTGATGATAATTTGTG
1 TTTTGTACATTGATGATAATTTGTG
*
1723530 GTTTGT
1 TTTTGT
1723536 GATGTTAGTT
Statistics
Matches: 25, Mismatches: 3, Indels: 4
0.78 0.09 0.12
Matches are distributed among these distances:
24 13 0.52
25 12 0.48
ACGTcount: A:0.18, C:0.02, G:0.20, T:0.60
Consensus pattern (25 bp):
TTTTGTACATTGATGATAATTTGTG
Found at i:1723560 original size:370 final size:370
Alignment explanation
Indices: 1722879--1723621 Score: 1486
Period size: 370 Copynumber: 2.0 Consensus size: 370
1722869 ATATTTATTA
1722879 TAATAAGGTTAATTTAGTAAATTAGTAAATTATATCATATAATTAAAATAAGTAAAGAAAACATG
1 TAATAAGGTTAATTTAGTAAATTAGTAAATTATATCATATAATTAAAATAAGTAAAGAAAACATG
1722944 AAAACATTCATCATCTTGGCCGAATATTAAGCTTGGAGAACTCATCAATGGCTTCCTAGGGTTTT
66 AAAACATTCATCATCTTGGCCGAATATTAAGCTTGGAGAACTCATCAATGGCTTCCTAGGGTTTT
1723009 GGCATTTCTATTGTAGATTAAGGTATGTTTTGGTTTCAGTTTTTGATAATTTTTATTTTTTTGAG
131 GGCATTTCTATTGTAGATTAAGGTATGTTTTGGTTTCAGTTTTTGATAATTTTTATTTTTTTGAG
1723074 ATCGTTGTTTTGTGTACTACAAGACCCATGCTTGAATTTTTGTAATTGTTGATTATTTTGTGTTT
196 ATCGTTGTTTTGTGTACTACAAGACCCATGCTTGAATTTTTGTAATTGTTGATTATTTTGTGTTT
1723139 TTACATTGATGATAATTTGTGGTTTGTGATGTTAGTTGATGAAATATGAAAGATAGGTGTTAGAT
261 TTACATTGATGATAATTTGTGGTTTGTGATGTTAGTTGATGAAATATGAAAGATAGGTGTTAGAT
1723204 TAAAATGTTGTCTTTGAATTTTTGGTGAAATTGAGTAAATAGGGC
326 TAAAATGTTGTCTTTGAATTTTTGGTGAAATTGAGTAAATAGGGC
1723249 TAATAAGGTTAATTTAGTAAATTAGTAAATTATATCATATAATTAAAATAAGTAAAGAAAACATG
1 TAATAAGGTTAATTTAGTAAATTAGTAAATTATATCATATAATTAAAATAAGTAAAGAAAACATG
1723314 AAAACATTCATCATCTTGGCCGAATATTAAGCTTGGAGAACTCATCAATGGCTTCCTAGGGTTTT
66 AAAACATTCATCATCTTGGCCGAATATTAAGCTTGGAGAACTCATCAATGGCTTCCTAGGGTTTT
1723379 GGCATTTCTATTGTAGATTAAGGTATGTTTTGGTTTCAGTTTTTGATAATTTTTATTTTTTTGAG
131 GGCATTTCTATTGTAGATTAAGGTATGTTTTGGTTTCAGTTTTTGATAATTTTTATTTTTTTGAG
1723444 ATCGTTGTTTTGTGTACTACAAGACCCATGCTTGAATTTTTGTAATTGTTGATTATTTTGTGTTT
196 ATCGTTGTTTTGTGTACTACAAGACCCATGCTTGAATTTTTGTAATTGTTGATTATTTTGTGTTT
1723509 TTACATTGATGATAATTTGTGGTTTGTGATGTTAGTTGATGAAATATGAAAGATAGGTGTTAGAT
261 TTACATTGATGATAATTTGTGGTTTGTGATGTTAGTTGATGAAATATGAAAGATAGGTGTTAGAT
1723574 TAAAATGTTGTCTTTGAATTTTTGGTGAAATTGAGTAAATAGGGC
326 TAAAATGTTGTCTTTGAATTTTTGGTGAAATTGAGTAAATAGGGC
1723619 TAA
1 TAA
1723622 ATTGTGAAAA
Statistics
Matches: 373, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
370 373 1.00
ACGTcount: A:0.31, C:0.08, G:0.19, T:0.42
Consensus pattern (370 bp):
TAATAAGGTTAATTTAGTAAATTAGTAAATTATATCATATAATTAAAATAAGTAAAGAAAACATG
AAAACATTCATCATCTTGGCCGAATATTAAGCTTGGAGAACTCATCAATGGCTTCCTAGGGTTTT
GGCATTTCTATTGTAGATTAAGGTATGTTTTGGTTTCAGTTTTTGATAATTTTTATTTTTTTGAG
ATCGTTGTTTTGTGTACTACAAGACCCATGCTTGAATTTTTGTAATTGTTGATTATTTTGTGTTT
TTACATTGATGATAATTTGTGGTTTGTGATGTTAGTTGATGAAATATGAAAGATAGGTGTTAGAT
TAAAATGTTGTCTTTGAATTTTTGGTGAAATTGAGTAAATAGGGC
Found at i:1735345 original size:57 final size:57
Alignment explanation
Indices: 1735309--1735460 Score: 164
Period size: 59 Copynumber: 2.6 Consensus size: 57
1735299 GCCATAAGGG
*
1735309 CTTACCTTTCTAGGGTTTTGCCACAAAGGCTATCCTTTAACAGATTCAACTCAAAGA
1 CTTACCTTTCTAGAGTTTTGCCACAAAGGCTATCCTTTAACAGATTCAACTCAAAGA
* * * ** *
1735366 CTTACCTTTCTAGAGTTTTGCCACAAAGGTTGTCCTCTTTAACAGGTTCGCCACAAA-A
1 CTTACCTTTCTAGAGTTTTGCCACAAAGGCTAT-C-CTTTAACAGATTCAACTCAAAGA
* * * *
1735424 GTTTACCTTTCCAAAGTTTTTCCACAAAGGC-ATCCTT
1 -CTTACCTTTCTAGAGTTTTGCCACAAAGGCTATCCTT
1735461 AAATAGAGAT
Statistics
Matches: 79, Mismatches: 13, Indels: 7
0.80 0.13 0.07
Matches are distributed among these distances:
56 3 0.04
57 31 0.39
58 3 0.04
59 42 0.53
ACGTcount: A:0.27, C:0.26, G:0.14, T:0.34
Consensus pattern (57 bp):
CTTACCTTTCTAGAGTTTTGCCACAAAGGCTATCCTTTAACAGATTCAACTCAAAGA
Found at i:1735693 original size:53 final size:52
Alignment explanation
Indices: 1735609--1735759 Score: 189
Period size: 53 Copynumber: 2.9 Consensus size: 52
1735599 AATTTTTTCC
*
1735609 CATATGATACCATAACCCACCAGTTATAGTCTTACACGATATGGTCTTA-TTT
1 CATATGATACCATAACCCACCAGTTACAGTCTTACACGATATGGTC-TACTTT
* *
1735661 CGATATGATGCCATAACCCACCAATTACAGTCTTACACGATATGGTCTACTTTT
1 C-ATATGATACCATAACCCACCAGTTACAGTCTTACACGATATGGTCTAC-TTT
* * * * *
1735715 CATATGATCCCACAACCCATCAGTTACGGTCTTACA-GGTATGGTC
1 CATATGATACCATAACCCACCAGTTACAGTCTTACACGATATGGTC
1735760 CTTTAGCGCC
Statistics
Matches: 87, Mismatches: 9, Indels: 6
0.85 0.09 0.06
Matches are distributed among these distances:
52 11 0.13
53 72 0.83
54 4 0.05
ACGTcount: A:0.29, C:0.26, G:0.14, T:0.31
Consensus pattern (52 bp):
CATATGATACCATAACCCACCAGTTACAGTCTTACACGATATGGTCTACTTT
Found at i:1741902 original size:33 final size:33
Alignment explanation
Indices: 1741858--1741932 Score: 105
Period size: 33 Copynumber: 2.3 Consensus size: 33
1741848 GATTACTCTC
* *
1741858 TTCACTTGTTTCTCATGCAAGCTCTCTTTCTTT
1 TTCACTCGTTTCTCATGCAAGCCCTCTTTCTTT
** *
1741891 TTCACTCGTTTCTTTTTCAAGCCCTCTTTCTTT
1 TTCACTCGTTTCTCATGCAAGCCCTCTTTCTTT
1741924 TTCACTCGT
1 TTCACTCGT
1741933 GTCTTTTTCA
Statistics
Matches: 37, Mismatches: 5, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
33 37 1.00
ACGTcount: A:0.11, C:0.29, G:0.08, T:0.52
Consensus pattern (33 bp):
TTCACTCGTTTCTCATGCAAGCCCTCTTTCTTT
Found at i:1741904 original size:15 final size:15
Alignment explanation
Indices: 1741884--1741942 Score: 66
Period size: 15 Copynumber: 3.7 Consensus size: 15
1741874 GCAAGCTCTC
1741884 TTTCTTTTTCACTCG
1 TTTCTTTTTCACTCG
1741899 TTTCTTTTTCAAGCCCTC-
1 TTTCTTTTTC-A---CTCG
1741917 TTTCTTTTTCACTCG
1 TTTCTTTTTCACTCG
*
1741932 TGTCTTTTTCA
1 TTTCTTTTTCA
1741943 ACAACAACAC
Statistics
Matches: 38, Mismatches: 1, Indels: 10
0.78 0.02 0.20
Matches are distributed among these distances:
14 3 0.08
15 20 0.53
16 1 0.03
17 1 0.03
18 10 0.26
19 3 0.08
ACGTcount: A:0.08, C:0.27, G:0.07, T:0.58
Consensus pattern (15 bp):
TTTCTTTTTCACTCG
Found at i:1741922 original size:18 final size:17
Alignment explanation
Indices: 1741875--1741927 Score: 58
Period size: 18 Copynumber: 3.1 Consensus size: 17
1741865 GTTTCTCATG
1741875 CAAGCTCTCTTTCTTTTT
1 CAAGC-CTCTTTCTTTTT
1741893 C-A--CTCGTTTCTTTTT
1 CAAGCCTC-TTTCTTTTT
1741908 CAAGCCCTCTTTCTTTTT
1 CAAG-CCTCTTTCTTTTT
1741926 CA
1 CA
1741928 CTCGTGTCTT
Statistics
Matches: 30, Mismatches: 0, Indels: 10
0.75 0.00 0.25
Matches are distributed among these distances:
14 3 0.10
15 10 0.33
16 1 0.03
17 1 0.03
18 12 0.40
19 3 0.10
ACGTcount: A:0.11, C:0.30, G:0.06, T:0.53
Consensus pattern (17 bp):
CAAGCCTCTTTCTTTTT
Found at i:1741938 original size:33 final size:33
Alignment explanation
Indices: 1741875--1741943 Score: 120
Period size: 33 Copynumber: 2.1 Consensus size: 33
1741865 GTTTCTCATG
* *
1741875 CAAGCTCTCTTTCTTTTTCACTCGTTTCTTTTT
1 CAAGCCCTCTTTCTTTTTCACTCGTGTCTTTTT
1741908 CAAGCCCTCTTTCTTTTTCACTCGTGTCTTTTT
1 CAAGCCCTCTTTCTTTTTCACTCGTGTCTTTTT
1741941 CAA
1 CAA
1741944 CAACAACACT
Statistics
Matches: 34, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
33 34 1.00
ACGTcount: A:0.12, C:0.29, G:0.07, T:0.52
Consensus pattern (33 bp):
CAAGCCCTCTTTCTTTTTCACTCGTGTCTTTTT
Found at i:1743074 original size:16 final size:17
Alignment explanation
Indices: 1743040--1743081 Score: 59
Period size: 16 Copynumber: 2.5 Consensus size: 17
1743030 TTTGCACACT
*
1743040 TTTTTTTATATTCGAAAC
1 TTTTTTT-TACTCGAAAC
1743058 TTTTTTTTACTCG-AAC
1 TTTTTTTTACTCGAAAC
1743074 TTTTTTTT
1 TTTTTTTT
1743082 GCTTCTTTTC
Statistics
Matches: 23, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
16 11 0.48
17 5 0.22
18 7 0.30
ACGTcount: A:0.19, C:0.12, G:0.05, T:0.64
Consensus pattern (17 bp):
TTTTTTTTACTCGAAAC
Found at i:1743080 original size:17 final size:19
Alignment explanation
Indices: 1743037--1743081 Score: 60
Period size: 17 Copynumber: 2.5 Consensus size: 19
1743027 TATTTTGCAC
*
1743037 ACTTTTTTTTATATTCGAA
1 ACTTTTTTTTATACTCGAA
1743056 AC-TTTTTTT-TACTCG-A
1 ACTTTTTTTTATACTCGAA
1743072 ACTTTTTTTT
1 ACTTTTTTTT
1743082 GCTTCTTTTC
Statistics
Matches: 24, Mismatches: 1, Indels: 4
0.83 0.03 0.14
Matches are distributed among these distances:
16 3 0.12
17 12 0.50
18 7 0.29
19 2 0.08
ACGTcount: A:0.20, C:0.13, G:0.04, T:0.62
Consensus pattern (19 bp):
ACTTTTTTTTATACTCGAA
Found at i:1746989 original size:22 final size:21
Alignment explanation
Indices: 1746961--1747030 Score: 72
Period size: 22 Copynumber: 3.3 Consensus size: 21
1746951 AAAAAATTTT
1746961 AAAAAAGAACAAAATTTTGAAA
1 AAAAAAGAA-AAAATTTTGAAA
**
1746983 AAAAAAGAAAAAA-TAGGAAA
1 AAAAAAGAAAAAATTTTGAAA
*
1747003 AAAAGAATGAAAATA-TTTGAAA
1 AAAA-AA-GAAAAAATTTTGAAA
1747025 AAAAAA
1 AAAAAA
1747031 AGTGGCCTGC
Statistics
Matches: 41, Mismatches: 5, Indels: 5
0.80 0.10 0.10
Matches are distributed among these distances:
20 9 0.22
21 8 0.20
22 24 0.59
ACGTcount: A:0.73, C:0.01, G:0.11, T:0.14
Consensus pattern (21 bp):
AAAAAAGAAAAAATTTTGAAA
Found at i:1748349 original size:6 final size:6
Alignment explanation
Indices: 1748332--1748383 Score: 77
Period size: 6 Copynumber: 8.7 Consensus size: 6
1748322 TTTTATATTT
* * *
1748332 TTTTTG TCTTTG TTTTTG TTTTTG TTTTTG TTTTTG TTTTTA TTTTTA
1 TTTTTG TTTTTG TTTTTG TTTTTG TTTTTG TTTTTG TTTTTG TTTTTG
1748380 TTTT
1 TTTT
1748384 ATTTTATTTT
Statistics
Matches: 43, Mismatches: 3, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
6 43 1.00
ACGTcount: A:0.04, C:0.02, G:0.12, T:0.83
Consensus pattern (6 bp):
TTTTTG
Found at i:1748377 original size:18 final size:18
Alignment explanation
Indices: 1748321--1748383 Score: 74
Period size: 18 Copynumber: 3.6 Consensus size: 18
1748311 TAGTTTTATA
*
1748321 TTTTTATATTT-TTTTTG
1 TTTTTATTTTTGTTTTTG
* *
1748338 TCTTTGTTTTTGTTTTTG
1 TTTTTATTTTTGTTTTTG
* *
1748356 TTTTTGTTTTTGTTTTTA
1 TTTTTATTTTTGTTTTTG
1748374 TTTTTATTTT
1 TTTTTATTTT
1748384 ATTTTATTTT
Statistics
Matches: 39, Mismatches: 6, Indels: 1
0.85 0.13 0.02
Matches are distributed among these distances:
17 8 0.21
18 31 0.79
ACGTcount: A:0.06, C:0.02, G:0.10, T:0.83
Consensus pattern (18 bp):
TTTTTATTTTTGTTTTTG
Found at i:1755142 original size:26 final size:26
Alignment explanation
Indices: 1754989--1755143 Score: 145
Period size: 26 Copynumber: 6.0 Consensus size: 26
1754979 TCAAATAGGT
* * *
1754989 TACACCACAAAGGC-AACATACTGAA
1 TACACCATAAAGGCTATCATACAGAA
* * * *
1755014 TACACTACAAAGGCTACCATACAAAA
1 TACACCATAAAGGCTATCATACAGAA
*
1755040 TA-AGCCATAAAGGCTATCATACAAAA
1 TACA-CCATAAAGGCTATCATACAGAA
* *
1755066 TACACCATAAAGTCTATCATGCA-AA
1 TACACCATAAAGGCTATCATACAGAA
** * *
1755091 TATGCCAAAAAGGTTATCATACAGAA
1 TACACCATAAAGGCTATCATACAGAA
*
1755117 TACACCATAAAGGCTATCATATAGAA
1 TACACCATAAAGGCTATCATACAGAA
1755143 T
1 T
1755144 GCCACAAAAG
Statistics
Matches: 106, Mismatches: 20, Indels: 7
0.80 0.15 0.05
Matches are distributed among these distances:
25 33 0.31
26 72 0.68
27 1 0.01
ACGTcount: A:0.47, C:0.22, G:0.11, T:0.20
Consensus pattern (26 bp):
TACACCATAAAGGCTATCATACAGAA
Found at i:1755153 original size:51 final size:51
Alignment explanation
Indices: 1755012--1755137 Score: 162
Period size: 51 Copynumber: 2.5 Consensus size: 51
1755002 CAACATACTG
* * * * *
1755012 AATACACTACAAAGGCTACCATACAAAATAAGCCATAAAGGCTATCATACAA
1 AATACACCATAAAGGCTATCATAC-AAATATGCCAAAAAGGCTATCATACAA
* * * *
1755064 AATACACCATAAAGTCTATCATGCAAATATGCCAAAAAGGTTATCATACAG
1 AATACACCATAAAGGCTATCATACAAATATGCCAAAAAGGCTATCATACAA
1755115 AATACACCATAAAGGCTATCATA
1 AATACACCATAAAGGCTATCATA
1755138 TAGAATGCCA
Statistics
Matches: 63, Mismatches: 11, Indels: 1
0.84 0.15 0.01
Matches are distributed among these distances:
51 44 0.70
52 19 0.30
ACGTcount: A:0.48, C:0.21, G:0.10, T:0.21
Consensus pattern (51 bp):
AATACACCATAAAGGCTATCATACAAATATGCCAAAAAGGCTATCATACAA
Found at i:1760560 original size:41 final size:41
Alignment explanation
Indices: 1760467--1760581 Score: 113
Period size: 41 Copynumber: 2.8 Consensus size: 41
1760457 ATTCTACCTT
**
1760467 TCGGGGCTTTAGCATCGTTTTTAAAAAAAGCGCCGCTAAAGC
1 TCGGGGCTTTAGCGGCG-TTTTAAAAAAAGCGCCGCTAAAGC
* ** ** * *
1760509 TCAGATCTTTAGCGGCGTTTTCCAATAAGCGCCGCTAATGC
1 TCGGGGCTTTAGCGGCGTTTTAAAAAAAGCGCCGCTAAAGC
* **
1760550 TCGGGGCTTTAGTGGCGTTTTTGAAAAAGCGC
1 TCGGGGCTTTAGCGGCGTTTTAAAAAAAGCGC
1760582 AGCAAAAACA
Statistics
Matches: 57, Mismatches: 16, Indels: 1
0.77 0.22 0.01
Matches are distributed among these distances:
41 45 0.79
42 12 0.21
ACGTcount: A:0.23, C:0.22, G:0.26, T:0.29
Consensus pattern (41 bp):
TCGGGGCTTTAGCGGCGTTTTAAAAAAAGCGCCGCTAAAGC
Found at i:1761809 original size:148 final size:150
Alignment explanation
Indices: 1761540--1761857 Score: 475
Period size: 148 Copynumber: 2.1 Consensus size: 150
1761530 ATAATTTTTT
* * *
1761540 GCGGCGTTTTTAT-GAAAAACGCCACAAAAAATAATTTTACTTCAAAAAAATAGCGCCATTTTAG
1 GCGGCGTTTTTATAAAAAAACACCACAAAAAATAATTTTACTTCAAAAAAATAGCGCCATTTTAA
* *
1761604 CATAGCAAAACAGTGTCGTTTTATTCCAAATGAAATAATTTTTTTGCGGCATTTTTATGAAAAA-
66 CATAACAAAACAGTGTCGTTTTATTCCAAATAAAATAATTTTTTTGCGGCATTTTTAT-AAAAAG
* *
1761668 CGCCGTAAAATG-TAAGCAATA
130 CGCCGCAAAA-GATAAGCAAAA
* * *
1761689 GCGGCGTTTTTATAAAAAAACACCAC-AAAATTAATTTTACTT-TAAAAAATAGCGTCATTTTAA
1 GCGGCGTTTTTATAAAAAAACACCACAAAAAATAATTTTACTTCAAAAAAATAGCGCCATTTTAA
*
1761752 CATAACAAAACAGTGTCGTTTTATTCCAAATAAAATAATTTTTTTGCGGCATTTTTATAAAAAGT
66 CATAACAAAACAGTGTCGTTTTATTCCAAATAAAATAATTTTTTTGCGGCATTTTTATAAAAAGC
1761817 GCCGCAAAAGATAAGCAAAA
131 GCCGCAAAAGATAAGCAAAA
*
1761837 GGGGCGTTTTTATAAAAAAAC
1 GCGGCGTTTTTATAAAAAAAC
1761858 CCAAAAGCTT
Statistics
Matches: 154, Mismatches: 12, Indels: 7
0.89 0.07 0.04
Matches are distributed among these distances:
147 6 0.04
148 110 0.71
149 28 0.18
150 10 0.06
ACGTcount: A:0.41, C:0.14, G:0.14, T:0.31
Consensus pattern (150 bp):
GCGGCGTTTTTATAAAAAAACACCACAAAAAATAATTTTACTTCAAAAAAATAGCGCCATTTTAA
CATAACAAAACAGTGTCGTTTTATTCCAAATAAAATAATTTTTTTGCGGCATTTTTATAAAAAGC
GCCGCAAAAGATAAGCAAAA
Found at i:1766487 original size:43 final size:43
Alignment explanation
Indices: 1766435--1766791 Score: 462
Period size: 43 Copynumber: 8.3 Consensus size: 43
1766425 AGATTATGTT
** *
1766435 TTTAGCGGCGTTTGTAAGAAAAGCGCCGCTAAAGGTCATAGTC
1 TTTAGCGGCGTTTGTGGGAAAAGCGCCGCTAAAGGTCATGGTC
* * * * *
1766478 TATGGCGGCGTTTGAGGGAACAGCGCCACTAAAGGTCATGGTC
1 TTTAGCGGCGTTTGTGGGAAAAGCGCCGCTAAAGGTCATGGTC
** * * *
1766521 AATAGCGGCGTTTGTTGGAAAAGCGCCACTAATGGTCATGGTC
1 TTTAGCGGCGTTTGTGGGAAAAGCGCCGCTAAAGGTCATGGTC
* * * * *
1766564 TATAGCGACGTTTTTGGGAAAAGCGCCGCTAATGGTCATGGTA
1 TTTAGCGGCGTTTGTGGGAAAAGCGCCGCTAAAGGTCATGGTC
* **
1766607 TTTAGCGGCGTTTTTGAAAAAAGCGCCGCTAAAGGTCATGGTC
1 TTTAGCGGCGTTTGTGGGAAAAGCGCCGCTAAAGGTCATGGTC
* *
1766650 TTTAGCGGCGTTTGTGGGAAAAGCGCTGCTAAAGGTCATGGTA
1 TTTAGCGGCGTTTGTGGGAAAAGCGCCGCTAAAGGTCATGGTC
*
1766693 TTTAGCGGCGTTTATGGGAAAAGCGCCGCTAAAGGTCATGGTC
1 TTTAGCGGCGTTTGTGGGAAAAGCGCCGCTAAAGGTCATGGTC
* * *
1766736 TTTAGCGGCGTTTTTGAGAAAAGCGCCGCTAAAGGTCTTGGTC
1 TTTAGCGGCGTTTGTGGGAAAAGCGCCGCTAAAGGTCATGGTC
*
1766779 TTTAGCGGTGTTT
1 TTTAGCGGCGTTT
1766792 ATTTCTAAAA
Statistics
Matches: 276, Mismatches: 38, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
43 276 1.00
ACGTcount: A:0.24, C:0.18, G:0.31, T:0.27
Consensus pattern (43 bp):
TTTAGCGGCGTTTGTGGGAAAAGCGCCGCTAAAGGTCATGGTC
Found at i:1768017 original size:18 final size:19
Alignment explanation
Indices: 1767972--1768020 Score: 57
Period size: 19 Copynumber: 2.6 Consensus size: 19
1767962 TCAACTTTTG
*
1767972 AAAATAATTTTTA-AAATTC
1 AAAAT-ATTTATAGAAATTC
1767991 AAAATATTTATAGAAATTC
1 AAAATATTTATAGAAATTC
*
1768010 TAAA-ATTTATA
1 AAAATATTTATA
1768021 TTTTTTAAAA
Statistics
Matches: 27, Mismatches: 2, Indels: 3
0.84 0.06 0.09
Matches are distributed among these distances:
18 13 0.48
19 14 0.52
ACGTcount: A:0.53, C:0.04, G:0.02, T:0.41
Consensus pattern (19 bp):
AAAATATTTATAGAAATTC
Found at i:1768365 original size:18 final size:19
Alignment explanation
Indices: 1768320--1768365 Score: 51
Period size: 18 Copynumber: 2.5 Consensus size: 19
1768310 TCGAACATAA
*
1768320 AATATATAAATTACAAAAT
1 AATATATAAAGTACAAAAT
*
1768339 AGA-AAATAAAGT-CAAAAT
1 A-ATATATAAAGTACAAAAT
1768357 AATATATAA
1 AATATATAA
1768366 CTTACATAGA
Statistics
Matches: 22, Mismatches: 3, Indels: 5
0.73 0.10 0.17
Matches are distributed among these distances:
17 1 0.05
18 12 0.55
19 8 0.36
20 1 0.05
ACGTcount: A:0.65, C:0.04, G:0.04, T:0.26
Consensus pattern (19 bp):
AATATATAAAGTACAAAAT
Found at i:1768516 original size:2 final size:2
Alignment explanation
Indices: 1768509--1768535 Score: 54
Period size: 2 Copynumber: 13.5 Consensus size: 2
1768499 CATTACAAAA
1768509 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 A
1768536 ACCAATTCTT
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 25 1.00
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (2 bp):
AT
Found at i:1768600 original size:17 final size:18
Alignment explanation
Indices: 1768580--1768613 Score: 52
Period size: 17 Copynumber: 1.9 Consensus size: 18
1768570 GCATAAAAGT
1768580 AAAATAAAAAT-AACAAC
1 AAAATAAAAATGAACAAC
*
1768597 AAAATGAAAATGAACAA
1 AAAATAAAAATGAACAA
1768614 TTAAAAATTA
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
17 10 0.67
18 5 0.33
ACGTcount: A:0.74, C:0.09, G:0.06, T:0.12
Consensus pattern (18 bp):
AAAATAAAAATGAACAAC
Found at i:1770268 original size:99 final size:100
Alignment explanation
Indices: 1770097--1770309 Score: 410
Period size: 99 Copynumber: 2.1 Consensus size: 100
1770087 AGTTATATTA
1770097 TTTAAATGGTGATTTAGCACTAGCTGCATTACTATTAGAGTTTTGCCTTCCTCTTATAATTCAAA
1 TTTAAATGGTGATTTAGCACTAGCTGCATTACTATTAGAGTTTTGCCTTCCTCTTATAATTCAAA
1770162 AAAAAGAAGCAAAAACGAAATCACCGTTTA-CCAT
66 AAAAAGAAGCAAAAACGAAATCACCGTTTACCCAT
1770196 TTTAAATGGTGATTTAGCACTAGCTGCATTACTATTAGAGTTTTGCCTTCCTCTTATAATTCAAA
1 TTTAAATGGTGATTTAGCACTAGCTGCATTACTATTAGAGTTTTGCCTTCCTCTTATAATTCAAA
1770261 AAAAAGAAGCAAAAACGAAATCACCGTTTACCCAT
66 AAAAAGAAGCAAAAACGAAATCACCGTTTACCCAT
*
1770296 TTTAAAGGGTGATT
1 TTTAAATGGTGATT
1770310 CATGCTATTT
Statistics
Matches: 112, Mismatches: 1, Indels: 1
0.98 0.01 0.01
Matches are distributed among these distances:
99 95 0.85
100 17 0.15
ACGTcount: A:0.36, C:0.17, G:0.14, T:0.33
Consensus pattern (100 bp):
TTTAAATGGTGATTTAGCACTAGCTGCATTACTATTAGAGTTTTGCCTTCCTCTTATAATTCAAA
AAAAAGAAGCAAAAACGAAATCACCGTTTACCCAT
Found at i:1770310 original size:249 final size:248
Alignment explanation
Indices: 1769867--1770461 Score: 1036
Period size: 249 Copynumber: 2.4 Consensus size: 248
1769857 GGTTTAAATT
*
1769867 GCACTA-CTTGCATTATTGTTAGACTTTTGCCTTCCTCTTATAATT--AAAAAAGAAGCAAAAAC
1 GCACTAGC-TGCATTATTGTTAGAGTTTTGCCTTCCTCTTATAATTAAAAAAAAGAAGCAAAAAC
1769929 GAAATCACCGTTTACCATTTTAAATGGTGATTTAGCACTAGCTGCATTACTATTAGAGTTTTGCC
65 GAAATCACCGTTTACCATTTTAAATGGTGATTTAGCACTAGCTGCATTACTATTAGAGTTTTGCC
1769994 TTCCTCTTATAATTCAAAAAAAAGAAGCAAAAACGAAATCACCGTTTACCCATTTTAAAGGGTGA
130 TTCCTCTTATAATTCAAAAAAAAGAAGCAAAAACGAAATCACCGTTTACCCATTTTAAAGGGTGA
1770059 TTCATGCTATTTTAATAAATAATTTTGAAGTTATATTATTTAAATGGTGATTTA
195 TTCATGCTATTTTAATAAATAATTTTGAAGTTATATTATTTAAATGGTGATTTA
* *
1770113 GCACTAGCTGCATTACTATTAGAGTTTTGCCTTCCTCTTATAATTCAAAAAAAAGAAGCAAAAAC
1 GCACTAGCTGCATTATTGTTAGAGTTTTGCCTTCCTCTTATAATT-AAAAAAAAGAAGCAAAAAC
1770178 GAAATCACCGTTTACCATTTTAAATGGTGATTTAGCACTAGCTGCATTACTATTAGAGTTTTGCC
65 GAAATCACCGTTTACCATTTTAAATGGTGATTTAGCACTAGCTGCATTACTATTAGAGTTTTGCC
1770243 TTCCTCTTATAATTCAAAAAAAAGAAGCAAAAACGAAATCACCGTTTACCCATTTTAAAGGGTGA
130 TTCCTCTTATAATTCAAAAAAAAGAAGCAAAAACGAAATCACCGTTTACCCATTTTAAAGGGTGA
1770308 TTCATGCTATTTTAATAAATAATTTTGAAGTTATATTATTTAAATGGTGATTTA
195 TTCATGCTATTTTAATAAATAATTTTGAAGTTATATTATTTAAATGGTGATTTA
* * * *
1770362 GCACTAGCCT-CATTGTTGTTAGAGTTTTACCCTCTTCTTATAATTAAAAAAAGAAAGAAGCAAA
1 GCACTAG-CTGCATTATTGTTAGAGTTTTGCCTTCCTCTTATAATT--AAAAA-AAAGAAGCAAA
*
1770426 AACAAAATCACCGTTTACCATTTTAAATGGTGATTT
62 AACGAAATCACCGTTTACCATTTTAAATGGTGATTT
1770462 TGCATATCCC
Statistics
Matches: 331, Mismatches: 11, Indels: 9
0.94 0.03 0.03
Matches are distributed among these distances:
246 40 0.12
247 1 0.00
249 237 0.72
250 7 0.02
251 46 0.14
ACGTcount: A:0.36, C:0.16, G:0.13, T:0.35
Consensus pattern (248 bp):
GCACTAGCTGCATTATTGTTAGAGTTTTGCCTTCCTCTTATAATTAAAAAAAAGAAGCAAAAACG
AAATCACCGTTTACCATTTTAAATGGTGATTTAGCACTAGCTGCATTACTATTAGAGTTTTGCCT
TCCTCTTATAATTCAAAAAAAAGAAGCAAAAACGAAATCACCGTTTACCCATTTTAAAGGGTGAT
TCATGCTATTTTAATAAATAATTTTGAAGTTATATTATTTAAATGGTGATTTA
Found at i:1771222 original size:178 final size:177
Alignment explanation
Indices: 1770308--1772062 Score: 2326
Period size: 178 Copynumber: 9.9 Consensus size: 177
1770298 TAAAGGGTGA
* *
1770308 TTCATGCTATTTTAATAAATAATTTTGAAGTTATATTA-TTTAAATGGTGATTTAGCACTAGCCT
1 TTCATGCTATTTTAATAAATAATTTTGAAGTTATACTATTTTAAATGGTGATTTAGCACTAGCCG
* * * * * *
1770372 CATTGTTGTTAGAGTTTTACCCTCTTCTTATAATTAAAAAAAGAAAGAAGCAAAAACAAAATCAC
66 CATTGCTGTTAGAGTTTTGCCTTCCTCTTATAA-TCAAAAAA-AAA-AAGCAAAAACGAAATCAC
* * *
1770437 CGTTTACCATTTTAAATGGTGATTTTGCATATCCCATTAGTACTATTCAT
128 CGTTTACCATTTTAAATGGTGATTTAGCAGATCCCATTAGTACTGTTCAT
* *
1770487 TTCATACTATTTTAATAAATAATTTTGAAGTTATACTATTTTAAATGGTGATTTAGCATTAGCCG
1 TTCATGCTATTTTAATAAATAATTTTGAAGTTATACTATTTTAAATGGTGATTTAGCACTAGCCG
* * * * *
1770552 CATTGCTGTTAGAGTTTTGCCTTCCTCTTATAATTAAAAAGAAAAAGAAAAAATGAAATCATCGT
66 CATTGCTGTTAGAGTTTTGCCTTCCTCTTATAATCAAAAAAAAAAAGCAAAAACGAAATCACCGT
* * *
1770617 TTACCATTTTAAAGGGTGATTTAGCAGATCTCATTAGTACTATTCAT
131 TTACCATTTTAAATGGTGATTTAGCAGATCCCATTAGTACTGTTCAT
* * * *
1770664 TTCATGTTATTTTAATAAATAATTTTGAAGTTATATTATTTTAAAT-GTGATTTAGCACTAGACA
1 TTCATGCTATTTTAATAAATAATTTTGAAGTTATACTATTTTAAATGGTGATTTAGCACTAGCCG
* * * * * * *
1770728 CATTGCTGTTAGAATTTTTCCATCCTCTTAT-A--AATAAAAAAAA-CAAAAGCAAAATCATCGT
66 CATTGCTGTTAGAGTTTTGCCTTCCTCTTATAATCAAAAAAAAAAAGCAAAAACGAAATCACCGT
*
1770789 TTACCATTTTAAATGGTGATTTAGCAGATCTCATTAGTACTGTTCAT
131 TTACCATTTTAAATGGTGATTTAGCAGATCCCATTAGTACTGTTCAT
* * *
1770836 TTCATGCTACTTTAATAAATAATTTTGAAGTTATATTATTTTAAATGGTGATTTAGCACTAGGCG
1 TTCATGCTATTTTAATAAATAATTTTGAAGTTATACTATTTTAAATGGTGATTTAGCACTAGCCG
* * * * **
1770901 CATTGCTATTAGAGTTTTGCCTTCCTCTTATAATTAAAAACAAAAA-CAAAAACAAAATCATTGT
66 CATTGCTGTTAGAGTTTTGCCTTCCTCTTATAATCAAAAAAAAAAAGCAAAAACGAAATCACCGT
* * * * *
1770965 TTAACATTTTAAAGGGTGATTTAGTAGACCCCATTAGTACTGTTCAG
131 TTACCATTTTAAATGGTGATTTAGCAGATCCCATTAGTACTGTTCAT
1771012 TTCATGCTATTTTAATAAATAATTTTGAAGTTATACTATTTTAAATGGTGATTTAGCACTAGCCG
1 TTCATGCTATTTTAATAAATAATTTTGAAGTTATACTATTTTAAATGGTGATTTAGCACTAGCCG
* *
1771077 CATTGCTG-TAGGAGTTTTTCCTTCCTCTTATAATGCAAAAAAAAAAAGCAAAAATGAAATCACC
66 CATTGCTGTTA-GAGTTTTGCCTTCCTCTTATAAT-CAAAAAAAAAAAGCAAAAACGAAATCACC
* * *
1771141 GTTTACCATTTTAAAGGGTGATTTAGTAGATCCCATTAGTACCGTTCAT
129 GTTTACCATTTTAAATGGTGATTTAGCAGATCCCATTAGTACTGTTCAT
** *
1771190 TTCACACTATTTTAATAAATAATTTTGAAGTTATACTATTTTAAATGGTGATTTAGCACTAGCCA
1 TTCATGCTATTTTAATAAATAATTTTGAAGTTATACTATTTTAAATGGTGATTTAGCACTAGCCG
*
1771255 CATTGCTGTAAGAGTTTTGCCTTCCTCTTATAATTC-AAAAAAAAAAGCAAAAACGAAATCACCG
66 CATTGCTGTTAGAGTTTTGCCTTCCTCTTATAA-TCAAAAAAAAAAAGCAAAAACGAAATCACCG
* *
1771319 TTTACCATTTTAAAAGGTGATTTAGTAGATCCCATTAGTACTGTTCAT
130 TTTACCATTTTAAATGGTGATTTAGCAGATCCCATTAGTACTGTTCAT
* * * *
1771367 TTCATGGTATTTTAATAAATAATTTTGAATTTATATTTATTTTAAATGGTGATTTAGCACTAGAC
1 TTCATGCTATTTTAATAAATAATTTTGAAGTTATA-CTATTTTAAATGGTGATTTAGCACTAGCC
** * * * *
1771432 AAATTGTTGTTAAAGTTTTGCCCTCCTCTTATAATTC-AAAAAAAAAAGCAAAAAGTGAAATCAC
65 GCATTGCTGTTAGAGTTTTGCCTTCCTCTTATAA-TCAAAAAAAAAAAGCAAAAA-CGAAATCAC
* * * *
1771496 CATTTACCATTTTAAATGATGATTTATCAGATCCCATTAGTATTGTTCAT
128 CGTTTACCATTTTAAATGGTGATTTAGCAGATCCCATTAGTACTGTTCAT
* * *
1771546 TTCATGCTACTTTAATAAATAATTTTGAAGTTATACTATTTTTAATGGTGATTTAGCACTAGTCG
1 TTCATGCTATTTTAATAAATAATTTTGAAGTTATACTATTTTAAATGGTGATTTAGCACTAGCCG
* * * * *
1771611 TATTGTTGTTAGAGTTTTGCCTTCCTCTTATAATTAAAAAGAAAAAAGAAAAAACGAAATCACCA
66 CATTGCTGTTAGAGTTTTGCCTTCCTCTTATAATCAAAAA-AAAAAAGCAAAAACGAAATCACCG
*
1771676 TTTACCATTTTAAATGGTGATTTAGCAGAACCCATTAGTA-TGGTTCAT
130 TTTACCATTTTAAATGGTGATTTAGCAGATCCCATTAGTACT-GTTCAT
** * *
1771724 CCCATGCTATTTTAATAAATAATTTTGAAGTTATACTATTTTAAATGGTGATTTAGCACTAACTG
1 TTCATGCTATTTTAATAAATAATTTTGAAGTTATACTATTTTAAATGGTGATTTAGCACTAGCCG
* *
1771789 CATTACTGTTAGAGTTTTGCATTCCTCTTATAATTCAAACAAACAAAAAAAAAAGCAAAAACGAA
66 CATTGCTGTTAGAGTTTTGCCTTCCTCTTATAA-T----C--A-AAAAAAAAAAGCAAAAACGAA
* * * *
1771854 ATCACCTTTTACCATTTTAAATGGTGATTTAGCATATCCCATTGGTACAGTTCAT
123 ATCACCGTTTACCATTTTAAATGGTGATTTAGCAGATCCCATTAGTACTGTTCAT
* * *
1771909 TTCATGCTATTTTAATAAATAATTTTGAAGTTATATTATTTCAAATGGTGATTTAGCACTAGTCG
1 TTCATGCTATTTTAATAAATAATTTTGAAGTTATACTATTTTAAATGGTGATTTAGCACTAGCCG
* * * * * *
1771974 CATTGCTATAAAAGTTTTGCCCTCCTCTTATAATTCATAAAAAGAAGAAGCAGAAACGAAATCAC
66 CATTGCTGTTAGAGTTTTGCCTTCCTCTTATAA-TCA-AAAAA-AAAAAGCAAAAACGAAATCAC
*
1772039 TGTTTACCATTTTAAATGGTGATT
128 CGTTTACCATTTTAAATGGTGATT
1772063 AGACACATTA
Statistics
Matches: 1405, Mismatches: 146, Indels: 49
0.88 0.09 0.03
Matches are distributed among these distances:
172 103 0.07
173 52 0.04
174 1 0.00
175 3 0.00
176 200 0.14
177 219 0.16
178 428 0.30
179 147 0.10
180 94 0.07
181 1 0.00
185 153 0.11
186 4 0.00
ACGTcount: A:0.35, C:0.14, G:0.13, T:0.38
Consensus pattern (177 bp):
TTCATGCTATTTTAATAAATAATTTTGAAGTTATACTATTTTAAATGGTGATTTAGCACTAGCCG
CATTGCTGTTAGAGTTTTGCCTTCCTCTTATAATCAAAAAAAAAAAGCAAAAACGAAATCACCGT
TTACCATTTTAAATGGTGATTTAGCAGATCCCATTAGTACTGTTCAT
Found at i:1772238 original size:24 final size:25
Alignment explanation
Indices: 1772186--1772249 Score: 76
Period size: 24 Copynumber: 2.4 Consensus size: 25
1772176 CATTTCATGG
1772186 TATTTTAATAAATAATTTTGAAGTTATAT
1 TATTTTAAT-AATAATTTT--A-TTATAT
1772215 TATTTTAATAATAATTTT-TTATAT
1 TATTTTAATAATAATTTTATTATAT
*
1772239 TATTTAAATAA
1 TATTTTAATAA
1772250 AAAATAAAGA
Statistics
Matches: 34, Mismatches: 1, Indels: 5
0.85 0.03 0.12
Matches are distributed among these distances:
24 16 0.47
28 9 0.26
29 9 0.26
ACGTcount: A:0.42, C:0.00, G:0.03, T:0.55
Consensus pattern (25 bp):
TATTTTAATAATAATTTTATTATAT
Found at i:1778137 original size:30 final size:29
Alignment explanation
Indices: 1778103--1778184 Score: 137
Period size: 30 Copynumber: 2.7 Consensus size: 29
1778093 AGCAATGTGG
1778103 GGGCCTTAGCACAATACAGTAACAGAGTGT
1 GGGCCTTAGC-CAATACAGTAACAGAGTGT
1778133 GGGCCTTAGCCCAATACAGTAACAGAGTGT
1 GGGCCTTAG-CCAATACAGTAACAGAGTGT
1778163 GGGCCTTAGTCCAATACAGTAA
1 GGGCCTTAG-CCAATACAGTAA
1778185 TAGTGCAAAT
Statistics
Matches: 50, Mismatches: 1, Indels: 2
0.94 0.02 0.04
Matches are distributed among these distances:
30 49 0.98
31 1 0.02
ACGTcount: A:0.32, C:0.22, G:0.26, T:0.21
Consensus pattern (29 bp):
GGGCCTTAGCCAATACAGTAACAGAGTGT
Found at i:1778167 original size:60 final size:60
Alignment explanation
Indices: 1778072--1778184 Score: 149
Period size: 60 Copynumber: 1.9 Consensus size: 60
1778062 AGAATCAGTC
* * *
1778072 TGGGCCTGAGCCCTATATAGTAGCAATGTGGGGGCCTTAG-CACAATACAGTAACAGAGTG
1 TGGGCCTGAGCCCAATACAGTAACAATGTGGGGGCCTTAGTC-CAATACAGTAACAGAGTG
* *
1778132 TGGGCCTTAGCCCAATACAGTAACAGA-GTGTGGGCCTTAGTCCAATACAGTAA
1 TGGGCCTGAGCCCAATACAGTAACA-ATGTGGGGGCCTTAGTCCAATACAGTAA
1778185 TAGTGCAAAT
Statistics
Matches: 46, Mismatches: 5, Indels: 4
0.84 0.09 0.07
Matches are distributed among these distances:
60 44 0.96
61 2 0.04
ACGTcount: A:0.29, C:0.21, G:0.27, T:0.22
Consensus pattern (60 bp):
TGGGCCTGAGCCCAATACAGTAACAATGTGGGGGCCTTAGTCCAATACAGTAACAGAGTG
Found at i:1778330 original size:26 final size:26
Alignment explanation
Indices: 1778296--1778397 Score: 107
Period size: 26 Copynumber: 3.9 Consensus size: 26
1778286 CACTAATATT
1778296 GCAGCAAAGCTGCCAGTAATAGTAAC
1 GCAGCAAAGCTGCCAGTAATAGTAAC
* * * * *
1778322 GCAGTAAAGCTGCCAATAACATTAAT
1 GCAGCAAAGCTGCCAGTAATAGTAAC
* *
1778348 GCAACAGAGCTGCCAGT-ATCAGTAAC
1 GCAGCAAAGCTGCCAGTAAT-AGTAAC
* *
1778374 ACAGCAAAGCTGCTAGTAATAGTA
1 GCAGCAAAGCTGCCAGTAATAGTA
1778398 CTTGTGGTAA
Statistics
Matches: 58, Mismatches: 16, Indels: 4
0.74 0.21 0.05
Matches are distributed among these distances:
25 1 0.02
26 55 0.95
27 2 0.03
ACGTcount: A:0.39, C:0.22, G:0.21, T:0.19
Consensus pattern (26 bp):
GCAGCAAAGCTGCCAGTAATAGTAAC
Found at i:1778663 original size:54 final size:53
Alignment explanation
Indices: 1778593--1778951 Score: 304
Period size: 54 Copynumber: 6.7 Consensus size: 53
1778583 TATAACGGTC
1778593 ATTTTACCCTAT-AGGGGTATTTCGATAGTTTTACCCATCGAGGATATTTCGATA
1 ATTTTACCC-ATCAGGGGTATTTCGATA-TTTTACCCATCGAGGATATTTCGATA
* * *
1778647 ATTTTACCCATCAGGGGTATTTTGGTAGTTTTACCCATCGAGGATATTAT-GGTA
1 ATTTTACCCATCAGGGGTATTTCGATA-TTTTACCCATCGAGGATATT-TCGATA
* * ** *
1778701 ATTTTACCCATCAAGAGTATTTC-AGTCATTTTACTTATCGAGGATATTTC-AGTC
1 ATTTTACCCATCAGGGGTATTTCGA-T-ATTTTACCCATCGAGGATATTTCGA-TA
* *
1778755 ATTTTACCCATC-GAGGGTATTTC-AGTAATTTTACCCATTGATGG-TATTTCGGTA
1 ATTTTACCCATCAG-GGGTATTTCGA-T-ATTTTACCCATCGA-GGATATTTCGATA
* * ** *
1778809 ATTTTATCCATCAGGGGTATTTCGATAATTTTACCTATCGAGGGCATTTCAATA
1 ATTTTACCCATCAGGGGTATTTCGAT-ATTTTACCCATCGAGGATATTTCGATA
* * * * *
1778863 ATTTTACCCATC-GAGGGTAATGCAATCATTTTACCCAT-GAGGGTATTTCGGTA
1 ATTTTACCCATCAG-GGGTATTTCGAT-ATTTTACCCATCGAGGATATTTCGATA
* * * *
1778916 ATTTTACCCTTCGGGGGTAATTCAATCATTTTACCC
1 ATTTTACCCATCAGGGGTATTTCGAT-ATTTTACCC
1778952 TTCGGGAGTA
Statistics
Matches: 255, Mismatches: 36, Indels: 29
0.80 0.11 0.09
Matches are distributed among these distances:
53 50 0.20
54 199 0.78
55 6 0.02
ACGTcount: A:0.26, C:0.18, G:0.18, T:0.39
Consensus pattern (53 bp):
ATTTTACCCATCAGGGGTATTTCGATATTTTACCCATCGAGGATATTTCGATA
Found at i:1778708 original size:81 final size:81
Alignment explanation
Indices: 1778578--1778951 Score: 323
Period size: 81 Copynumber: 4.6 Consensus size: 81
1778568 TTTATCTCCT
** * * *
1778578 AGGGGTATAACGGTCATTTTACCCTATAG-GGGTATTTC-GATAGTTTTACCCATCGAGGATATT
1 AGGGGTATTTCGGTAATTTTACCC-ATCGAGGGTATTTCAG-TAATTTTACCCATCGAGGATATT
1778641 TCGATAATTTTACCCATC
64 TCGATAATTTTACCCATC
* * * * *
1778659 AGGGGTATTTTGGTAGTTTTACCCATCGAGGATATTAT-GGTAATTTTACCCATC-AAGAGTATT
1 AGGGGTATTTCGGTAATTTTACCCATCGAGGGTATT-TCAGTAATTTTACCCATCGAGGA-TATT
* **
1778722 TC-AGTCATTTTACTTATC
64 TCGA-TAATTTTACCCATC
* * * *
1778740 -GAGGATATTTCAGTCATTTTACCCATCGAGGGTATTTCAGTAATTTTACCCATTGATGG-TATT
1 AG-GGGTATTTCGGTAATTTTACCCATCGAGGGTATTTCAGTAATTTTACCCATCGA-GGATATT
* *
1778803 TCGGTAATTTTATCCATC
64 TCGATAATTTTACCCATC
* * * * * * *
1778821 AGGGGTATTTCGATAATTTTACCTATCGAGGGCATTTCAATAATTTTACCCATCGAGGGTAATGC
1 AGGGGTATTTCGGTAATTTTACCCATCGAGGGTATTTCAGTAATTTTACCCATCGAGGATATTTC
* * *
1778886 AATCATTTTACCCATG
66 GATAATTTTACCCATC
* * * * *
1778902 A-GGGTATTTCGGTAATTTTACCCTTCGGGGGTAATTCAATCATTTTACCC
1 AGGGGTATTTCGGTAATTTTACCCATCGAGGGTATTTCAGTAATTTTACCC
1778952 TTCGGGAGTA
Statistics
Matches: 233, Mismatches: 48, Indels: 25
0.76 0.16 0.08
Matches are distributed among these distances:
80 53 0.23
81 175 0.75
82 4 0.02
83 1 0.00
ACGTcount: A:0.26, C:0.18, G:0.19, T:0.38
Consensus pattern (81 bp):
AGGGGTATTTCGGTAATTTTACCCATCGAGGGTATTTCAGTAATTTTACCCATCGAGGATATTTC
GATAATTTTACCCATC
Found at i:1778946 original size:27 final size:27
Alignment explanation
Indices: 1778593--1778965 Score: 220
Period size: 27 Copynumber: 13.9 Consensus size: 27
1778583 TATAACGGTC
* * *
1778593 ATTTTACCCTATAG-GGGTATTTCGATA
1 ATTTTACCC-ATCGAGGGTAATTCAATA
* * * *
1778620 GTTTTACCCATCGAGGATATTTCGATA
1 ATTTTACCCATCGAGGGTAATTCAATA
* ***
1778647 ATTTTACCCATC-AGGGGTATTTTGGTA
1 ATTTTACCCATCGA-GGGTAATTCAATA
* * *
1778674 GTTTTACCCATCGAGGAT-ATT-ATGGTA
1 ATTTTACCCATCGAGGGTAATTCA--ATA
* * * * *
1778701 ATTTTACCCATCAAGAGTATTTCAGTC
1 ATTTTACCCATCGAGGGTAATTCAATA
** * * * *
1778728 ATTTTACTTATCGAGGATATTTCAGTC
1 ATTTTACCCATCGAGGGTAATTCAATA
* *
1778755 ATTTTACCCATCGAGGGTATTTCAGTA
1 ATTTTACCCATCGAGGGTAATTCAATA
* * * **
1778782 ATTTTACCCATTGATGGTATTTCGGTA
1 ATTTTACCCATCGAGGGTAATTCAATA
* * *
1778809 ATTTTATCCATC-AGGGGTATTTCGATA
1 ATTTTACCCATCGA-GGGTAATTCAATA
* * *
1778836 ATTTTACCTATCGAGGGCATTTCAATA
1 ATTTTACCCATCGAGGGTAATTCAATA
* *
1778863 ATTTTACCCATCGAGGGTAATGCAATC
1 ATTTTACCCATCGAGGGTAATTCAATA
* **
1778890 ATTTTACCCAT-GAGGGTATTTCGGTA
1 ATTTTACCCATCGAGGGTAATTCAATA
* * *
1778916 ATTTTACCCTTCGGGGGTAATTCAATC
1 ATTTTACCCATCGAGGGTAATTCAATA
*
1778943 ATTTTACCCTTCG-GGAGTAATTC
1 ATTTTACCCATCGAGG-GTAATTC
1778966 GGTCATTTGT
Statistics
Matches: 282, Mismatches: 53, Indels: 22
0.79 0.15 0.06
Matches are distributed among these distances:
26 29 0.10
27 248 0.88
28 4 0.01
29 1 0.00
ACGTcount: A:0.25, C:0.18, G:0.18, T:0.39
Consensus pattern (27 bp):
ATTTTACCCATCGAGGGTAATTCAATA
Found at i:1785132 original size:10 final size:10
Alignment explanation
Indices: 1785117--1785159 Score: 50
Period size: 10 Copynumber: 4.1 Consensus size: 10
1785107 ATTAACATGT
1785117 TTAATTTTAA
1 TTAATTTTAA
1785127 TTAATTTTATAA
1 TTAA-TTT-TAA
* *
1785139 TAAATTTTTA
1 TTAATTTTAA
1785149 TTAATTTTAA
1 TTAATTTTAA
1785159 T
1 T
1785160 CGTTTTCAAC
Statistics
Matches: 27, Mismatches: 4, Indels: 4
0.77 0.11 0.11
Matches are distributed among these distances:
10 15 0.56
11 6 0.22
12 6 0.22
ACGTcount: A:0.40, C:0.00, G:0.00, T:0.60
Consensus pattern (10 bp):
TTAATTTTAA
Found at i:1788787 original size:16 final size:17
Alignment explanation
Indices: 1788750--1788792 Score: 54
Period size: 16 Copynumber: 2.6 Consensus size: 17
1788740 AAATTTAAAC
1788750 ATTTT-ATTAAAATAAT
1 ATTTTAATTAAAATAAT
*
1788766 AGTTTAATTAAAATAAT
1 ATTTTAATTAAAATAAT
*
1788783 -TTTTATTTAA
1 ATTTTAATTAA
1788793 TAAATTATAA
Statistics
Matches: 23, Mismatches: 3, Indels: 2
0.82 0.11 0.07
Matches are distributed among these distances:
16 12 0.52
17 11 0.48
ACGTcount: A:0.47, C:0.00, G:0.02, T:0.51
Consensus pattern (17 bp):
ATTTTAATTAAAATAAT
Found at i:1792063 original size:60 final size:60
Alignment explanation
Indices: 1791970--1792090 Score: 233
Period size: 60 Copynumber: 2.0 Consensus size: 60
1791960 AACGCTATTG
1791970 CTAAGTAACACGCCCCCCCACCCCCCCACCCCCCAAAAATACGAATTTAAGCTAAAAAGC
1 CTAAGTAACACGCCCCCCCACCCCCCCACCCCCCAAAAATACGAATTTAAGCTAAAAAGC
*
1792030 CTAAGTAACACGCCCCCCCCCCCCCCCACCCCCCAAAAATACGAATTTAAGCTAAAAAGC
1 CTAAGTAACACGCCCCCCCACCCCCCCACCCCCCAAAAATACGAATTTAAGCTAAAAAGC
1792090 C
1 C
1792091 GACCAACCTG
Statistics
Matches: 60, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
60 60 1.00
ACGTcount: A:0.36, C:0.45, G:0.08, T:0.12
Consensus pattern (60 bp):
CTAAGTAACACGCCCCCCCACCCCCCCACCCCCCAAAAATACGAATTTAAGCTAAAAAGC
Found at i:1794856 original size:3 final size:3
Alignment explanation
Indices: 1794848--1794881 Score: 59
Period size: 3 Copynumber: 11.3 Consensus size: 3
1794838 GTACTCAATA
*
1794848 TAT TAT TAT TAT TAT GAT TAT TAT TAT TAT TAT T
1 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT T
1794882 CCTTTCTTTT
Statistics
Matches: 29, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
3 29 1.00
ACGTcount: A:0.32, C:0.00, G:0.03, T:0.65
Consensus pattern (3 bp):
TAT
Found at i:1802081 original size:45 final size:44
Alignment explanation
Indices: 1801983--1802421 Score: 343
Period size: 44 Copynumber: 10.0 Consensus size: 44
1801973 GGACCTACTA
* * *** * *
1801983 TCTTTGATCTACTTCA-CGCTAGTACATGAAGATAAGATCTATT
1 TCTTTGATCTACTTCACCACCAGTATGGGAAGACAAGATCTGTT
* * *
1802026 GTCTTCGATCTACTTCACCACCAATATGGGGAGACAAGATCTGTT
1 -TCTTTGATCTACTTCACCACCAGTATGGGAAGACAAGATCTGTT
* *** *
1802071 ATCTTTGATCTACTTCA-CGCCAGTACCTGAAGACAAGATCTAATT
1 -TCTTTGATCTACTTCACCACCAGTATGGGAAGACAAGATCT-GTT
* * *
1802116 T-TTTCGATCTACTCCACCACTAGTATGGGGAGACAAGATCTGTT
1 TCTTT-GATCTACTTCACCACCAGTATGGGAAGACAAGATCTGTT
* *** * *
1802160 TCTTTGATCTACTTCA-CGCCAGTACATGAAAATAAGATCTGCTT
1 TCTTTGATCTACTTCACCACCAGTATGGGAAGACAAGATCTG-TT
* * * * *
1802204 TCTTCGATCTGCTTCGCCACCAGTATGGGAAGGCAAGATCTGGT
1 TCTTTGATCTACTTCACCACCAGTATGGGAAGACAAGATCTGTT
* ***
1802248 TCTTTGATCTACTTCA-CGCCAGTACATGAAGACAAGATCTGCTT
1 TCTTTGATCTACTTCACCACCAGTATGGGAAGACAAGATCTG-TT
* * * ** *
1802292 TCTTCGATCTGCTTCGCCACCAGTATGGGAAGGTAAGATCTGGT
1 TCTTTGATCTACTTCACCACCAGTATGGGAAGACAAGATCTGTT
* ***
1802336 TCTTTGATCTACTTCA-CGCCAGTACATGAAGACAAGATCTGCTT
1 TCTTTGATCTACTTCACCACCAGTATGGGAAGACAAGATCTG-TT
* * *
1802380 T-TTTCGATCTGCTTCGCCACCAGTATGGGAAGGCAAGATCTG
1 TCTTT-GATCTACTTCACCACCAGTATGGGAAGACAAGATCTG
1802422 GTATATTCGA
Statistics
Matches: 300, Mismatches: 83, Indels: 23
0.74 0.20 0.06
Matches are distributed among these distances:
43 62 0.21
44 125 0.42
45 113 0.38
ACGTcount: A:0.26, C:0.23, G:0.19, T:0.31
Consensus pattern (44 bp):
TCTTTGATCTACTTCACCACCAGTATGGGAAGACAAGATCTGTT
Found at i:1802211 original size:88 final size:88
Alignment explanation
Indices: 1801983--1802423 Score: 641
Period size: 88 Copynumber: 5.0 Consensus size: 88
1801973 GGACCTACTA
* * * * *
1801983 TCTTTGATCTACTTCACGCTAGTACATGAAGATAAGATCT-ATTGTCTTCGATCTACTTCACCAC
1 TCTTTGATCTACTTCACGCCAGTACATGAAGACAAGATCTGCTT-TCTTCGATCTGCTTCGCCAC
* * * *
1802047 CAATATGGGGAGACAAGATCTGTT
65 CAGTATGGGAAGGCAAGATCTGGT
* ** * * * *
1802071 ATCTTTGATCTACTTCACGCCAGTACCTGAAGACAAGATCTAATTTTTTCGATCTACTCCACCAC
1 -TCTTTGATCTACTTCACGCCAGTACATGAAGACAAGATCTGCTTTCTTCGATCTGCTTCGCCAC
* * * *
1802136 TAGTATGGGGAGACAAGATCTGTT
65 CAGTATGGGAAGGCAAGATCTGGT
* *
1802160 TCTTTGATCTACTTCACGCCAGTACATGAAAATAAGATCTGCTTTCTTCGATCTGCTTCGCCACC
1 TCTTTGATCTACTTCACGCCAGTACATGAAGACAAGATCTGCTTTCTTCGATCTGCTTCGCCACC
1802225 AGTATGGGAAGGCAAGATCTGGT
66 AGTATGGGAAGGCAAGATCTGGT
1802248 TCTTTGATCTACTTCACGCCAGTACATGAAGACAAGATCTGCTTTCTTCGATCTGCTTCGCCACC
1 TCTTTGATCTACTTCACGCCAGTACATGAAGACAAGATCTGCTTTCTTCGATCTGCTTCGCCACC
*
1802313 AGTATGGGAAGGTAAGATCTGGT
66 AGTATGGGAAGGCAAGATCTGGT
*
1802336 TCTTTGATCTACTTCACGCCAGTACATGAAGACAAGATCTGCTTTTTTCGATCTGCTTCGCCACC
1 TCTTTGATCTACTTCACGCCAGTACATGAAGACAAGATCTGCTTTCTTCGATCTGCTTCGCCACC
1802401 AGTATGGGAAGGCAAGATCTGGT
66 AGTATGGGAAGGCAAGATCTGGT
1802424 ATATTCGATC
Statistics
Matches: 326, Mismatches: 25, Indels: 3
0.92 0.07 0.01
Matches are distributed among these distances:
88 246 0.75
89 77 0.24
90 3 0.01
ACGTcount: A:0.26, C:0.23, G:0.20, T:0.31
Consensus pattern (88 bp):
TCTTTGATCTACTTCACGCCAGTACATGAAGACAAGATCTGCTTTCTTCGATCTGCTTCGCCACC
AGTATGGGAAGGCAAGATCTGGT
Found at i:1813730 original size:45 final size:44
Alignment explanation
Indices: 1813675--1813768 Score: 109
Period size: 44 Copynumber: 2.1 Consensus size: 44
1813665 AGATCTGTAA
* * * ** *
1813675 TCTTCAATCTACTTCGCCGCCAGTATGGGAAGACAAGATTTGCTT
1 TCTTCTATCTACTTC-ACGCCAATACAGGAAGACAAGATCTGCTT
*
1813720 TCTTCTATCTACTTCACGCCAATACATGAAGACAAGATCTGCTT
1 TCTTCTATCTACTTCACGCCAATACAGGAAGACAAGATCTGCTT
1813764 T-TTCT
1 TCTTCT
1813769 GATCGATTCC
Statistics
Matches: 42, Mismatches: 7, Indels: 2
0.82 0.14 0.04
Matches are distributed among these distances:
43 4 0.10
44 24 0.57
45 14 0.33
ACGTcount: A:0.26, C:0.26, G:0.15, T:0.34
Consensus pattern (44 bp):
TCTTCTATCTACTTCACGCCAATACAGGAAGACAAGATCTGCTT
Found at i:1813843 original size:220 final size:220
Alignment explanation
Indices: 1813454--1813927 Score: 921
Period size: 220 Copynumber: 2.2 Consensus size: 220
1813444 TAAGACTTGT
* * *
1813454 ATCTTCGATCTACTTCACCACCAGTATGGGAAGACAAGATTTGCTTTCTTCTATCTACTTCACGC
1 ATCTTCAATCTACTTCGCCGCCAGTATGGGAAGACAAGATTTGCTTTCTTCTATCTACTTCACGC
1813519 CAATACATGAAGACAAGATCTGCTTTTTCTGATCGATTCCACTACCGACCGGGGAGGTAGAATTA
66 CAATACATGAAGACAAGATCTGCTTTTTCTGATCGATTCCACTACCGACCGGGGAGGTAGAATTA
1813584 CTGGCTTTAATATACTCCACTGCAACTTCAGGAAGGTAAAATCCGCATCTTCGATCTGTTCCACT
131 CTGGCTTTAATATACTCCACTGCAACTTCAGGAAGGTAAAATCCGCATCTTCGATCTGTTCCACT
1813649 ACTGCTTAGGGAGGCAAGATCTGTA
196 ACTGCTTAGGGAGGCAAGATCTGTA
1813674 ATCTTCAATCTACTTCGCCGCCAGTATGGGAAGACAAGATTTGCTTTCTTCTATCTACTTCACGC
1 ATCTTCAATCTACTTCGCCGCCAGTATGGGAAGACAAGATTTGCTTTCTTCTATCTACTTCACGC
1813739 CAATACATGAAGACAAGATCTGCTTTTTCTGATCGATTCCACTACCGACCGGGGAGGTAGAATTA
66 CAATACATGAAGACAAGATCTGCTTTTTCTGATCGATTCCACTACCGACCGGGGAGGTAGAATTA
1813804 CTGGCTTTAATATACTCCACTGCAACTTCAGGAAGGTAAAATCCGCATCTTCGATCTGTTCCACT
131 CTGGCTTTAATATACTCCACTGCAACTTCAGGAAGGTAAAATCCGCATCTTCGATCTGTTCCACT
1813869 ACTGCTTAGGGAGGCAAGATCTGTA
196 ACTGCTTAGGGAGGCAAGATCTGTA
1813894 ATCTTCAATCTACTTCGCCGCCAGTATGGGAAGA
1 ATCTTCAATCTACTTCGCCGCCAGTATGGGAAGA
1813928 TAAAATATGT
Statistics
Matches: 251, Mismatches: 3, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
220 251 1.00
ACGTcount: A:0.27, C:0.25, G:0.19, T:0.29
Consensus pattern (220 bp):
ATCTTCAATCTACTTCGCCGCCAGTATGGGAAGACAAGATTTGCTTTCTTCTATCTACTTCACGC
CAATACATGAAGACAAGATCTGCTTTTTCTGATCGATTCCACTACCGACCGGGGAGGTAGAATTA
CTGGCTTTAATATACTCCACTGCAACTTCAGGAAGGTAAAATCCGCATCTTCGATCTGTTCCACT
ACTGCTTAGGGAGGCAAGATCTGTA
Found at i:1818794 original size:7 final size:7
Alignment explanation
Indices: 1818782--1818817 Score: 72
Period size: 7 Copynumber: 5.1 Consensus size: 7
1818772 TGGAAATTGT
1818782 GGAAAGG
1 GGAAAGG
1818789 GGAAAGG
1 GGAAAGG
1818796 GGAAAGG
1 GGAAAGG
1818803 GGAAAGG
1 GGAAAGG
1818810 GGAAAGG
1 GGAAAGG
1818817 G
1 G
1818818 CTTGGAAGGA
Statistics
Matches: 29, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 29 1.00
ACGTcount: A:0.42, C:0.00, G:0.58, T:0.00
Consensus pattern (7 bp):
GGAAAGG
Found at i:1819050 original size:14 final size:15
Alignment explanation
Indices: 1819025--1819053 Score: 51
Period size: 14 Copynumber: 2.0 Consensus size: 15
1819015 ATCACTAGAT
1819025 AAATCAAAATTTAAA
1 AAATCAAAATTTAAA
1819040 AAATC-AAATTTAAA
1 AAATCAAAATTTAAA
1819054 CTAATTATAG
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
14 9 0.64
15 5 0.36
ACGTcount: A:0.66, C:0.07, G:0.00, T:0.28
Consensus pattern (15 bp):
AAATCAAAATTTAAA
Found at i:1819128 original size:29 final size:29
Alignment explanation
Indices: 1819095--1819151 Score: 87
Period size: 29 Copynumber: 2.0 Consensus size: 29
1819085 AATTTGATCT
* *
1819095 TTATCCAACCAATTTTAAATATTCAATCA
1 TTATCCAACCAACTTCAAATATTCAATCA
*
1819124 TTATCCAACCAACTTCAAATCTTCAATC
1 TTATCCAACCAACTTCAAATATTCAATC
1819152 TTTCAACCTA
Statistics
Matches: 25, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
29 25 1.00
ACGTcount: A:0.39, C:0.26, G:0.00, T:0.35
Consensus pattern (29 bp):
TTATCCAACCAACTTCAAATATTCAATCA
Found at i:1819502 original size:18 final size:19
Alignment explanation
Indices: 1819469--1819505 Score: 58
Period size: 18 Copynumber: 2.0 Consensus size: 19
1819459 TGATAGATGA
*
1819469 TAGATGATGTTTTATTTTT
1 TAGATAATGTTTTATTTTT
1819488 TAGATAATG-TTTATTTTT
1 TAGATAATGTTTTATTTTT
1819506 ATTGACTATA
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
18 9 0.53
19 8 0.47
ACGTcount: A:0.24, C:0.00, G:0.14, T:0.62
Consensus pattern (19 bp):
TAGATAATGTTTTATTTTT
Found at i:1828205 original size:13 final size:13
Alignment explanation
Indices: 1828189--1828223 Score: 52
Period size: 13 Copynumber: 2.6 Consensus size: 13
1828179 TAAAACCCAA
*
1828189 ATATAAAATATAT
1 ATATAAAATAAAT
1828202 ATATAAAATAAAT
1 ATATAAAATAAAT
1828215 ATAATAAAA
1 AT-ATAAAA
1828224 GTCCAATACT
Statistics
Matches: 20, Mismatches: 1, Indels: 1
0.91 0.05 0.05
Matches are distributed among these distances:
13 14 0.70
14 6 0.30
ACGTcount: A:0.69, C:0.00, G:0.00, T:0.31
Consensus pattern (13 bp):
ATATAAAATAAAT
Found at i:1830892 original size:14 final size:14
Alignment explanation
Indices: 1830875--1830902 Score: 56
Period size: 14 Copynumber: 2.0 Consensus size: 14
1830865 CTCACATTTC
1830875 TTTTCTTTTCTCCA
1 TTTTCTTTTCTCCA
1830889 TTTTCTTTTCTCCA
1 TTTTCTTTTCTCCA
1830903 GATTTCTGCT
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 14 1.00
ACGTcount: A:0.07, C:0.29, G:0.00, T:0.64
Consensus pattern (14 bp):
TTTTCTTTTCTCCA
Found at i:1830893 original size:19 final size:18
Alignment explanation
Indices: 1830855--1830899 Score: 58
Period size: 19 Copynumber: 2.5 Consensus size: 18
1830845 TACGGTACGC
1830855 TTCTTTTC-TTCTCACAT
1 TTCTTTTCTTTCTCACAT
1830872 TTCTTTTCTTTTCTC-CATT
1 TTCTTTTC-TTTCTCACA-T
1830891 TTCTTTTCT
1 TTCTTTTCT
1830900 CCAGATTTCT
Statistics
Matches: 25, Mismatches: 0, Indels: 5
0.83 0.00 0.17
Matches are distributed among these distances:
17 8 0.32
18 3 0.12
19 14 0.56
ACGTcount: A:0.07, C:0.27, G:0.00, T:0.67
Consensus pattern (18 bp):
TTCTTTTCTTTCTCACAT
Found at i:1833921 original size:58 final size:56
Alignment explanation
Indices: 1833859--1833968 Score: 125
Period size: 58 Copynumber: 1.9 Consensus size: 56
1833849 TATATTTTTA
1833859 TATT-ATTATATATCATGATTTTAGTAAATTCATA-TAAGAATAATTATATTAAGAATTT
1 TATTAATTATATAT-AT--TTTTAGTAAATT-ATATTAAGAATAATTATATTAAGAATTT
* * *
1833917 TATTAAATTATATATATTTTTATTAAATTATATTTAATAATAATTATGTTAA
1 TATT-AATTATATATATTTTTAGTAAATTATA-TTAAGAATAATTATATTAA
1833969 AATATGATTA
Statistics
Matches: 45, Mismatches: 3, Indels: 8
0.80 0.05 0.14
Matches are distributed among these distances:
56 3 0.07
57 11 0.24
58 20 0.44
59 2 0.04
60 9 0.20
ACGTcount: A:0.44, C:0.02, G:0.05, T:0.50
Consensus pattern (56 bp):
TATTAATTATATATATTTTTAGTAAATTATATTAAGAATAATTATATTAAGAATTT
Found at i:1833979 original size:57 final size:57
Alignment explanation
Indices: 1833863--1833991 Score: 136
Period size: 57 Copynumber: 2.2 Consensus size: 57
1833853 TTTTTATATT
* *
1833863 ATTATATATCATGATTTTAGTAAATTCATATAAGAATAATTATATTAAGAATTTTATTAA
1 ATTATATAT-AT--TTTTAGTAAATTCATATAAGAATAATTATATTAAGAATATGATTAA
* * *
1833923 ATTATATATATTTTTATTAAATT-ATATTTAATAATAATTATGTTAA-AATATGATTAA
1 ATTATATATATTTTTAGTAAATTCATA--TAAGAATAATTATATTAAGAATATGATTAA
* *
1833980 AATATTTATATT
1 ATTATATATATT
1833992 ATATTATTTT
Statistics
Matches: 60, Mismatches: 7, Indels: 7
0.81 0.09 0.09
Matches are distributed among these distances:
56 3 0.05
57 30 0.50
58 16 0.27
59 2 0.03
60 9 0.15
ACGTcount: A:0.45, C:0.02, G:0.05, T:0.49
Consensus pattern (57 bp):
ATTATATATATTTTTAGTAAATTCATATAAGAATAATTATATTAAGAATATGATTAA
Found at i:1833986 original size:35 final size:37
Alignment explanation
Indices: 1833946--1834022 Score: 90
Period size: 35 Copynumber: 2.2 Consensus size: 37
1833936 TTATTAAATT
1833946 ATATTTAATAATA-ATTATGTTAA-AATATGATTAAA
1 ATATTTAATAATATATTATGTTAATAATATGATTAAA
* * * *
1833981 ATATTT-ATATTATATTATTTTAATAATCTTATTAAA
1 ATATTTAATAATATATTATGTTAATAATATGATTAAA
1834017 AT-TTTA
1 ATATTTA
1834023 NCTAATCCTT
Statistics
Matches: 35, Mismatches: 4, Indels: 5
0.80 0.09 0.11
Matches are distributed among these distances:
34 5 0.14
35 18 0.51
36 12 0.34
ACGTcount: A:0.45, C:0.01, G:0.03, T:0.51
Consensus pattern (37 bp):
ATATTTAATAATATATTATGTTAATAATATGATTAAA
Found at i:1844039 original size:175 final size:175
Alignment explanation
Indices: 1843706--1844207 Score: 846
Period size: 175 Copynumber: 2.9 Consensus size: 175
1843696 GAAGATGGCG
* * ** *
1843706 GATCTTATCTCCCTAAGATTACAGTGGAGCAGATTGAAGCCAGTAATCCTATTTCCCTGAGATCA
1 GATCTTATCTCCCTGAGATTACAGCGGAAAAGATTGAAGCCAGTAATCCTATTTCCCTGAGATTA
* ** *
1843771 TAGTGGAACGGATTAAAA-AAGTGATCTTATCTCTCTGAAGTTACAGTAGAGTAGATCGCATCAG
66 CAGTGGAACGGATTAAAATAAAAGATCTTATCTCTCTGAAATTACAGTAGAGTAGATCGCATCAG
1843835 GTCTTATCTCCCTGAGATTACAGTGGAATAGACCGAAGAATTACA
131 GTCTTATCTCCCTGAGATTACAGTGGAATAGACCGAAGAATTACA
1843880 GATCTTATCTCCCTGAGATTACAGCGGAAAAGATTGAAGCCAGTAATCCTATTTCCCTGAGATTA
1 GATCTTATCTCCCTGAGATTACAGCGGAAAAGATTGAAGCCAGTAATCCTATTTCCCTGAGATTA
* *
1843945 CAGTGGAGCGGATTAAAATAAAAGATCTTATCTCTTTGAAATTACAGTAGAGTAGATCGCATCAG
66 CAGTGGAACGGATTAAAATAAAAGATCTTATCTCTCTGAAATTACAGTAGAGTAGATCGCATCAG
1844010 GTCTTATCTCCCTGAGATTACAGTGGAATAGACCGAAGAATTACA
131 GTCTTATCTCCCTGAGATTACAGTGGAATAGACCGAAGAATTACA
1844055 GATCTTATCTCCCTGAGATTACAGCGGAAAAGATTGAAGCCAGTAATCCTATTTCCCTGAGATTA
1 GATCTTATCTCCCTGAGATTACAGCGGAAAAGATTGAAGCCAGTAATCCTATTTCCCTGAGATTA
* * *
1844120 CAGTGGAACAGATTAAAATAAAGGATCTTATCTCTCT-AAAGTTACAGTTGAGTAGATCGCATCA
66 CAGTGGAACGGATTAAAATAAAAGATCTTATCTCTCTGAAA-TTACAGTAGAGTAGATCGCATCA
*
1844184 GGTCTTATCTCACTGAGATTACAG
130 GGTCTTATCTCCCTGAGATTACAG
1844208 CGGAGCAGAT
Statistics
Matches: 309, Mismatches: 17, Indels: 3
0.94 0.05 0.01
Matches are distributed among these distances:
174 79 0.26
175 230 0.74
ACGTcount: A:0.33, C:0.19, G:0.20, T:0.28
Consensus pattern (175 bp):
GATCTTATCTCCCTGAGATTACAGCGGAAAAGATTGAAGCCAGTAATCCTATTTCCCTGAGATTA
CAGTGGAACGGATTAAAATAAAAGATCTTATCTCTCTGAAATTACAGTAGAGTAGATCGCATCAG
GTCTTATCTCCCTGAGATTACAGTGGAATAGACCGAAGAATTACA
Found at i:1844133 original size:44 final size:44
Alignment explanation
Indices: 1843707--1844859 Score: 342
Period size: 44 Copynumber: 26.6 Consensus size: 44
1843697 AAGATGGCGG
* *
1843707 ATCTTATCTCCCTAAGATTACAGTGGAGCAGATTGAAGCCAGTA
1 ATCTTATCTCCCTGAGATTACAGTGGAACAGATTGAAGCCAGTA
* * * * * *** *
1843751 ATCCTATTTCCCTGAGATCATAGTGGAACGGATT-AAAAAAGTG
1 ATCTTATCTCCCTGAGATTACAGTGGAACAGATTGAAGCCAGTA
* * ** * * *
1843794 ATCTTATCTCTCTGA-AGTTACAGTAGAGTAGATCGCA-TCAG--
1 ATCTTATCTCCCTGAGA-TTACAGTGGAACAGATTGAAGCCAGTA
* * ** * *
1843835 GTCTTATCTCCCTGAGATTACAGTGGAATAGACCGAAG-AATTACA
1 ATCTTATCTCCCTGAGATTACAGTGGAACAGATTGAAGCCAGT--A
* *
1843880 GATCTTATCTCCCTGAGATTACAGCGGAAAAGATTGAAGCCAGTA
1 -ATCTTATCTCCCTGAGATTACAGTGGAACAGATTGAAGCCAGTA
* * * * *** **
1843925 ATCCTATTTCCCTGAGATTACAGTGGAGCGGATT-AAAATAAAA
1 ATCTTATCTCCCTGAGATTACAGTGGAACAGATTGAAGCCAGTA
** * * ** * * *
1843968 GATCTTATCTCTTTGAAATTACAGTAGAGTAGATCGCA-TCAG--
1 -ATCTTATCTCCCTGAGATTACAGTGGAACAGATTGAAGCCAGTA
* * ** * *
1844010 GTCTTATCTCCCTGAGATTACAGTGGAATAGACCGAAG-AATTACA
1 ATCTTATCTCCCTGAGATTACAGTGGAACAGATTGAAGCCAGT--A
* *
1844055 GATCTTATCTCCCTGAGATTACAGCGGAAAAGATTGAAGCCAGTA
1 -ATCTTATCTCCCTGAGATTACAGTGGAACAGATTGAAGCCAGTA
* * * *** *
1844100 ATCCTATTTCCCTGAGATTACAGTGGAACAGATTAAAATAAAG-G
1 ATCTTATCTCCCTGAGATTACAGTGGAACAGATT-GAAGCCAGTA
* * * ** * * *
1844144 ATCTTATCTCTCT-AAAGTTACAGTTGAGTAGATCGCA-TCAG--
1 ATCTTATCTCCCTGAGA-TTACAGTGGAACAGATTGAAGCCAGTA
* * * * * *
1844185 GTCTTATCTCACTGAGATTACAGCGGAGCAGATTAAAGCTAGTA
1 ATCTTATCTCCCTGAGATTACAGTGGAACAGATTGAAGCCAGTA
* * * *** *
1844229 ATCCTATCTCCCTGAGATTACAGTGGAGC-GAGTTAAAATAAAG-G
1 ATCTTATCTCCCTGAGATTACAGTGGAACAGA-TT-GAAGCCAGTA
* ** * * *
1844273 ATCTTATCT--CTGA-AGTTACAGTAGAGTAGATCGTA-TCAG--
1 ATCTTATCTCCCTGAGA-TTACAGTGGAACAGATTGAAGCCAGTA
* * ** * *
1844312 GTCTTATCTCCCTGAGATTACAGTGGAATAGACCGAAG-AATTACA
1 ATCTTATCTCCCTGAGATTACAGTGGAACAGATTGAAGCCAGT--A
* *
1844357 GATCTTATCTCCCTGAGATTACAGCGGAAAAGATTGAAGCCAGTA
1 -ATCTTATCTCCCTGAGATTACAGTGGAACAGATTGAAGCCAGTA
* * * *** *
1844402 ATCCTATTTCCCTGAGATTACAGTGGAACAGATTAAAATAAAG-G
1 ATCTTATCTCCCTGAGATTACAGTGGAACAGATT-GAAGCCAGTA
* * * ** * * *
1844446 ATCTTATCTCTCT-AAAGTTACAGTTGAGTAGATCGCA-TCAG--
1 ATCTTATCTCCCTGAGA-TTACAGTGGAACAGATTGAAGCCAGTA
* * * * * *
1844487 GTCTTATCTCACTGAGATTACAGCGGAGCAGATTAAAGCTAGTA
1 ATCTTATCTCCCTGAGATTACAGTGGAACAGATTGAAGCCAGTA
* * * *** *
1844531 ATCCTATCTCCCTGAGATTACAGTGGAGC-GAGTTAAAATAAAG-G
1 ATCTTATCTCCCTGAGATTACAGTGGAACAGA-TT-GAAGCCAGTA
* ** * * *
1844575 ATCTTATCT--CTGA-AGTTACAGTAGAGTAGATCGTA-TCAG--
1 ATCTTATCTCCCTGAGA-TTACAGTGGAACAGATTGAAGCCAGTA
* * ** * *
1844614 GTCTTATCTCCCTGAGATTACAGTGGAATAGACCGAAG-AATTACA
1 ATCTTATCTCCCTGAGATTACAGTGGAACAGATTGAAGCCAGT--A
* *
1844659 GATCTTATCTCCCTGAGATTACAGCGGAAAAGATTGAAGCCAGTA
1 -ATCTTATCTCCCTGAGATTACAGTGGAACAGATTGAAGCCAGTA
* * * *** *
1844704 ATCCTATTTCCCTGAGATTACAGTGGAACAGATTAAAATAAAG-G
1 ATCTTATCTCCCTGAGATTACAGTGGAACAGATT-GAAGCCAGTA
* * * ** * * *
1844748 ATCTTATCTCTCT-AAAGTTACAGTTGAGTAGATCGCA-TCAG--
1 ATCTTATCTCCCTGAGA-TTACAGTGGAACAGATTGAAGCCAGTA
* * * * * *
1844789 GTCTTATCTCACTGAGATTACAGCGGAGCAGATTAAAGCTAGTA
1 ATCTTATCTCCCTGAGATTACAGTGGAACAGATTGAAGCCAGTA
*
1844833 ATCCTATCTCCCTGAGATTACAGTGGA
1 ATCTTATCTCCCTGAGATTACAGTGGA
1844860 GCGAGTTAAA
Statistics
Matches: 804, Mismatches: 240, Indels: 130
0.68 0.20 0.11
Matches are distributed among these distances:
39 16 0.02
40 4 0.00
41 181 0.23
42 52 0.06
43 50 0.06
44 334 0.42
45 27 0.03
46 132 0.16
47 8 0.01
ACGTcount: A:0.33, C:0.19, G:0.20, T:0.28
Consensus pattern (44 bp):
ATCTTATCTCCCTGAGATTACAGTGGAACAGATTGAAGCCAGTA
Found at i:1844371 original size:129 final size:127
Alignment explanation
Indices: 1844057--1844391 Score: 390
Period size: 129 Copynumber: 2.6 Consensus size: 127
1844047 GAATTACAGA
* * *
1844057 TCTTATCTCCCTGAGATTACAGCGGAAAAGATTGAAGCCAGT-AATCCTATTTCCCTGAGATTAC
1 TCTTATCTCCCTGAGATTACAGCGGAAAAGA-TGAAG-AACTAAATCCTATCTCCCTGAGATTAC
*
1844121 AGTGGAACAGATTAAAATAAAGGATCTTATCTCTCTAAAGTTACAGTTGAGTAGATCGCATCAGG
64 AGTGGAACAGATTAAAATAAAGGATCTTA-CTCTCTAAAGTTACAGTAGAGTAGATCGCATCAGG
* ** * *
1844186 TCTTATCTCACTGAGATTACAGCGGAGCAGATTAA-AGCTAGTAATCCTATCTCCCTGAGATTAC
1 TCTTATCTCCCTGAGATTACAGCGGAAAAGATGAAGAACTA--AATCCTATCTCCCTGAGATTAC
* * *
1844250 AGTGGAGC-GAGTTAAAATAAAGGATCTTA-TCTCTGAAGTTACAGTAGAGTAGATCGTATCAGG
64 AGTGGAACAGA-TTAAAATAAAGGATCTTACTCTCTAAAGTTACAGTAGAGTAGATCGCATCAGG
* * * * *
1844313 TCTTATCTCCCTGAGATTACAGTGGAATAGACCGAAGAATTACAGATCTTATCTCCCTGAGATTA
1 TCTTATCTCCCTGAGATTACAGCGGAAAAGA-TGAAGAACTA-A-ATCCTATCTCCCTGAGATTA
* *
1844378 CAGCGGAAAAGATT
63 CAGTGGAACAGATT
1844392 GAAGCCAGTA
Statistics
Matches: 173, Mismatches: 25, Indels: 16
0.81 0.12 0.07
Matches are distributed among these distances:
126 1 0.01
127 58 0.34
128 8 0.05
129 104 0.60
130 2 0.01
ACGTcount: A:0.33, C:0.19, G:0.20, T:0.28
Consensus pattern (127 bp):
TCTTATCTCCCTGAGATTACAGCGGAAAAGATGAAGAACTAAATCCTATCTCCCTGAGATTACAG
TGGAACAGATTAAAATAAAGGATCTTACTCTCTAAAGTTACAGTAGAGTAGATCGCATCAGG
Found at i:1844375 original size:173 final size:174
Alignment explanation
Indices: 1844186--1844509 Score: 517
Period size: 173 Copynumber: 1.9 Consensus size: 174
1844176 TCGCATCAGG
** *
1844186 TCTTATCTCACTGAGATTACAGCGGAGCAGATTAAAGCTAGTAATCCTATCTCCCTGAGATTACA
1 TCTTATCTCACTGAGATTACAGCGGAAAAGATTAAAGCCAGTAATCCTATCTCCCTGAGATTACA
* * *
1844251 GTGGAGC-GAGTTAAAATAAAGGATCTTA-TCTCTGAAGTTACAGTAGAGTAGATCGTATCAGGT
66 GTGGAACAGA-TTAAAATAAAGGATCTTACTCTCTAAAGTTACAGTAGAGTAGATCGCATCAGGT
*
1844314 CTTATCTCCCTGAGATTACAGTGGAATAGACCGAAGAATTACAGA
130 CTTATCTCACTGAGATTACAGTGGAATAGACCGAAGAATTACAGA
* * *
1844359 TCTTATCTCCCTGAGATTACAGCGGAAAAGATTGAAGCCAGTAATCCTATTTCCCTGAGATTACA
1 TCTTATCTCACTGAGATTACAGCGGAAAAGATTAAAGCCAGTAATCCTATCTCCCTGAGATTACA
*
1844424 GTGGAACAGATTAAAATAAAGGATCTTATCTCTCTAAAGTTACAGTTGAGTAGATCGCATCAGGT
66 GTGGAACAGATTAAAATAAAGGATCTTA-CTCTCTAAAGTTACAGTAGAGTAGATCGCATCAGGT
1844489 CTTATCTCACTGAGATTACAG
130 CTTATCTCACTGAGATTACAG
1844510 CGGAGCAGAT
Statistics
Matches: 137, Mismatches: 11, Indels: 4
0.90 0.07 0.03
Matches are distributed among these distances:
173 83 0.61
174 2 0.01
175 52 0.38
ACGTcount: A:0.33, C:0.19, G:0.20, T:0.29
Consensus pattern (174 bp):
TCTTATCTCACTGAGATTACAGCGGAAAAGATTAAAGCCAGTAATCCTATCTCCCTGAGATTACA
GTGGAACAGATTAAAATAAAGGATCTTACTCTCTAAAGTTACAGTAGAGTAGATCGCATCAGGTC
TTATCTCACTGAGATTACAGTGGAATAGACCGAAGAATTACAGA
Found at i:1844430 original size:302 final size:302
Alignment explanation
Indices: 1843882--1844971 Score: 2029
Period size: 302 Copynumber: 3.6 Consensus size: 302
1843872 GAATTACAGA
* ** * * *
1843882 TCTTATCTCCCTGAGATTACAGCGGAAAAGATTGAAGCCAGTAATCCTATTTCCCTGAGATTACA
1 TCTTATCTCACTGAGATTACAGCGGAGCAGATTAAAGCTAGTAATCCTATCTCCCTGAGATTACA
* * *
1843947 GTGGAGCG-GATTAAAATAAAAGATCTTATCTCTTTGAAATTACAGTAGAGTAGATCGCATCAGG
66 GTGGAGCGAG-TTAAAATAAAGGATCTTATCTC--TGAAGTTACAGTAGAGTAGATCGTATCAGG
1844011 TCTTATCTCCCTGAGATTACAGTGGAATAGACCGAAGAATTACAGATCTTATCTCCCTGAGATTA
128 TCTTATCTCCCTGAGATTACAGTGGAATAGACCGAAGAATTACAGATCTTATCTCCCTGAGATTA
1844076 CAGCGGAAAAGATTGAAGCCAGTAATCCTATTTCCCTGAGATTACAGTGGAACAGATTAAAATAA
193 CAGCGGAAAAGATTGAAGCCAGTAATCCTATTTCCCTGAGATTACAGTGGAACAGATTAAAATAA
1844141 AGGATCTTATCTCTCTAAAGTTACAGTTGAGTAGATCGCATCAGG
258 AGGATCTTATCTCTCTAAAGTTACAGTTGAGTAGATCGCATCAGG
1844186 TCTTATCTCACTGAGATTACAGCGGAGCAGATTAAAGCTAGTAATCCTATCTCCCTGAGATTACA
1 TCTTATCTCACTGAGATTACAGCGGAGCAGATTAAAGCTAGTAATCCTATCTCCCTGAGATTACA
1844251 GTGGAGCGAGTTAAAATAAAGGATCTTATCTCTGAAGTTACAGTAGAGTAGATCGTATCAGGTCT
66 GTGGAGCGAGTTAAAATAAAGGATCTTATCTCTGAAGTTACAGTAGAGTAGATCGTATCAGGTCT
1844316 TATCTCCCTGAGATTACAGTGGAATAGACCGAAGAATTACAGATCTTATCTCCCTGAGATTACAG
131 TATCTCCCTGAGATTACAGTGGAATAGACCGAAGAATTACAGATCTTATCTCCCTGAGATTACAG
1844381 CGGAAAAGATTGAAGCCAGTAATCCTATTTCCCTGAGATTACAGTGGAACAGATTAAAATAAAGG
196 CGGAAAAGATTGAAGCCAGTAATCCTATTTCCCTGAGATTACAGTGGAACAGATTAAAATAAAGG
1844446 ATCTTATCTCTCTAAAGTTACAGTTGAGTAGATCGCATCAGG
261 ATCTTATCTCTCTAAAGTTACAGTTGAGTAGATCGCATCAGG
1844488 TCTTATCTCACTGAGATTACAGCGGAGCAGATTAAAGCTAGTAATCCTATCTCCCTGAGATTACA
1 TCTTATCTCACTGAGATTACAGCGGAGCAGATTAAAGCTAGTAATCCTATCTCCCTGAGATTACA
1844553 GTGGAGCGAGTTAAAATAAAGGATCTTATCTCTGAAGTTACAGTAGAGTAGATCGTATCAGGTCT
66 GTGGAGCGAGTTAAAATAAAGGATCTTATCTCTGAAGTTACAGTAGAGTAGATCGTATCAGGTCT
1844618 TATCTCCCTGAGATTACAGTGGAATAGACCGAAGAATTACAGATCTTATCTCCCTGAGATTACAG
131 TATCTCCCTGAGATTACAGTGGAATAGACCGAAGAATTACAGATCTTATCTCCCTGAGATTACAG
1844683 CGGAAAAGATTGAAGCCAGTAATCCTATTTCCCTGAGATTACAGTGGAACAGATTAAAATAAAGG
196 CGGAAAAGATTGAAGCCAGTAATCCTATTTCCCTGAGATTACAGTGGAACAGATTAAAATAAAGG
1844748 ATCTTATCTCTCTAAAGTTACAGTTGAGTAGATCGCATCAGG
261 ATCTTATCTCTCTAAAGTTACAGTTGAGTAGATCGCATCAGG
1844790 TCTTATCTCACTGAGATTACAGCGGAGCAGATTAAAGCTAGTAATCCTATCTCCCTGAGATTACA
1 TCTTATCTCACTGAGATTACAGCGGAGCAGATTAAAGCTAGTAATCCTATCTCCCTGAGATTACA
1844855 GTGGAGCGAGTTAAAATAAAGGATCTTATCTCTGAAGTTACAGTAGAGTAGATCGTATCAGGTCT
66 GTGGAGCGAGTTAAAATAAAGGATCTTATCTCTGAAGTTACAGTAGAGTAGATCGTATCAGGTCT
* * * *
1844920 TATCTCCCTGAGATTACAGTGGAATAAACTGAAGAATTTCAGACCTTATCTC
131 TATCTCCCTGAGATTACAGTGGAATAGACCGAAGAATTACAGATCTTATCTC
1844972 TTAGATAATG
Statistics
Matches: 772, Mismatches: 13, Indels: 4
0.98 0.02 0.01
Matches are distributed among these distances:
302 683 0.88
304 88 0.11
305 1 0.00
ACGTcount: A:0.33, C:0.18, G:0.20, T:0.28
Consensus pattern (302 bp):
TCTTATCTCACTGAGATTACAGCGGAGCAGATTAAAGCTAGTAATCCTATCTCCCTGAGATTACA
GTGGAGCGAGTTAAAATAAAGGATCTTATCTCTGAAGTTACAGTAGAGTAGATCGTATCAGGTCT
TATCTCCCTGAGATTACAGTGGAATAGACCGAAGAATTACAGATCTTATCTCCCTGAGATTACAG
CGGAAAAGATTGAAGCCAGTAATCCTATTTCCCTGAGATTACAGTGGAACAGATTAAAATAAAGG
ATCTTATCTCTCTAAAGTTACAGTTGAGTAGATCGCATCAGG
Found at i:1844502 original size:129 final size:127
Alignment explanation
Indices: 1844359--1844641 Score: 433
Period size: 129 Copynumber: 2.2 Consensus size: 127
1844349 GAATTACAGA
* *
1844359 TCTTATCTCCCTGAGATTACAGCGGAAAAGATTGAAGCCAGTAATCCTATTTCCCTGAGATTACA
1 TCTTATCTCCCTGAGATTACAGCGGAAAAGATTAAAGCCAGTAATCCTATCTCCCTGAGATTACA
*
1844424 GTGGAAC-AGATTAAAATAAAGGATCTTATCTCTCTAAAGTTACAGTTGAGTAGATCGCATCAGG
66 GTGGAACGAG-TTAAAATAAAGGATCTTA--TCTCTAAAGTTACAGTAGAGTAGATCGCATCAGG
* ** *
1844488 TCTTATCTCACTGAGATTACAGCGGAGCAGATTAAAGCTAGTAATCCTATCTCCCTGAGATTACA
1 TCTTATCTCCCTGAGATTACAGCGGAAAAGATTAAAGCCAGTAATCCTATCTCCCTGAGATTACA
* * *
1844553 GTGGAGCGAGTTAAAATAAAGGATCTTATCTCTGAAGTTACAGTAGAGTAGATCGTATCAGG
66 GTGGAACGAGTTAAAATAAAGGATCTTATCTCTAAAGTTACAGTAGAGTAGATCGCATCAGG
*
1844615 TCTTATCTCCCTGAGATTACAGTGGAA
1 TCTTATCTCCCTGAGATTACAGCGGAA
1844642 TAGACCGAAG
Statistics
Matches: 140, Mismatches: 13, Indels: 4
0.89 0.08 0.03
Matches are distributed among these distances:
127 55 0.39
129 83 0.59
130 2 0.01
ACGTcount: A:0.32, C:0.18, G:0.20, T:0.29
Consensus pattern (127 bp):
TCTTATCTCCCTGAGATTACAGCGGAAAAGATTAAAGCCAGTAATCCTATCTCCCTGAGATTACA
GTGGAACGAGTTAAAATAAAGGATCTTATCTCTAAAGTTACAGTAGAGTAGATCGCATCAGG
Found at i:1844541 original size:173 final size:173
Alignment explanation
Indices: 1844189--1844553 Score: 486
Period size: 173 Copynumber: 2.1 Consensus size: 173
1844179 CATCAGGTCT
* ** *
1844189 TATCTCACTGAGATTACAGCGGAGCAGATTAAAGCTAGTAATCCTATCTCCCTGAGATTACAGTG
1 TATCTCCCTGAGATTACAGCGGAAAAGATTAAAGCCAGTAATCCTATCTCCCTGAGATTACAGTG
* * *
1844254 GAGCGAGTTAAAATAAAGGATCTTATCTCTGAAGTTACAGTAGAGTAGATCGTATCAGGTCTTAT
66 GAACGAGTTAAAATAAAGGATCTTATCTCTAAAGTTACAGTAGAGTAGATCGCATCAGGTCTTAT
* * * * *
1844319 CTCCCTGAGATTACAGTGGAATAGACCGAAGAATTACAGATCT
131 CTCACTGAGATTACAGCGGAACAGACCGAAGAACTACAGATCC
* *
1844362 TATCTCCCTGAGATTACAGCGGAAAAGATTGAAGCCAGTAATCCTATTTCCCTGAGATTACAGTG
1 TATCTCCCTGAGATTACAGCGGAAAAGATTAAAGCCAGTAATCCTATCTCCCTGAGATTACAGTG
*
1844427 GAAC-AGATTAAAATAAAGGATCTTATCTCTCTAAAGTTACAGTTGAGTAGATCGCATCAGGTCT
66 GAACGAG-TTAAAATAAAGGATCTTA--TCTCTAAAGTTACAGTAGAGTAGATCGCATCAGGTCT
* ** * *
1844491 TATCTCACTGAGATTACAGCGGAGCAGA-TTAA-AGCTAGTA-ATCC
128 TATCTCACTGAGATTACAGCGGAACAGACCGAAGAACTA-CAGATCC
1844535 TATCTCCCTGAGATTACAG
1 TATCTCCCTGAGATTACAG
1844554 TGGAGCGAGT
Statistics
Matches: 168, Mismatches: 20, Indels: 8
0.86 0.10 0.04
Matches are distributed among these distances:
172 2 0.01
173 105 0.62
174 3 0.02
175 58 0.35
ACGTcount: A:0.33, C:0.19, G:0.20, T:0.28
Consensus pattern (173 bp):
TATCTCCCTGAGATTACAGCGGAAAAGATTAAAGCCAGTAATCCTATCTCCCTGAGATTACAGTG
GAACGAGTTAAAATAAAGGATCTTATCTCTAAAGTTACAGTAGAGTAGATCGCATCAGGTCTTAT
CTCACTGAGATTACAGCGGAACAGACCGAAGAACTACAGATCC
Found at i:1844668 original size:173 final size:174
Alignment explanation
Indices: 1844488--1844811 Score: 517
Period size: 173 Copynumber: 1.9 Consensus size: 174
1844478 TCGCATCAGG
** *
1844488 TCTTATCTCACTGAGATTACAGCGGAGCAGATTAAAGCTAGTAATCCTATCTCCCTGAGATTACA
1 TCTTATCTCACTGAGATTACAGCGGAAAAGATTAAAGCCAGTAATCCTATCTCCCTGAGATTACA
* * *
1844553 GTGGAGC-GAGTTAAAATAAAGGATCTTA-TCTCTGAAGTTACAGTAGAGTAGATCGTATCAGGT
66 GTGGAACAGA-TTAAAATAAAGGATCTTACTCTCTAAAGTTACAGTAGAGTAGATCGCATCAGGT
*
1844616 CTTATCTCCCTGAGATTACAGTGGAATAGACCGAAGAATTACAGA
130 CTTATCTCACTGAGATTACAGTGGAATAGACCGAAGAATTACAGA
* * *
1844661 TCTTATCTCCCTGAGATTACAGCGGAAAAGATTGAAGCCAGTAATCCTATTTCCCTGAGATTACA
1 TCTTATCTCACTGAGATTACAGCGGAAAAGATTAAAGCCAGTAATCCTATCTCCCTGAGATTACA
*
1844726 GTGGAACAGATTAAAATAAAGGATCTTATCTCTCTAAAGTTACAGTTGAGTAGATCGCATCAGGT
66 GTGGAACAGATTAAAATAAAGGATCTTA-CTCTCTAAAGTTACAGTAGAGTAGATCGCATCAGGT
1844791 CTTATCTCACTGAGATTACAG
130 CTTATCTCACTGAGATTACAG
1844812 CGGAGCAGAT
Statistics
Matches: 137, Mismatches: 11, Indels: 4
0.90 0.07 0.03
Matches are distributed among these distances:
173 83 0.61
174 2 0.01
175 52 0.38
ACGTcount: A:0.33, C:0.19, G:0.20, T:0.29
Consensus pattern (174 bp):
TCTTATCTCACTGAGATTACAGCGGAAAAGATTAAAGCCAGTAATCCTATCTCCCTGAGATTACA
GTGGAACAGATTAAAATAAAGGATCTTACTCTCTAAAGTTACAGTAGAGTAGATCGCATCAGGTC
TTATCTCACTGAGATTACAGTGGAATAGACCGAAGAATTACAGA
Found at i:1844673 original size:129 final size:127
Alignment explanation
Indices: 1844359--1844693 Score: 390
Period size: 129 Copynumber: 2.6 Consensus size: 127
1844349 GAATTACAGA
* * *
1844359 TCTTATCTCCCTGAGATTACAGCGGAAAAGATTGAAGCCAGT-AATCCTATTTCCCTGAGATTAC
1 TCTTATCTCCCTGAGATTACAGCGGAAAAGA-TGAAG-AACTAAATCCTATCTCCCTGAGATTAC
*
1844423 AGTGGAACAGATTAAAATAAAGGATCTTATCTCTCTAAAGTTACAGTTGAGTAGATCGCATCAGG
64 AGTGGAACAGATTAAAATAAAGGATCTTA-CTCTCTAAAGTTACAGTAGAGTAGATCGCATCAGG
* ** * *
1844488 TCTTATCTCACTGAGATTACAGCGGAGCAGATTAA-AGCTAGTAATCCTATCTCCCTGAGATTAC
1 TCTTATCTCCCTGAGATTACAGCGGAAAAGATGAAGAACTA--AATCCTATCTCCCTGAGATTAC
* * *
1844552 AGTGGAGC-GAGTTAAAATAAAGGATCTTA-TCTCTGAAGTTACAGTAGAGTAGATCGTATCAGG
64 AGTGGAACAGA-TTAAAATAAAGGATCTTACTCTCTAAAGTTACAGTAGAGTAGATCGCATCAGG
* * * * *
1844615 TCTTATCTCCCTGAGATTACAGTGGAATAGACCGAAGAATTACAGATCTTATCTCCCTGAGATTA
1 TCTTATCTCCCTGAGATTACAGCGGAAAAGA-TGAAGAACTA-A-ATCCTATCTCCCTGAGATTA
* *
1844680 CAGCGGAAAAGATT
63 CAGTGGAACAGATT
1844694 GAAGCCAGTA
Statistics
Matches: 173, Mismatches: 25, Indels: 16
0.81 0.12 0.07
Matches are distributed among these distances:
126 1 0.01
127 58 0.34
128 8 0.05
129 104 0.60
130 2 0.01
ACGTcount: A:0.33, C:0.19, G:0.20, T:0.28
Consensus pattern (127 bp):
TCTTATCTCCCTGAGATTACAGCGGAAAAGATGAAGAACTAAATCCTATCTCCCTGAGATTACAG
TGGAACAGATTAAAATAAAGGATCTTACTCTCTAAAGTTACAGTAGAGTAGATCGCATCAGG
Found at i:1844804 original size:129 final size:127
Alignment explanation
Indices: 1844661--1844943 Score: 433
Period size: 129 Copynumber: 2.2 Consensus size: 127
1844651 GAATTACAGA
* *
1844661 TCTTATCTCCCTGAGATTACAGCGGAAAAGATTGAAGCCAGTAATCCTATTTCCCTGAGATTACA
1 TCTTATCTCCCTGAGATTACAGCGGAAAAGATTAAAGCCAGTAATCCTATCTCCCTGAGATTACA
*
1844726 GTGGAAC-AGATTAAAATAAAGGATCTTATCTCTCTAAAGTTACAGTTGAGTAGATCGCATCAGG
66 GTGGAACGAG-TTAAAATAAAGGATCTTA--TCTCTAAAGTTACAGTAGAGTAGATCGCATCAGG
* ** *
1844790 TCTTATCTCACTGAGATTACAGCGGAGCAGATTAAAGCTAGTAATCCTATCTCCCTGAGATTACA
1 TCTTATCTCCCTGAGATTACAGCGGAAAAGATTAAAGCCAGTAATCCTATCTCCCTGAGATTACA
* * *
1844855 GTGGAGCGAGTTAAAATAAAGGATCTTATCTCTGAAGTTACAGTAGAGTAGATCGTATCAGG
66 GTGGAACGAGTTAAAATAAAGGATCTTATCTCTAAAGTTACAGTAGAGTAGATCGCATCAGG
*
1844917 TCTTATCTCCCTGAGATTACAGTGGAA
1 TCTTATCTCCCTGAGATTACAGCGGAA
1844944 TAAACTGAAG
Statistics
Matches: 140, Mismatches: 13, Indels: 4
0.89 0.08 0.03
Matches are distributed among these distances:
127 55 0.39
129 83 0.59
130 2 0.01
ACGTcount: A:0.32, C:0.18, G:0.20, T:0.29
Consensus pattern (127 bp):
TCTTATCTCCCTGAGATTACAGCGGAAAAGATTAAAGCCAGTAATCCTATCTCCCTGAGATTACA
GTGGAACGAGTTAAAATAAAGGATCTTATCTCTAAAGTTACAGTAGAGTAGATCGCATCAGG
Found at i:1844843 original size:173 final size:173
Alignment explanation
Indices: 1844491--1844855 Score: 486
Period size: 173 Copynumber: 2.1 Consensus size: 173
1844481 CATCAGGTCT
* ** *
1844491 TATCTCACTGAGATTACAGCGGAGCAGATTAAAGCTAGTAATCCTATCTCCCTGAGATTACAGTG
1 TATCTCCCTGAGATTACAGCGGAAAAGATTAAAGCCAGTAATCCTATCTCCCTGAGATTACAGTG
* * *
1844556 GAGCGAGTTAAAATAAAGGATCTTATCTCTGAAGTTACAGTAGAGTAGATCGTATCAGGTCTTAT
66 GAACGAGTTAAAATAAAGGATCTTATCTCTAAAGTTACAGTAGAGTAGATCGCATCAGGTCTTAT
* * * * *
1844621 CTCCCTGAGATTACAGTGGAATAGACCGAAGAATTACAGATCT
131 CTCACTGAGATTACAGCGGAACAGACCGAAGAACTACAGATCC
* *
1844664 TATCTCCCTGAGATTACAGCGGAAAAGATTGAAGCCAGTAATCCTATTTCCCTGAGATTACAGTG
1 TATCTCCCTGAGATTACAGCGGAAAAGATTAAAGCCAGTAATCCTATCTCCCTGAGATTACAGTG
*
1844729 GAAC-AGATTAAAATAAAGGATCTTATCTCTCTAAAGTTACAGTTGAGTAGATCGCATCAGGTCT
66 GAACGAG-TTAAAATAAAGGATCTTA--TCTCTAAAGTTACAGTAGAGTAGATCGCATCAGGTCT
* ** * *
1844793 TATCTCACTGAGATTACAGCGGAGCAGA-TTAA-AGCTAGTA-ATCC
128 TATCTCACTGAGATTACAGCGGAACAGACCGAAGAACTA-CAGATCC
1844837 TATCTCCCTGAGATTACAG
1 TATCTCCCTGAGATTACAG
1844856 TGGAGCGAGT
Statistics
Matches: 168, Mismatches: 20, Indels: 8
0.86 0.10 0.04
Matches are distributed among these distances:
172 2 0.01
173 105 0.62
174 3 0.02
175 58 0.35
ACGTcount: A:0.33, C:0.19, G:0.20, T:0.28
Consensus pattern (173 bp):
TATCTCCCTGAGATTACAGCGGAAAAGATTAAAGCCAGTAATCCTATCTCCCTGAGATTACAGTG
GAACGAGTTAAAATAAAGGATCTTATCTCTAAAGTTACAGTAGAGTAGATCGCATCAGGTCTTAT
CTCACTGAGATTACAGCGGAACAGACCGAAGAACTACAGATCC
Found at i:1845403 original size:11 final size:11
Alignment explanation
Indices: 1845385--1845414 Score: 51
Period size: 11 Copynumber: 2.7 Consensus size: 11
1845375 AGTAAAACCC
1845385 AAATATAAAAT
1 AAATATAAAAT
*
1845396 ATATATAAAAT
1 AAATATAAAAT
1845407 AAATATAA
1 AAATATAA
1845415 TAAAAGTCCA
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
11 17 1.00
ACGTcount: A:0.70, C:0.00, G:0.00, T:0.30
Consensus pattern (11 bp):
AAATATAAAAT
Found at i:1853042 original size:15 final size:16
Alignment explanation
Indices: 1853008--1853041 Score: 54
Period size: 14 Copynumber: 2.2 Consensus size: 16
1852998 TAACCACTTT
1853008 AAAATAAAATCAAATA
1 AAAATAAAATCAAATA
1853024 AAAAT-AAAT-AAATA
1 AAAATAAAATCAAATA
1853038 AAAA
1 AAAA
1853042 AGATTTTTTT
Statistics
Matches: 18, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
14 9 0.50
15 4 0.22
16 5 0.28
ACGTcount: A:0.79, C:0.03, G:0.00, T:0.18
Consensus pattern (16 bp):
AAAATAAAATCAAATA
Found at i:1854142 original size:21 final size:20
Alignment explanation
Indices: 1854110--1854149 Score: 55
Period size: 21 Copynumber: 1.9 Consensus size: 20
1854100 GTTTTCAAAT
1854110 ATAATATTGTTTTA-AATAG
1 ATAATATTGTTTTACAATAG
1854129 ATAATTATGTGTTTTACAATA
1 ATAA-TAT-TGTTTTACAATA
1854150 TTTTAGATTT
Statistics
Matches: 18, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
19 4 0.22
20 3 0.17
21 7 0.39
22 4 0.22
ACGTcount: A:0.40, C:0.03, G:0.10, T:0.47
Consensus pattern (20 bp):
ATAATATTGTTTTACAATAG
Found at i:1862233 original size:25 final size:25
Alignment explanation
Indices: 1862185--1862233 Score: 62
Period size: 25 Copynumber: 2.0 Consensus size: 25
1862175 AATAATTGAA
* * *
1862185 ATGAAATGGATTGATTTTGTATATT
1 ATGAAATAGATTGATTATGAATATT
*
1862210 ATGAAATATATTGATTATGAATAT
1 ATGAAATAGATTGATTATGAATAT
1862234 ATGTGTATTG
Statistics
Matches: 20, Mismatches: 4, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
25 20 1.00
ACGTcount: A:0.39, C:0.00, G:0.16, T:0.45
Consensus pattern (25 bp):
ATGAAATAGATTGATTATGAATATT
Found at i:1862587 original size:18 final size:18
Alignment explanation
Indices: 1862564--1862604 Score: 57
Period size: 18 Copynumber: 2.3 Consensus size: 18
1862554 TGGTTGGATT
*
1862564 CGTGTAT-TCGTCTGAGTC
1 CGTGTATCT-GTCCGAGTC
1862582 CGTGTATCTGTCCGAGTC
1 CGTGTATCTGTCCGAGTC
1862600 CGTGT
1 CGTGT
1862605 CGTGTTAATA
Statistics
Matches: 21, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
18 20 0.95
19 1 0.05
ACGTcount: A:0.10, C:0.24, G:0.29, T:0.37
Consensus pattern (18 bp):
CGTGTATCTGTCCGAGTC
Found at i:1863613 original size:13 final size:13
Alignment explanation
Indices: 1863597--1863625 Score: 58
Period size: 13 Copynumber: 2.2 Consensus size: 13
1863587 GTCGCACACC
1863597 GGCAACACACATG
1 GGCAACACACATG
1863610 GGCAACACACATG
1 GGCAACACACATG
1863623 GGC
1 GGC
1863626 GTGTGACCCA
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 16 1.00
ACGTcount: A:0.34, C:0.31, G:0.28, T:0.07
Consensus pattern (13 bp):
GGCAACACACATG
Found at i:1866719 original size:25 final size:25
Alignment explanation
Indices: 1866681--1866759 Score: 63
Period size: 25 Copynumber: 3.2 Consensus size: 25
1866671 AGCACTCTCT
*
1866681 TGAGCCATAAAACAAGATGCTCATG
1 TGAGCCATAAAACAAGAAGCTCATG
** * *
1866706 TGAGCCATGTAACAGGAAGCTCATA
1 TGAGCCATAAAACAAGAAGCTCATG
* ** *
1866731 AGAG-TTTAAAACAGGAAGCTCAT-
1 TGAGCCATAAAACAAGAAGCTCATG
1866754 TGAGCC
1 TGAGCC
1866760 TAATAGGTAA
Statistics
Matches: 41, Mismatches: 12, Indels: 3
0.73 0.21 0.05
Matches are distributed among these distances:
23 3 0.07
24 15 0.37
25 23 0.56
ACGTcount: A:0.38, C:0.19, G:0.23, T:0.20
Consensus pattern (25 bp):
TGAGCCATAAAACAAGAAGCTCATG
Found at i:1871563 original size:19 final size:18
Alignment explanation
Indices: 1871527--1871572 Score: 58
Period size: 19 Copynumber: 2.6 Consensus size: 18
1871517 AATATTTAGT
* *
1871527 TTAAGTATTAAATGTGTC
1 TTAAGTATTTAATATGTC
1871545 TTAAGTTATTTAATATGTC
1 TTAAG-TATTTAATATGTC
1871564 -TAAGTATTT
1 TTAAGTATTT
1871573 TTGGCATTAA
Statistics
Matches: 25, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
17 5 0.20
18 9 0.36
19 11 0.44
ACGTcount: A:0.33, C:0.04, G:0.13, T:0.50
Consensus pattern (18 bp):
TTAAGTATTTAATATGTC
Found at i:1877011 original size:15 final size:15
Alignment explanation
Indices: 1876983--1877019 Score: 51
Period size: 15 Copynumber: 2.6 Consensus size: 15
1876973 CGAGAAGAGA
1876983 AAAATG-AA-AAAAG
1 AAAATGAAATAAAAG
*
1876996 AAATTGAAATAAAAG
1 AAAATGAAATAAAAG
1877011 AAAATGAAA
1 AAAATGAAA
1877020 AAGAAAAAAG
Statistics
Matches: 20, Mismatches: 2, Indels: 2
0.83 0.08 0.08
Matches are distributed among these distances:
13 5 0.25
14 2 0.10
15 13 0.65
ACGTcount: A:0.73, C:0.00, G:0.14, T:0.14
Consensus pattern (15 bp):
AAAATGAAATAAAAG
Found at i:1877107 original size:33 final size:33
Alignment explanation
Indices: 1877066--1877194 Score: 127
Period size: 33 Copynumber: 3.9 Consensus size: 33
1877056 AATGTGAATG
*
1877066 AAACGAGTGCAAAAGAAAGAGAGCTCAAAAAGA
1 AAACGAGTGAAAAAGAAAGAGAGCTCAAAAAGA
* * **
1877099 AAATGAGTGAAAAAGAAAGAGTGCTTGAAAAGA
1 AAACGAGTGAAAAAGAAAGAGAGCTCAAAAAGA
* *
1877132 AAACAAGTGAAAAAGAGAA-AGAGCTTGAAAAAG-
1 AAACGAGTGAAAAAGA-AAGAGAGC-TCAAAAAGA
* * *
1877165 AAACGTGTGAAGAAGAAGAGAGTGCTCAAA
1 AAACGAGTGAAAAAGAA-AGAGAGCTCAAA
1877195 CACAAGGGAG
Statistics
Matches: 77, Mismatches: 15, Indels: 8
0.77 0.15 0.08
Matches are distributed among these distances:
32 1 0.01
33 64 0.83
34 12 0.16
ACGTcount: A:0.55, C:0.08, G:0.26, T:0.11
Consensus pattern (33 bp):
AAACGAGTGAAAAAGAAAGAGAGCTCAAAAAGA
Found at i:1877111 original size:16 final size:15
Alignment explanation
Indices: 1877065--1877188 Score: 70
Period size: 17 Copynumber: 7.7 Consensus size: 15
1877055 AAATGTGAAT
* *
1877065 GAAACGAGTGCAAAA
1 GAAAAGAGTGAAAAA
*
1877080 GAAAGAGAGCTCAAAAA
1 GAAA-AGAG-TGAAAAA
1877097 GAAAATGAGTGAAAAA
1 GAAAA-GAGTGAAAAA
*
1877113 G-AAAGAGTGCTTGAAAA
1 GAAAAGAGTG---AAAAA
*
1877130 GAAAACAAGTGAAAAA
1 GAAAA-GAGTGAAAAA
1877146 GAGAAAGAGCTTGAAAAA
1 GA-AAAGAG--TGAAAAA
* * *
1877164 GAAACGTGTGAAGAA
1 GAAAAGAGTGAAAAA
*
1877179 GAAGAGAGTG
1 GAAAAGAGTG
1877189 CTCAAACACA
Statistics
Matches: 84, Mismatches: 14, Indels: 22
0.70 0.12 0.18
Matches are distributed among these distances:
14 5 0.06
15 20 0.24
16 19 0.23
17 24 0.29
18 12 0.14
19 4 0.05
ACGTcount: A:0.55, C:0.06, G:0.28, T:0.10
Consensus pattern (15 bp):
GAAAAGAGTGAAAAA
Found at i:1877175 original size:66 final size:67
Alignment explanation
Indices: 1877066--1877190 Score: 157
Period size: 66 Copynumber: 1.9 Consensus size: 67
1877056 AATGTGAATG
* * *
1877066 AAACGAGTGCAAAAGAAAGAGAGCTCAAAAAGAAAATGAGTGAAAAAGAA-AGAGTGCTTGAAAA
1 AAACAAGTGAAAAAGAAAGAGAGCTCAAAAAGAAAACGAGTGAAAAAGAAGAGAGTGCTTGAAAA
1877130 GA
66 GA
* * *
1877132 AAACAAGTGAAAAAGAGAA-AGAGCTTGAAAAAG-AAACGTGTGAAGAAGAAGAGAGTGCT
1 AAACAAGTGAAAAAGA-AAGAGAGC-TCAAAAAGAAAACGAGTGAAAAAGAAGAGAGTGCT
1877191 CAAACACAAG
Statistics
Matches: 50, Mismatches: 6, Indels: 5
0.82 0.10 0.08
Matches are distributed among these distances:
66 33 0.66
67 17 0.34
ACGTcount: A:0.54, C:0.07, G:0.27, T:0.11
Consensus pattern (67 bp):
AAACAAGTGAAAAAGAAAGAGAGCTCAAAAAGAAAACGAGTGAAAAAGAAGAGAGTGCTTGAAAA
GA
Found at i:1879525 original size:19 final size:18
Alignment explanation
Indices: 1879489--1879534 Score: 58
Period size: 19 Copynumber: 2.6 Consensus size: 18
1879479 AATATTTAGT
* *
1879489 TTAAGTATTAAATGTGTC
1 TTAAGTATTTAATATGTC
1879507 TTAAGTTATTTAATATGTC
1 TTAAG-TATTTAATATGTC
1879526 -TAAGTATTT
1 TTAAGTATTT
1879535 TCGGCATTAA
Statistics
Matches: 25, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
17 5 0.20
18 9 0.36
19 11 0.44
ACGTcount: A:0.33, C:0.04, G:0.13, T:0.50
Consensus pattern (18 bp):
TTAAGTATTTAATATGTC
Found at i:1888088 original size:55 final size:55
Alignment explanation
Indices: 1887999--1888106 Score: 198
Period size: 55 Copynumber: 2.0 Consensus size: 55
1887989 CTAGCAGGAG
*
1887999 TGGAGCGTGGGATTCGGTGAATAATGAGGCTGGTGTTGATGATTTGATACCCGAA
1 TGGAGCGTGGGATTCGGCGAATAATGAGGCTGGTGTTGATGATTTGATACCCGAA
*
1888054 TGGATCGTGGGATTCGGCGAATAATGAGGCTGGTGTTGATGATTTGATACCCG
1 TGGAGCGTGGGATTCGGCGAATAATGAGGCTGGTGTTGATGATTTGATACCCG
1888107 GGTTCGGTGC
Statistics
Matches: 51, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
55 51 1.00
ACGTcount: A:0.22, C:0.12, G:0.36, T:0.30
Consensus pattern (55 bp):
TGGAGCGTGGGATTCGGCGAATAATGAGGCTGGTGTTGATGATTTGATACCCGAA
Found at i:1890604 original size:60 final size:60
Alignment explanation
Indices: 1890511--1890630 Score: 231
Period size: 60 Copynumber: 2.0 Consensus size: 60
1890501 TCACAGCAAT
*
1890511 GAATTTAACAAAAAAAAAAAAAGAAACAGTGTTAACCCGTTAGACTTGAATTTGGAAATC
1 GAATTTAAAAAAAAAAAAAAAAGAAACAGTGTTAACCCGTTAGACTTGAATTTGGAAATC
1890571 GAATTTAAAAAAAAAAAAAAAAGAAACAGTGTTAACCCGTTAGACTTGAATTTGGAAATC
1 GAATTTAAAAAAAAAAAAAAAAGAAACAGTGTTAACCCGTTAGACTTGAATTTGGAAATC
1890631 TGAGAAGTAG
Statistics
Matches: 59, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
60 59 1.00
ACGTcount: A:0.51, C:0.11, G:0.15, T:0.23
Consensus pattern (60 bp):
GAATTTAAAAAAAAAAAAAAAAGAAACAGTGTTAACCCGTTAGACTTGAATTTGGAAATC
Found at i:1898099 original size:19 final size:19
Alignment explanation
Indices: 1898066--1898111 Score: 56
Period size: 19 Copynumber: 2.4 Consensus size: 19
1898056 AACAGAAAAT
* *
1898066 AAATCAAATATAAAACCAAA
1 AAAT-AAATAAAAAAACAAA
*
1898086 AAATAAATAAAAAAACAAC
1 AAATAAATAAAAAAACAAA
1898105 AAATAAA
1 AAATAAA
1898112 GTCCATTGTC
Statistics
Matches: 23, Mismatches: 3, Indels: 1
0.85 0.11 0.04
Matches are distributed among these distances:
19 19 0.83
20 4 0.17
ACGTcount: A:0.76, C:0.11, G:0.00, T:0.13
Consensus pattern (19 bp):
AAATAAATAAAAAAACAAA
Found at i:1902615 original size:30 final size:30
Alignment explanation
Indices: 1902580--1902648 Score: 129
Period size: 30 Copynumber: 2.3 Consensus size: 30
1902570 GAAAGAGATT
1902580 TCTCTTCTTTTGGGGTGAAAACAAAAATTC
1 TCTCTTCTTTTGGGGTGAAAACAAAAATTC
*
1902610 TCTCTTCTTTTGGGTTGAAAACAAAAATTC
1 TCTCTTCTTTTGGGGTGAAAACAAAAATTC
1902640 TCTCTTCTT
1 TCTCTTCTT
1902649 AATAGAAATT
Statistics
Matches: 38, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
30 38 1.00
ACGTcount: A:0.26, C:0.19, G:0.13, T:0.42
Consensus pattern (30 bp):
TCTCTTCTTTTGGGGTGAAAACAAAAATTC
Found at i:1903356 original size:227 final size:227
Alignment explanation
Indices: 1902961--1903414 Score: 908
Period size: 227 Copynumber: 2.0 Consensus size: 227
1902951 GTATTTCTTG
1902961 GGCCTTTTTGACCTAGTACTCTGTAATGTGATCCAATCCGATTTAGTTTTTCTATTCCCTAAAAT
1 GGCCTTTTTGACCTAGTACTCTGTAATGTGATCCAATCCGATTTAGTTTTTCTATTCCCTAAAAT
1903026 AAAATTTAATATTTATATATAAAATAATTTTCTCATCCCTATTTTACCCATGGTAAAATTTTGGC
66 AAAATTTAATATTTATATATAAAATAATTTTCTCATCCCTATTTTACCCATGGTAAAATTTTGGC
1903091 GATTTTCCCCCAGTAAAAATTCGAGAAAATATGTTCAATATTTCACAACTCAACATGTTCACTAT
131 GATTTTCCCCCAGTAAAAATTCGAGAAAATATGTTCAATATTTCACAACTCAACATGTTCACTAT
1903156 GACCAAATGATTTATTTTTTTTTGAGCTTCAA
196 GACCAAATGATTTATTTTTTTTTGAGCTTCAA
1903188 GGCCTTTTTGACCTAGTACTCTGTAATGTGATCCAATCCGATTTAGTTTTTCTATTCCCTAAAAT
1 GGCCTTTTTGACCTAGTACTCTGTAATGTGATCCAATCCGATTTAGTTTTTCTATTCCCTAAAAT
1903253 AAAATTTAATATTTATATATAAAATAATTTTCTCATCCCTATTTTACCCATGGTAAAATTTTGGC
66 AAAATTTAATATTTATATATAAAATAATTTTCTCATCCCTATTTTACCCATGGTAAAATTTTGGC
1903318 GATTTTCCCCCAGTAAAAATTCGAGAAAATATGTTCAATATTTCACAACTCAACATGTTCACTAT
131 GATTTTCCCCCAGTAAAAATTCGAGAAAATATGTTCAATATTTCACAACTCAACATGTTCACTAT
1903383 GACCAAATGATTTATTTTTTTTTGAGCTTCAA
196 GACCAAATGATTTATTTTTTTTTGAGCTTCAA
1903415 AACAGTCCAA
Statistics
Matches: 227, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
227 227 1.00
ACGTcount: A:0.32, C:0.18, G:0.10, T:0.40
Consensus pattern (227 bp):
GGCCTTTTTGACCTAGTACTCTGTAATGTGATCCAATCCGATTTAGTTTTTCTATTCCCTAAAAT
AAAATTTAATATTTATATATAAAATAATTTTCTCATCCCTATTTTACCCATGGTAAAATTTTGGC
GATTTTCCCCCAGTAAAAATTCGAGAAAATATGTTCAATATTTCACAACTCAACATGTTCACTAT
GACCAAATGATTTATTTTTTTTTGAGCTTCAA
Found at i:1903649 original size:105 final size:104
Alignment explanation
Indices: 1903479--1903677 Score: 301
Period size: 105 Copynumber: 1.9 Consensus size: 104
1903469 GGATTGCAAG
* *
1903479 TTTCCATTTCCATTTTTGGAAACCAAATTCATTTTCAAATGATTTAATTTCTCCATTTGGAAGAA
1 TTTCCATTTCCATTTTTAGAAACCAAATTCATTTCCAAATGATTTAATTTCTCCATTTGGAAGAA
*
1903544 AACCATAATCATTCTTAAATGTTTCTCATAAATGGATCA
66 AACCATAATCATTCATAAATGTTTCTCATAAATGGATCA
** * *
1903583 TTTCCATTTCCATTTTTAGAAACCTACGTTCATTTCCAAATGATTTCATTTCTCTATTTTGG-AG
1 TTTCCATTTCCATTTTTAGAAACC-AAATTCATTTCCAAATGATTTAATTTCTCCA-TTTGGAAG
*
1903647 AAAACCATAATCATTCATGAATGTTTCTCAT
64 AAAACCATAATCATTCATAAATGTTTCTCAT
1903678 TTCTCTTGTC
Statistics
Matches: 85, Mismatches: 8, Indels: 3
0.89 0.08 0.03
Matches are distributed among these distances:
104 23 0.27
105 57 0.67
106 5 0.06
ACGTcount: A:0.31, C:0.19, G:0.09, T:0.42
Consensus pattern (104 bp):
TTTCCATTTCCATTTTTAGAAACCAAATTCATTTCCAAATGATTTAATTTCTCCATTTGGAAGAA
AACCATAATCATTCATAAATGTTTCTCATAAATGGATCA
Found at i:1905940 original size:23 final size:23
Alignment explanation
Indices: 1905913--1905959 Score: 94
Period size: 23 Copynumber: 2.0 Consensus size: 23
1905903 TGGTAGATCC
1905913 ATTGGATATAGTTGGCATGCCAT
1 ATTGGATATAGTTGGCATGCCAT
1905936 ATTGGATATAGTTGGCATGCCAT
1 ATTGGATATAGTTGGCATGCCAT
1905959 A
1 A
1905960 GGATTTGTGA
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
23 24 1.00
ACGTcount: A:0.28, C:0.13, G:0.26, T:0.34
Consensus pattern (23 bp):
ATTGGATATAGTTGGCATGCCAT
Found at i:1909624 original size:16 final size:16
Alignment explanation
Indices: 1909611--1909645 Score: 61
Period size: 16 Copynumber: 2.2 Consensus size: 16
1909601 AAAGATTGAG
1909611 ATTTCTAAATATTGCA
1 ATTTCTAAATATTGCA
*
1909627 ATTTCTAAATATTGGA
1 ATTTCTAAATATTGCA
1909643 ATT
1 ATT
1909646 CCATTATTAA
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
16 18 1.00
ACGTcount: A:0.37, C:0.09, G:0.09, T:0.46
Consensus pattern (16 bp):
ATTTCTAAATATTGCA
Found at i:1910586 original size:17 final size:17
Alignment explanation
Indices: 1910564--1910597 Score: 68
Period size: 17 Copynumber: 2.0 Consensus size: 17
1910554 CCTTAGAATT
1910564 TATGTGAAGTAACAGGG
1 TATGTGAAGTAACAGGG
1910581 TATGTGAAGTAACAGGG
1 TATGTGAAGTAACAGGG
1910598 ATGAATTAGG
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
17 17 1.00
ACGTcount: A:0.35, C:0.06, G:0.35, T:0.24
Consensus pattern (17 bp):
TATGTGAAGTAACAGGG
Found at i:1912118 original size:51 final size:51
Alignment explanation
Indices: 1911946--1912238 Score: 295
Period size: 51 Copynumber: 5.8 Consensus size: 51
1911936 CTTTTATCAT
* * **
1911946 TCGATACACATAGTAGCCTTCACATGGTACTACACACGTGATCAAGTTTTA
1 TCGATACACATAGTAGCCTTCACATAGTACTACACACGTGACCAACATTTA
* * * * **
1911997 -CGGTTCACGTAGTAGCCTTCACATAGTACTACACACGTGATCAAGTTTTA
1 TCGATACACATAGTAGCCTTCACATAGTACTACACACGTGACCAACATTTA
* * * *
1912047 -CGGTACACATAGTAGCCTTCACTTAGTACTACACATGTGACCATCATTTA
1 TCGATACACATAGTAGCCTTCACATAGTACTACACACGTGACCAACATTTA
* * * * *
1912097 TCGATTCACGTAGTAGCCTTCACACAGTACTACACACGTGACCAA-AGCTTC
1 TCGATACACATAGTAGCCTTCACATAGTACTACACACGTGACCAACA-TTTA
* * * * * * *
1912148 TTGGTACATATTGTAGCCTTCACTTAGTACTACACATGTGACCATCATTTA
1 TCGATACACATAGTAGCCTTCACATAGTACTACACACGTGACCAACATTTA
** *
1912199 TCGATACATGTAGTAGCCTTCACACAGTACTACACACGTG
1 TCGATACACATAGTAGCCTTCACATAGTACTACACACGTG
1912239 TTCATCGATA
Statistics
Matches: 199, Mismatches: 40, Indels: 6
0.81 0.16 0.02
Matches are distributed among these distances:
50 89 0.45
51 109 0.55
52 1 0.01
ACGTcount: A:0.29, C:0.26, G:0.16, T:0.29
Consensus pattern (51 bp):
TCGATACACATAGTAGCCTTCACATAGTACTACACACGTGACCAACATTTA
Found at i:1912189 original size:102 final size:100
Alignment explanation
Indices: 1911950--1912238 Score: 402
Period size: 102 Copynumber: 2.9 Consensus size: 100
1911940 TATCATTCGA
* * * * *** *
1911950 TACACATAGTAGCCTTCACATGGTACTACACACGTGATCAAGTTTTA-CGGTTCACGTAGTAGCC
1 TACACATAGTAGCCTTCACTTAGTACTACACATGTGACCATCATTTATCGATTCACGTAGTAGCC
* *
1912014 TTCACATAGTACTACACACGTGATCAAGTTTTACGG
66 TTCACACAGTACTACACACGTGACCAAGTTTTA-GG
1912050 TACACATAGTAGCCTTCACTTAGTACTACACATGTGACCATCATTTATCGATTCACGTAGTAGCC
1 TACACATAGTAGCCTTCACTTAGTACTACACATGTGACCATCATTTATCGATTCACGTAGTAGCC
1912115 TTCACACAGTACTACACACGTGACCAAAGCTTCTT-GG
66 TTCACACAGTACTACACACGTGACC-AAG-TT-TTAGG
* * * *
1912152 TACATATTGTAGCCTTCACTTAGTACTACACATGTGACCATCATTTATCGATACATGTAGTAGCC
1 TACACATAGTAGCCTTCACTTAGTACTACACATGTGACCATCATTTATCGATTCACGTAGTAGCC
1912217 TTCACACAGTACTACACACGTG
66 TTCACACAGTACTACACACGTG
1912239 TTCATCGATA
Statistics
Matches: 171, Mismatches: 14, Indels: 6
0.90 0.07 0.03
Matches are distributed among these distances:
100 40 0.23
101 39 0.23
102 88 0.51
103 2 0.01
104 2 0.01
ACGTcount: A:0.29, C:0.26, G:0.16, T:0.29
Consensus pattern (100 bp):
TACACATAGTAGCCTTCACTTAGTACTACACATGTGACCATCATTTATCGATTCACGTAGTAGCC
TTCACACAGTACTACACACGTGACCAAGTTTTAGG
Found at i:1930138 original size:94 final size:94
Alignment explanation
Indices: 1929977--1930250 Score: 548
Period size: 94 Copynumber: 2.9 Consensus size: 94
1929967 TTATACTTGA
1929977 GGTATGGCTAATAGGTTTACTAAAAATAGTTTGAAATTCCCTTAGGTTTTTCTTACTCTTGGTTG
1 GGTATGGCTAATAGGTTTACTAAAAATAGTTTGAAATTCCCTTAGGTTTTTCTTACTCTTGGTTG
1930042 ACCATGAATTTTGGAAAGGAGAGGTTGTT
66 ACCATGAATTTTGGAAAGGAGAGGTTGTT
1930071 GGTATGGCTAATAGGTTTACTAAAAATAGTTTGAAATTCCCTTAGGTTTTTCTTACTCTTGGTTG
1 GGTATGGCTAATAGGTTTACTAAAAATAGTTTGAAATTCCCTTAGGTTTTTCTTACTCTTGGTTG
1930136 ACCATGAATTTTGGAAAGGAGAGGTTGTT
66 ACCATGAATTTTGGAAAGGAGAGGTTGTT
1930165 GGTATGGCTAATAGGTTTACTAAAAATAGTTTGAAATTCCCTTAGGTTTTTCTTACTCTTGGTTG
1 GGTATGGCTAATAGGTTTACTAAAAATAGTTTGAAATTCCCTTAGGTTTTTCTTACTCTTGGTTG
1930230 ACCATGAATTTTGGAAAGGAG
66 ACCATGAATTTTGGAAAGGAG
1930251 CTAGATGGTT
Statistics
Matches: 180, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
94 180 1.00
ACGTcount: A:0.27, C:0.11, G:0.23, T:0.39
Consensus pattern (94 bp):
GGTATGGCTAATAGGTTTACTAAAAATAGTTTGAAATTCCCTTAGGTTTTTCTTACTCTTGGTTG
ACCATGAATTTTGGAAAGGAGAGGTTGTT
Found at i:1932412 original size:110 final size:110
Alignment explanation
Indices: 1932219--1932439 Score: 415
Period size: 110 Copynumber: 2.0 Consensus size: 110
1932209 ATGTCTCTAC
1932219 TCATGGAGTCAACTACTCTTATAGCCAAGACTAGCGATCTCCTCAATTGGAATTGTAGACAACAT
1 TCATGGAGTCAACTACTCTTATAGCCAAGACTAGCGATCTCCTCAATTGGAATTGTAGACAACAT
*
1932284 AATAATCTTTCTCAGTATTTGAATCAAATGCTCACTTTGATTCTT
66 AATAATCCTTCTCAGTATTTGAATCAAATGCTCACTTTGATTCTT
* *
1932329 TCATGGAGTCAACTACTCTTATAGCTAAGACTAGTGATCTCCTCAATTGGAATTGTAGACAACAT
1 TCATGGAGTCAACTACTCTTATAGCCAAGACTAGCGATCTCCTCAATTGGAATTGTAGACAACAT
1932394 AATAATCCTTCTCAGTATTTGAATCAAATGCTCACTTTGATTCTT
66 AATAATCCTTCTCAGTATTTGAATCAAATGCTCACTTTGATTCTT
1932439 T
1 T
1932440 TATGAGATTA
Statistics
Matches: 108, Mismatches: 3, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
110 108 1.00
ACGTcount: A:0.31, C:0.20, G:0.14, T:0.35
Consensus pattern (110 bp):
TCATGGAGTCAACTACTCTTATAGCCAAGACTAGCGATCTCCTCAATTGGAATTGTAGACAACAT
AATAATCCTTCTCAGTATTTGAATCAAATGCTCACTTTGATTCTT
Found at i:1942471 original size:26 final size:26
Alignment explanation
Indices: 1942434--1942491 Score: 89
Period size: 26 Copynumber: 2.2 Consensus size: 26
1942424 CCCAACAAAT
*
1942434 TTTTGACAATTTTACCCTTGGTAAAA
1 TTTTGACAATTTTACCCCTGGTAAAA
* *
1942460 TTTTGACGATTTTTCCCCTGGTAAAA
1 TTTTGACAATTTTACCCCTGGTAAAA
1942486 TTTTGA
1 TTTTGA
1942492 GAAGATATAT
Statistics
Matches: 29, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
26 29 1.00
ACGTcount: A:0.26, C:0.16, G:0.14, T:0.45
Consensus pattern (26 bp):
TTTTGACAATTTTACCCCTGGTAAAA
Found at i:1944564 original size:10 final size:10
Alignment explanation
Indices: 1944502--1944587 Score: 75
Period size: 10 Copynumber: 8.4 Consensus size: 10
1944492 TTCTGCCCAA
1944502 TTATAA-TTT
1 TTATAATTTT
1944511 TTATAATTTTT
1 TTATAA-TTTT
* *
1944522 TCTACAATTTG
1 T-TATAATTTT
*
1944533 TTATAAGTTT
1 TTATAATTTT
* *
1944543 ATATAATATT
1 TTATAATTTT
*
1944553 TTACAATTTT
1 TTATAATTTT
1944563 TTAATAATTTT
1 TT-ATAATTTT
*
1944574 TAATAATTTT
1 TTATAATTTT
1944584 TTAT
1 TTAT
1944588 TTACATCCGG
Statistics
Matches: 59, Mismatches: 14, Indels: 7
0.74 0.17 0.09
Matches are distributed among these distances:
9 6 0.10
10 33 0.56
11 16 0.27
12 4 0.07
ACGTcount: A:0.34, C:0.03, G:0.02, T:0.60
Consensus pattern (10 bp):
TTATAATTTT
Found at i:1944586 original size:31 final size:30
Alignment explanation
Indices: 1944502--1944586 Score: 93
Period size: 31 Copynumber: 2.8 Consensus size: 30
1944492 TTCTGCCCAA
1944502 TTATAATTTTT-ATAATTTTTTCTACAATTTG
1 TTATAATTTTTAATAA-TTTTT-TACAATTTG
* * *
1944533 TTATAA-GTTTATATAATATTTTACAATTTT
1 TTATAATTTTTA-ATAATTTTTTACAATTTG
1944563 TTAATAATTTTTAATAATTTTTTA
1 TT-ATAATTTTTAATAATTTTTTA
1944587 TTTACATCCG
Statistics
Matches: 45, Mismatches: 5, Indels: 8
0.78 0.09 0.14
Matches are distributed among these distances:
30 13 0.29
31 24 0.53
32 8 0.18
ACGTcount: A:0.34, C:0.04, G:0.02, T:0.60
Consensus pattern (30 bp):
TTATAATTTTTAATAATTTTTTACAATTTG
Found at i:1946540 original size:17 final size:17
Alignment explanation
Indices: 1946518--1946554 Score: 74
Period size: 17 Copynumber: 2.2 Consensus size: 17
1946508 AGGGGATAAG
1946518 AACCCGTACAACCACAT
1 AACCCGTACAACCACAT
1946535 AACCCGTACAACCACAT
1 AACCCGTACAACCACAT
1946552 AAC
1 AAC
1946555 ATGTAGAAAA
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
17 20 1.00
ACGTcount: A:0.43, C:0.41, G:0.05, T:0.11
Consensus pattern (17 bp):
AACCCGTACAACCACAT
Found at i:1949389 original size:13 final size:14
Alignment explanation
Indices: 1949364--1949391 Score: 56
Period size: 14 Copynumber: 2.0 Consensus size: 14
1949354 AAAACTTATT
1949364 AAAAATTCAAAAAA
1 AAAAATTCAAAAAA
1949378 AAAAATTCAAAAAA
1 AAAAATTCAAAAAA
1949392 TTCATGGTTC
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 14 1.00
ACGTcount: A:0.79, C:0.07, G:0.00, T:0.14
Consensus pattern (14 bp):
AAAAATTCAAAAAA
Found at i:1951587 original size:43 final size:43
Alignment explanation
Indices: 1951535--1951616 Score: 119
Period size: 43 Copynumber: 1.9 Consensus size: 43
1951525 CGCTTTAGTG
**
1951535 GAAGCGCCGCTAAAGACCTTGATCTGTAGCGGCGTTTTTGGTA
1 GAAGCGCCGCTAAAGACCAGGATCTGTAGCGGCGTTTTTGGTA
* * *
1951578 GAAGCGCCGCTAAAGATCAGGGTCTTTAGCGGCGTTTTT
1 GAAGCGCCGCTAAAGACCAGGATCTGTAGCGGCGTTTTT
1951617 ATCCCAAACG
Statistics
Matches: 34, Mismatches: 5, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
43 34 1.00
ACGTcount: A:0.21, C:0.21, G:0.30, T:0.28
Consensus pattern (43 bp):
GAAGCGCCGCTAAAGACCAGGATCTGTAGCGGCGTTTTTGGTA
Found at i:1951691 original size:43 final size:42
Alignment explanation
Indices: 1951644--1951848 Score: 193
Period size: 43 Copynumber: 4.8 Consensus size: 42
1951634 AGAGTAAGAC
* *
1951644 CTTTAGCGGCGCTTCT-CCCAAAAACGCCGCTAAAGAACCTATT
1 CTTTAGCGGCGCTT-TGACCAAAAACGCCACTAAAG-ACCTATT
* * *
1951687 CTTTAGCGGTGCTTTGACCATAAACGCCCCTAAAGACCTATT
1 CTTTAGCGGCGCTTTGACCAAAAACGCCACTAAAGACCTATT
* ** * *
1951729 CTTTAGTGGCGCTTTCCCCTAAAACGCCGC-AATAGACTCTGA-T
1 CTTTAGCGGCGCTTTGACCAAAAACGCCACTAA-AGAC-CT-ATT
* ** *
1951772 CTGTAGCGGCGCTTTTTCCACAAACGCCACTAAAGACCCT-TAT
1 CTTTAGCGGCGCTTTGACCAAAAACGCCACTAAAGA-CCTAT-T
1951815 CTTTAGCGGCGCTTTGACCAAAAACGCCACTAAA
1 CTTTAGCGGCGCTTTGACCAAAAACGCCACTAAA
1951849 ACGGCCACCA
Statistics
Matches: 132, Mismatches: 22, Indels: 16
0.78 0.13 0.09
Matches are distributed among these distances:
41 2 0.02
42 35 0.27
43 91 0.69
44 4 0.03
ACGTcount: A:0.27, C:0.31, G:0.17, T:0.25
Consensus pattern (42 bp):
CTTTAGCGGCGCTTTGACCAAAAACGCCACTAAAGACCTATT
Found at i:1951779 original size:85 final size:87
Alignment explanation
Indices: 1951644--1951848 Score: 219
Period size: 85 Copynumber: 2.4 Consensus size: 87
1951634 AGAGTAAGAC
* * *
1951644 CTTTAGCGGCGC-TTCTCCCAAAAACGCCGCTAAAGAACCTATTCTTTAGCGGTGCTTTGACCAT
1 CTTTAGCGGCGCTTTCTCCCAAAAACGCCGCTAAAGAACCTATTCTGTAGCGGCGCTTTGACCAC
*
1951708 AAACGCCCCTAAAGA-CC-TATT
66 AAACGCCACTAAAGACCCTTA-T
* * **
1951729 CTTTAGTGGCGCTTTC-CCCTAAAACGCCGC-AATAG-ACTCTGA-TCTGTAGCGGCGCTTTTTC
1 CTTTAGCGGCGCTTTCTCCCAAAAACGCCGCTAA-AGAAC-CT-ATTCTGTAGCGGCGCTTTGAC
1951790 CACAAACGCCACTAAAGACCCTTAT
63 CACAAACGCCACTAAAGACCCTTAT
** *
1951815 CTTTAGCGGCGCTTT-GACCAAAAACGCCACTAAA
1 CTTTAGCGGCGCTTTCTCCCAAAAACGCCGCTAAA
1951849 ACGGCCACCA
Statistics
Matches: 100, Mismatches: 12, Indels: 15
0.79 0.09 0.12
Matches are distributed among these distances:
84 4 0.04
85 59 0.59
86 33 0.33
87 4 0.04
ACGTcount: A:0.27, C:0.31, G:0.17, T:0.25
Consensus pattern (87 bp):
CTTTAGCGGCGCTTTCTCCCAAAAACGCCGCTAAAGAACCTATTCTGTAGCGGCGCTTTGACCAC
AAACGCCACTAAAGACCCTTAT
Found at i:1952246 original size:21 final size:21
Alignment explanation
Indices: 1952204--1952295 Score: 94
Period size: 21 Copynumber: 4.4 Consensus size: 21
1952194 TTTGACGCTG
**
1952204 CTCTGCTTCCCTCGCTTTAGC
1 CTCTGCTTCCCTCGCTGCAGC
1952225 CTCTGCTTCCCTCGCTGCAGC
1 CTCTGCTTCCCTCGCTGCAGC
* * * *
1952246 CTGTACTTCTCTCGCTGCCGC
1 CTCTGCTTCCCTCGCTGCAGC
* * *
1952267 CTCTGCTTCTCTTGCTGCCGC
1 CTCTGCTTCCCTCGCTGCAGC
*
1952288 ATCTGCTT
1 CTCTGCTT
1952296 TAAGCTGCTG
Statistics
Matches: 61, Mismatches: 10, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
21 61 1.00
ACGTcount: A:0.04, C:0.42, G:0.17, T:0.36
Consensus pattern (21 bp):
CTCTGCTTCCCTCGCTGCAGC
Found at i:1952343 original size:66 final size:66
Alignment explanation
Indices: 1952266--1952412 Score: 199
Period size: 66 Copynumber: 2.2 Consensus size: 66
1952256 CTCGCTGCCG
* * *
1952266 CCTCTGCTTCTCTTGCTGCCGCATCTGCTTTAAGCTGCT-GCTGGAGTTCTTCATA-CTTTCGTT
1 CCTCAGCTTCTCTCGCTGCCACATCTGCTTTAAGCTG-TAGCTGGAGTTCTTCATATCTTT-GTT
1952329 GAA
64 GAA
* * * *
1952332 CCTCAGCTTCTCTCGCTGCTACATCTGCTTTCAGTTGTAGCTGGAGTTCTTCATATCTTTTTTGA
1 CCTCAGCTTCTCTCGCTGCCACATCTGCTTTAAGCTGTAGCTGGAGTTCTTCATATCTTTGTTGA
1952397 A
66 A
1952398 CCTCAGCTTCTCTCG
1 CCTCAGCTTCTCTCG
1952413 ATGTTGCCTC
Statistics
Matches: 72, Mismatches: 7, Indels: 4
0.87 0.08 0.05
Matches are distributed among these distances:
65 1 0.01
66 67 0.93
67 4 0.06
ACGTcount: A:0.13, C:0.29, G:0.18, T:0.40
Consensus pattern (66 bp):
CCTCAGCTTCTCTCGCTGCCACATCTGCTTTAAGCTGTAGCTGGAGTTCTTCATATCTTTGTTGA
A
Found at i:1952428 original size:66 final size:66
Alignment explanation
Indices: 1952287--1952435 Score: 185
Period size: 66 Copynumber: 2.3 Consensus size: 66
1952277 CTTGCTGCCG
* * *
1952287 CATCTGCTTTAAGCTGCT-GCTGGAGTTCTTCATACTTTCGTTGAACCTCAGCTTCTCTCGCTGC
1 CATCCGCTTTAAGTTG-TAGCTGGAGTTCTTCATACTTTCGTTGAACCTCAGCTTCTCTCGATGC
1952351 TA
65 TA
* * * *
1952353 CATCTGCTTTCAGTTGTAGCTGGAGTTCTTCATATCTTT-TTTGAACCTCAGCTTCTCTCGATGT
1 CATCCGCTTTAAGTTGTAGCTGGAGTTCTTCATA-CTTTCGTTGAACCTCAGCTTCTCTCGATGC
*
1952417 TG
65 TA
*
1952419 CCTCCGCTTTAAGTTGT
1 CATCCGCTTTAAGTTGT
1952436 GTAATTTGCT
Statistics
Matches: 72, Mismatches: 9, Indels: 4
0.85 0.11 0.05
Matches are distributed among these distances:
65 1 0.01
66 67 0.93
67 4 0.06
ACGTcount: A:0.15, C:0.26, G:0.18, T:0.41
Consensus pattern (66 bp):
CATCCGCTTTAAGTTGTAGCTGGAGTTCTTCATACTTTCGTTGAACCTCAGCTTCTCTCGATGCT
A
Found at i:1961653 original size:92 final size:92
Alignment explanation
Indices: 1961496--1961679 Score: 368
Period size: 92 Copynumber: 2.0 Consensus size: 92
1961486 AATGTTTAAG
1961496 AGATTAATTAATTTAATAAGTATGTATGAGCAGTAGCTAGCAAATTAGCAAGTTGCTATGAATTT
1 AGATTAATTAATTTAATAAGTATGTATGAGCAGTAGCTAGCAAATTAGCAAGTTGCTATGAATTT
1961561 CTTCGTAACAACATGAACATGAGTTAT
66 CTTCGTAACAACATGAACATGAGTTAT
1961588 AGATTAATTAATTTAATAAGTATGTATGAGCAGTAGCTAGCAAATTAGCAAGTTGCTATGAATTT
1 AGATTAATTAATTTAATAAGTATGTATGAGCAGTAGCTAGCAAATTAGCAAGTTGCTATGAATTT
1961653 CTTCGTAACAACATGAACATGAGTTAT
66 CTTCGTAACAACATGAACATGAGTTAT
1961680 GTAATTCTAA
Statistics
Matches: 92, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
92 92 1.00
ACGTcount: A:0.38, C:0.11, G:0.17, T:0.34
Consensus pattern (92 bp):
AGATTAATTAATTTAATAAGTATGTATGAGCAGTAGCTAGCAAATTAGCAAGTTGCTATGAATTT
CTTCGTAACAACATGAACATGAGTTAT
Found at i:1965608 original size:43 final size:42
Alignment explanation
Indices: 1965542--1965683 Score: 132
Period size: 41 Copynumber: 3.4 Consensus size: 42
1965532 AGCTCGTACA
* * *
1965542 ATGCCAACGTCCCAGACGT-GGTCTTACATGTAATCACATATCG
1 ATGCCAATGTCCCAGACATGGGTCTTACACGTAA-CACATA-CG
* * * * *
1965585 ATGCCACTGTCCTAGATA-GGGTCTTACACGAAACAAATACG
1 ATGCCAATGTCCCAGACATGGGTCTTACACGTAACACATACG
*
1965626 ATGCCAATGTCCCAGACATGGG-CTTACACGTAACACA-AGTTG
1 ATGCCAATGTCCCAGACATGGGTCTTACACGTAACACATA--CG
1965668 ATGCCAA-GTCCCAGAC
1 ATGCCAATGTCCCAGAC
1965684 GTGGTCATAG
Statistics
Matches: 81, Mismatches: 14, Indels: 10
0.77 0.13 0.10
Matches are distributed among these distances:
40 1 0.01
41 39 0.48
42 16 0.20
43 25 0.31
ACGTcount: A:0.31, C:0.27, G:0.20, T:0.22
Consensus pattern (42 bp):
ATGCCAATGTCCCAGACATGGGTCTTACACGTAACACATACG
Found at i:1979394 original size:49 final size:49
Alignment explanation
Indices: 1979283--1979427 Score: 193
Period size: 49 Copynumber: 2.9 Consensus size: 49
1979273 GATACTAACA
* * **
1979283 TGCCAAAGTCATGTCCTAGACATGGTCTTACATGGGAGTTCTCATATCGG
1 TGCCAAAGCCATGTCCTAGACATGGTCTTAC-GGGGACCTCTCATATCGG
* *
1979333 TG-CACATGCCATGTCCTAGACATGGTCTTACGGGGACCTCTCATCTCGG
1 TGCCA-AAGCCATGTCCTAGACATGGTCTTACGGGGACCTCTCATATCGG
*
1979382 TGCCAACGCCATGTCCTAGACATGGTCTTACGTGGGACCTCTCATA
1 TGCCAAAGCCATGTCCTAGACATGGTCTTACG-GGGACCTCTCATA
1979428 GCCTCAATAA
Statistics
Matches: 84, Mismatches: 8, Indels: 6
0.86 0.08 0.06
Matches are distributed among these distances:
49 44 0.52
50 40 0.48
ACGTcount: A:0.21, C:0.28, G:0.23, T:0.28
Consensus pattern (49 bp):
TGCCAAAGCCATGTCCTAGACATGGTCTTACGGGGACCTCTCATATCGG
Found at i:2019463 original size:43 final size:43
Alignment explanation
Indices: 2019207--2019448 Score: 283
Period size: 43 Copynumber: 5.7 Consensus size: 43
2019197 GCTGCTCTAA
*
2019207 AACATGACCTTTAGCGGCGCTTTTAT-AAAAACGCCACTAAAG
1 AACATGACCTTTAGCGGCGCTTTTATCACAAACGCCACTAAAG
* * * *
2019249 AACATAACCATTAGCGGCGC-TTTACTCATAAACGTCACTATAA-
1 AACATGACCTTTAGCGGCGCTTTTA-TCACAAACGCCACTA-AAG
* * * *
2019292 AACATGATCTTTAGCGGCTCTTTTATCGCAAACGCCGCTAAAG
1 AACATGACCTTTAGCGGCGCTTTTATCACAAACGCCACTAAAG
** * * **
2019335 AACATGACCTTTAGTAGCGCTTTTATCGCAAACACCGTTAAAG
1 AACATGACCTTTAGCGGCGCTTTTATCACAAACGCCACTAAAG
* * *
2019378 AATATGACCTTTAGTGGCGCTTTTATCGCAAACGCCACTAAAG
1 AACATGACCTTTAGCGGCGCTTTTATCACAAACGCCACTAAAG
2019421 AACATGACCTTTAGCGGCGCTTTTATCA
1 AACATGACCTTTAGCGGCGCTTTTATCA
2019449 AAAATGTTGT
Statistics
Matches: 169, Mismatches: 26, Indels: 9
0.83 0.13 0.04
Matches are distributed among these distances:
41 4 0.02
42 21 0.12
43 138 0.82
44 6 0.04
ACGTcount: A:0.32, C:0.24, G:0.17, T:0.27
Consensus pattern (43 bp):
AACATGACCTTTAGCGGCGCTTTTATCACAAACGCCACTAAAG
Found at i:2022087 original size:12 final size:12
Alignment explanation
Indices: 2022070--2022094 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
2022060 CCTTTCCTTC
2022070 ATTTTGAAGAAT
1 ATTTTGAAGAAT
2022082 ATTTTGAAGAAT
1 ATTTTGAAGAAT
2022094 A
1 A
2022095 CGGTAATCAA
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 13 1.00
ACGTcount: A:0.44, C:0.00, G:0.16, T:0.40
Consensus pattern (12 bp):
ATTTTGAAGAAT
Found at i:2022394 original size:40 final size:40
Alignment explanation
Indices: 2022330--2022435 Score: 124
Period size: 40 Copynumber: 2.6 Consensus size: 40
2022320 TTTTTTGCGC
* * *
2022330 CATTTTTCAAAAAGCACCGCTAATGGTCAACCTATAGCGA
1 CATTTTTCAAAAAGCGCCACTAATGCTCAACCTATAGCGA
* * * * *
2022370 CGTTTTTCAAAAAGCGCCATTAATGCTCGATCTATAGCGG
1 CATTTTTCAAAAAGCGCCACTAATGCTCAACCTATAGCGA
2022410 CATTTTTCAAAAAGCG-CAGCTAATGC
1 CATTTTTCAAAAAGCGCCA-CTAATGC
2022436 CACTAAAGCT
Statistics
Matches: 55, Mismatches: 10, Indels: 2
0.82 0.15 0.03
Matches are distributed among these distances:
39 2 0.04
40 53 0.96
ACGTcount: A:0.32, C:0.24, G:0.17, T:0.27
Consensus pattern (40 bp):
CATTTTTCAAAAAGCGCCACTAATGCTCAACCTATAGCGA
Found at i:2022549 original size:40 final size:38
Alignment explanation
Indices: 2022505--2022651 Score: 150
Period size: 40 Copynumber: 3.7 Consensus size: 38
2022495 AAAGCGTCGC
* * * *
2022505 TAATGGTCGACCTATAGCGGTGTTTTTTGAAAAATGCTGT
1 TAATGCTCGATCTATAGCGGCG-TTTTT-AAAAATGCTGA
*
2022545 TAATGCTCGATCTATAGCGGCGTTTTTCAAAATGCGTCGA
1 TAATGCTCGATCTATAGCGGCGTTTTTAAAAATGC-T-GA
* * * *
2022585 TAATGCTTGATCTATAGCGGTGTTTTTCAAGAAATGCCGC
1 TAATGCTCGATCTATAGCGGCGTTTTT-AA-AAATGCTGA
*
2022625 TAATGCTCGATCTATAGTGGCGTTTTT
1 TAATGCTCGATCTATAGCGGCGTTTTT
2022652 TATCCAAACG
Statistics
Matches: 90, Mismatches: 13, Indels: 8
0.81 0.12 0.07
Matches are distributed among these distances:
38 7 0.08
39 6 0.07
40 70 0.78
41 1 0.01
42 6 0.07
ACGTcount: A:0.24, C:0.16, G:0.23, T:0.37
Consensus pattern (38 bp):
TAATGCTCGATCTATAGCGGCGTTTTTAAAAATGCTGA
Found at i:2022571 original size:155 final size:155
Alignment explanation
Indices: 2022285--2022576 Score: 444
Period size: 155 Copynumber: 1.9 Consensus size: 155
2022275 AAATAAACAC
*
2022285 AAAGCTCAACATAAAACGATGGTGTTGTGCTTAATTTTTTTGCGCCATTTTTCAAAAAGCACCGC
1 AAAGCTCAACATAAAACGATGGCGTTGTGCTTAATTTTTTTGCGCCATTTTTCAAAAAGCACCGC
2022350 TAATGGTCAACCTATAGCGACGTTTTTCAAAAAGCGCCATTAATGCTCGATCTATAGCGGCATTT
66 TAATGGTCAACCTATAGCGACGTTTTTCAAAAAGCGCCATTAATGCTCGATCTATAGCGGCATTT
2022415 TTCAAAAAGCGCAGCTAATGCCACT
131 TTCAAAAAGCGCAGCTAATGCCACT
* **
2022440 AAAGCTCAACATAAAACGACT-GCGTTGTGCTTAATTTTTTTGCGGCATTTTTCAAAAAGCGTCG
1 AAAGCTCAACATAAAACGA-TGGCGTTGTGCTTAATTTTTTTGCGCCATTTTTCAAAAAGCACCG
* ** * * ** *
2022504 CTAATGGTCGACCTATAGCGGTGTTTTTTGAAAAA-TGCTGTTAATGCTCGATCTATAGCGGCGT
65 CTAATGGTCAACCTATAGCGACG-TTTTTCAAAAAGCGCCATTAATGCTCGATCTATAGCGGCAT
2022568 TTTTCAAAA
129 TTTTCAAAA
2022577 TGCGTCGATA
Statistics
Matches: 123, Mismatches: 12, Indels: 4
0.88 0.09 0.03
Matches are distributed among these distances:
155 112 0.91
156 11 0.09
ACGTcount: A:0.29, C:0.20, G:0.19, T:0.32
Consensus pattern (155 bp):
AAAGCTCAACATAAAACGATGGCGTTGTGCTTAATTTTTTTGCGCCATTTTTCAAAAAGCACCGC
TAATGGTCAACCTATAGCGACGTTTTTCAAAAAGCGCCATTAATGCTCGATCTATAGCGGCATTT
TTCAAAAAGCGCAGCTAATGCCACT
Found at i:2022582 original size:80 final size:80
Alignment explanation
Indices: 2022481--2022651 Score: 236
Period size: 80 Copynumber: 2.1 Consensus size: 80
2022471 TAATTTTTTT
* * * * * *
2022481 GCGGCATTTTTCAAAAAGCGTCGCTAATGGTCGACCTATAGCGGTGTTTTTTGAA-AAATGCTGT
1 GCGGCGTTTTTCAAAAAGCGTCGATAATGCTCGACCTATAGCGGTG-TTTTTCAAGAAATGCCGC
2022545 TAATGCTCGATCTATA
65 TAATGCTCGATCTATA
* * *
2022561 GCGGCGTTTTTCAAAATGCGTCGATAATGCTTGATCTATAGCGGTGTTTTTCAAGAAATGCCGCT
1 GCGGCGTTTTTCAAAAAGCGTCGATAATGCTCGACCTATAGCGGTGTTTTTCAAGAAATGCCGCT
2022626 AATGCTCGATCTATA
66 AATGCTCGATCTATA
*
2022641 GTGGCGTTTTT
1 GCGGCGTTTTT
2022652 TATCCAAACG
Statistics
Matches: 80, Mismatches: 10, Indels: 2
0.87 0.11 0.02
Matches are distributed among these distances:
79 7 0.09
80 73 0.91
ACGTcount: A:0.24, C:0.18, G:0.23, T:0.35
Consensus pattern (80 bp):
GCGGCGTTTTTCAAAAAGCGTCGATAATGCTCGACCTATAGCGGTGTTTTTCAAGAAATGCCGCT
AATGCTCGATCTATA
Found at i:2025462 original size:17 final size:17
Alignment explanation
Indices: 2025421--2025465 Score: 56
Period size: 18 Copynumber: 2.6 Consensus size: 17
2025411 TGAAACCAAA
2025421 AAGAAAAATAAAAAAGT
1 AAGAAAAATAAAAAAGT
*
2025438 TAGTAAAAATAAGAAAA-T
1 AAG-AAAAATAA-AAAAGT
2025456 AAGAAAAATA
1 AAGAAAAATA
2025466 TTTATAATTT
Statistics
Matches: 24, Mismatches: 2, Indels: 4
0.80 0.07 0.13
Matches are distributed among these distances:
17 9 0.38
18 11 0.46
19 4 0.17
ACGTcount: A:0.73, C:0.00, G:0.11, T:0.16
Consensus pattern (17 bp):
AAGAAAAATAAAAAAGT
Found at i:2026873 original size:19 final size:20
Alignment explanation
Indices: 2026843--2026880 Score: 60
Period size: 19 Copynumber: 1.9 Consensus size: 20
2026833 CTTTTTATTT
*
2026843 AATTTAAACTAAAATATAAA
1 AATTTAAACTAAAACATAAA
2026863 AATTT-AACTAAAACATAA
1 AATTTAAACTAAAACATAA
2026881 TAAAAGTGCT
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
19 12 0.71
20 5 0.29
ACGTcount: A:0.63, C:0.08, G:0.00, T:0.29
Consensus pattern (20 bp):
AATTTAAACTAAAACATAAA
Found at i:2051471 original size:40 final size:40
Alignment explanation
Indices: 2051426--2051577 Score: 162
Period size: 40 Copynumber: 3.8 Consensus size: 40
2051416 ATAACCACAA
* *
2051426 GCACAATTGCCTTCGGGTCTTAACCCGGGTATAGCAACTC
1 GCACAAATGCCTTCGGGTCTTAACCCGGATATAGCAACTC
* *
2051466 GCACAAATGCCTTCGGGTCTTAGCCCGGATATATCAACTC
1 GCACAAATGCCTTCGGGTCTTAACCCGGATATAGCAACTC
* * * * * *
2051506 GCACAAATGCCTTCGGGACTTAGCTCGGATAAAATC-ACTA
1 GCACAAATGCCTTCGGGTCTTAACCCGGAT-ATAGCAACTC
* * * *
2051546 GCATAAATGCCTTCGGGACTTAGCGCGGATAT
1 GCACAAATGCCTTCGGGTCTTAACCCGGATAT
2051578 CATTCAAATG
Statistics
Matches: 100, Mismatches: 11, Indels: 3
0.88 0.10 0.03
Matches are distributed among these distances:
39 1 0.01
40 95 0.95
41 4 0.04
ACGTcount: A:0.26, C:0.27, G:0.22, T:0.24
Consensus pattern (40 bp):
GCACAAATGCCTTCGGGTCTTAACCCGGATATAGCAACTC
Found at i:2051510 original size:80 final size:80
Alignment explanation
Indices: 2051426--2051577 Score: 189
Period size: 80 Copynumber: 1.9 Consensus size: 80
2051416 ATAACCACAA
* * * * * *
2051426 GCACAATTGCCTTCGGGTCTTAACCCGGGT-ATAGCAACTCGCACAAATGCCTTCGGGTCTTAGC
1 GCACAAATGCCTTCGGGACTTAACCCGGATAAAAGC-ACTAGCACAAATGCCTTCGGGACTTAGC
2051490 CCGGATATATCAACTC
65 CCGGATATATCAACTC
* * * * *
2051506 GCACAAATGCCTTCGGGACTTAGCTCGGATAAAATCACTAGCATAAATGCCTTCGGGACTTAGCG
1 GCACAAATGCCTTCGGGACTTAACCCGGATAAAAGCACTAGCACAAATGCCTTCGGGACTTAGCC
2051571 CGGATAT
66 CGGATAT
2051578 CATTCAAATG
Statistics
Matches: 60, Mismatches: 11, Indels: 2
0.82 0.15 0.03
Matches are distributed among these distances:
80 57 0.95
81 3 0.05
ACGTcount: A:0.26, C:0.27, G:0.22, T:0.24
Consensus pattern (80 bp):
GCACAAATGCCTTCGGGACTTAACCCGGATAAAAGCACTAGCACAAATGCCTTCGGGACTTAGCC
CGGATATATCAACTC
Done.