Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: VEPZ01009643.1 Hibiscus syriacus cultivar Beakdansim tig00117056_pilon, whole genome shotgun sequence
Parameters: 2 7 7 80 10 50 1000
Pmatch=0.80,Pindel=0.10
tuple sizes 0,4,5,7
tuple distances 0, 29, 159, 1000
Length: 8859806
ACGTcount: A:0.33, C:0.17, G:0.17, T:0.33
File 31 of 41
Found at i:6583617 original size:33 final size:34
Alignment explanation
Indices: 6583566--6583638 Score: 87
Period size: 33 Copynumber: 2.2 Consensus size: 34
6583556 ACTATCGCAA
* ** *
6583566 TGCGATTCTGTCGTTGCGATTTTC-ATTTCGCGT
1 TGCGATTCTGTCGCTGCGATAGTCAAATTCGCGT
6583599 TGCGATTCT-TGCGCTGCGATAGTCAAATTCGCGT
1 TGCGATTCTGT-CGCTGCGATAGTCAAATTCGCGT
6583633 TGCGAT
1 TGCGAT
6583639 AGTCATTTTC
Statistics
Matches: 34, Mismatches: 4, Indels: 3
0.83 0.10 0.07
Matches are distributed among these distances:
32 1 0.03
33 19 0.56
34 14 0.41
ACGTcount: A:0.14, C:0.22, G:0.26, T:0.38
Consensus pattern (34 bp):
TGCGATTCTGTCGCTGCGATAGTCAAATTCGCGT
Found at i:6583638 original size:20 final size:20
Alignment explanation
Indices: 6583613--6583658 Score: 65
Period size: 20 Copynumber: 2.3 Consensus size: 20
6583603 ATTCTTGCGC
6583613 TGCGATAGTCAAATTCGCGT
1 TGCGATAGTCAAATTCGCGT
** *
6583633 TGCGATAGTCATTTTCGTGT
1 TGCGATAGTCAAATTCGCGT
6583653 TGCGAT
1 TGCGAT
6583659 TTTCATTTTC
Statistics
Matches: 23, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
20 23 1.00
ACGTcount: A:0.20, C:0.17, G:0.26, T:0.37
Consensus pattern (20 bp):
TGCGATAGTCAAATTCGCGT
Found at i:6583664 original size:20 final size:20
Alignment explanation
Indices: 6583626--6583680 Score: 74
Period size: 20 Copynumber: 2.8 Consensus size: 20
6583616 GATAGTCAAA
* **
6583626 TTCGCGTTGCGATAGTCATT
1 TTCGTGTTGCGATTTTCATT
6583646 TTCGTGTTGCGATTTTCATT
1 TTCGTGTTGCGATTTTCATT
*
6583666 TTCGTATTGCGATTT
1 TTCGTGTTGCGATTT
6583681 AAAGTTTCAG
Statistics
Matches: 31, Mismatches: 4, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
20 31 1.00
ACGTcount: A:0.13, C:0.16, G:0.22, T:0.49
Consensus pattern (20 bp):
TTCGTGTTGCGATTTTCATT
Found at i:6583688 original size:20 final size:20
Alignment explanation
Indices: 6583645--6583688 Score: 52
Period size: 20 Copynumber: 2.2 Consensus size: 20
6583635 CGATAGTCAT
* ** *
6583645 TTTCGTGTTGCGATTTTCAT
1 TTTCGTATTGCGATTTAAAG
6583665 TTTCGTATTGCGATTTAAAG
1 TTTCGTATTGCGATTTAAAG
6583685 TTTC
1 TTTC
6583689 AGAAACTATT
Statistics
Matches: 20, Mismatches: 4, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
20 20 1.00
ACGTcount: A:0.16, C:0.14, G:0.18, T:0.52
Consensus pattern (20 bp):
TTTCGTATTGCGATTTAAAG
Found at i:6585580 original size:20 final size:20
Alignment explanation
Indices: 6585566--6585603 Score: 67
Period size: 20 Copynumber: 1.9 Consensus size: 20
6585556 ATCGCAATGT
6585566 GAAAATGACTATCGCAACAC
1 GAAAATGACTATCGCAACAC
*
6585586 GAAAATGATTATCGCAAC
1 GAAAATGACTATCGCAAC
6585604 GAGAGAATCG
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
20 17 1.00
ACGTcount: A:0.45, C:0.21, G:0.16, T:0.18
Consensus pattern (20 bp):
GAAAATGACTATCGCAACAC
Found at i:6585668 original size:20 final size:20
Alignment explanation
Indices: 6585643--6585749 Score: 151
Period size: 20 Copynumber: 5.3 Consensus size: 20
6585633 CAACAACAAA
*
6585643 ATCGCAACGCGAAAATGACT
1 ATCGCAATGCGAAAATGACT
6585663 ATCGCAATGCGAAAATGACT
1 ATCGCAATGCGAAAATGACT
6585683 ATCGCAATGCGAAAATGACT
1 ATCGCAATGCGAAAATGACT
* * *
6585703 ATTGTAATGCCAAAATGACT
1 ATCGCAATGCGAAAATGACT
** *
6585723 ATCGCAATGCGAATTTGATT
1 ATCGCAATGCGAAAATGACT
6585743 ATCGCAA
1 ATCGCAA
6585750 CGAAAGAATC
Statistics
Matches: 77, Mismatches: 10, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
20 77 1.00
ACGTcount: A:0.38, C:0.20, G:0.19, T:0.23
Consensus pattern (20 bp):
ATCGCAATGCGAAAATGACT
Found at i:6585698 original size:40 final size:37
Alignment explanation
Indices: 6585555--6585787 Score: 139
Period size: 40 Copynumber: 6.4 Consensus size: 37
6585545 AATAGTTTAT
* ** *
6585555 TATCGCAATGTGAAAATGACTATCGCAACACGAAAATGAT
1 TATCGCAATGCGAAAA-GA--ATCGCAATGCGAAAATGAA
*
6585595 TATCGCAA--CG-AGAGAATCGCAATGCG-AAATGAA
1 TATCGCAATGCGAAAAGAATCGCAATGCGAAAATGAA
* * *
6585628 AATCGCAA--C-AACAA-AATCGCAACGCGAAAATGAC
1 TATCGCAATGCGAA-AAGAATCGCAATGCGAAAATGAA
*
6585662 TATCGCAATGCGAAAATGACTATCGCAATGCGAAAATGAC
1 TATCGCAATGCGAAAA-GA--ATCGCAATGCGAAAATGAA
* * * ** *
6585702 TATTGTAATGCCAAAATGACTATCGCAATGCGAATTTGAT
1 TATCGCAATGCGAAAA-GA--ATCGCAATGCGAAAATGAA
6585742 TATCGCAA--CG-AAAGAATCGCAATGCG-AAATGAA
1 TATCGCAATGCGAAAAGAATCGCAATGCGAAAATGAA
* *
6585775 AATCGCATTGCGA
1 TATCGCAATGCGA
6585788 TTCTCTCGTT
Statistics
Matches: 155, Mismatches: 25, Indels: 30
0.74 0.12 0.14
Matches are distributed among these distances:
33 36 0.23
34 34 0.22
35 2 0.01
36 7 0.05
37 7 0.05
38 3 0.02
40 66 0.43
ACGTcount: A:0.42, C:0.19, G:0.19, T:0.20
Consensus pattern (37 bp):
TATCGCAATGCGAAAAGAATCGCAATGCGAAAATGAA
Found at i:6585833 original size:20 final size:20
Alignment explanation
Indices: 6585796--6585892 Score: 122
Period size: 20 Copynumber: 4.8 Consensus size: 20
6585786 GATTCTCTCG
* ** *
6585796 TTGCGATAGTTAAATTCGTA
1 TTGCGATAGTCATTTTCGCA
6585816 TTGCGATAGTCATTTTCGCA
1 TTGCGATAGTCATTTTCGCA
* * *
6585836 TTGCGATATTCATTTTCACG
1 TTGCGATAGTCATTTTCGCA
*
6585856 TTGCGATAGTCATTTTCGCG
1 TTGCGATAGTCATTTTCGCA
6585876 TTGCGATAGTCATTTTC
1 TTGCGATAGTCATTTTC
6585893 TCGTTGCAAT
Statistics
Matches: 68, Mismatches: 9, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
20 68 1.00
ACGTcount: A:0.21, C:0.18, G:0.20, T:0.42
Consensus pattern (20 bp):
TTGCGATAGTCATTTTCGCA
Found at i:6585897 original size:20 final size:20
Alignment explanation
Indices: 6585816--6585899 Score: 132
Period size: 20 Copynumber: 4.2 Consensus size: 20
6585806 TAAATTCGTA
*
6585816 TTGCGATAGTCATTTTCGCA
1 TTGCGATAGTCATTTTCGCG
* *
6585836 TTGCGATATTCATTTTCACG
1 TTGCGATAGTCATTTTCGCG
6585856 TTGCGATAGTCATTTTCGCG
1 TTGCGATAGTCATTTTCGCG
*
6585876 TTGCGATAGTCATTTTCTCG
1 TTGCGATAGTCATTTTCGCG
6585896 TTGC
1 TTGC
6585900 AATTTTAAGT
Statistics
Matches: 58, Mismatches: 6, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
20 58 1.00
ACGTcount: A:0.17, C:0.20, G:0.20, T:0.43
Consensus pattern (20 bp):
TTGCGATAGTCATTTTCGCG
Found at i:6586477 original size:21 final size:20
Alignment explanation
Indices: 6586386--6586483 Score: 63
Period size: 21 Copynumber: 4.7 Consensus size: 20
6586376 GACTCACCTG
6586386 TCATCGTTCAAGAGG-CCTCC
1 TCATCGTTCAAGAGGCCCT-C
* *
6586406 CCTATCGTTCAAGAGGGCCCTA
1 TC-ATCGTTCAAGA-GGCCCTC
** *
6586428 TCATCCCTCAAGAGTCCCCTC
1 TCATCGTTCAAGAG-GCCCTC
* * *
6586449 CCACCGTTCAAGAGGCCACTT
1 TCATCGTTCAAGAGGCC-CTC
*
6586470 TCATCGTTGAAGAG
1 TCATCGTTCAAGAG
6586484 ATCCCTCCCA
Statistics
Matches: 57, Mismatches: 16, Indels: 9
0.70 0.20 0.11
Matches are distributed among these distances:
20 4 0.07
21 47 0.82
22 3 0.05
23 3 0.05
ACGTcount: A:0.22, C:0.35, G:0.19, T:0.23
Consensus pattern (20 bp):
TCATCGTTCAAGAGGCCCTC
Found at i:6586483 original size:42 final size:42
Alignment explanation
Indices: 6586411--6586493 Score: 98
Period size: 42 Copynumber: 2.0 Consensus size: 42
6586401 CCTCCCCTAT
6586411 CGTTCAAGAGGGCCCTATCATCCCTCAAGAG-TCCCCTCCCAC
1 CGTTCAAGAGGGCCCTATCATCCCTCAAGAGAT-CCCTCCCAC
* ** *
6586453 CGTTCAAGA-GGCCACTTTCATCGTTGAAGAGATCCCTCCCA
1 CGTTCAAGAGGGCC-CTATCATCCCTCAAGAGATCCCTCCCA
6586494 ACATTCTAGA
Statistics
Matches: 35, Mismatches: 4, Indels: 4
0.81 0.09 0.09
Matches are distributed among these distances:
41 4 0.11
42 30 0.86
43 1 0.03
ACGTcount: A:0.23, C:0.37, G:0.18, T:0.22
Consensus pattern (42 bp):
CGTTCAAGAGGGCCCTATCATCCCTCAAGAGATCCCTCCCAC
Found at i:6588075 original size:33 final size:34
Alignment explanation
Indices: 6588015--6588108 Score: 147
Period size: 33 Copynumber: 2.8 Consensus size: 34
6588005 AATAGACCAC
*
6588015 CGCAATGCGAAAAT-AACTATCGCAACGAGAGAAT
1 CGCAATGCGAAAATGAA-AATCGCAACGAGAGAAT
6588049 CGCAATGCG-AAATGAAAATCGCAACGAGAGAAT
1 CGCAATGCGAAAATGAAAATCGCAACGAGAGAAT
*
6588082 CGTAATGCGAAAATGAAAATCGCAACG
1 CGCAATGCGAAAATGAAAATCGCAACG
6588109 CGAAACTAAA
Statistics
Matches: 56, Mismatches: 2, Indels: 4
0.90 0.03 0.06
Matches are distributed among these distances:
33 28 0.50
34 28 0.50
ACGTcount: A:0.45, C:0.19, G:0.22, T:0.14
Consensus pattern (34 bp):
CGCAATGCGAAAATGAAAATCGCAACGAGAGAAT
Found at i:6588171 original size:34 final size:34
Alignment explanation
Indices: 6588123--6588218 Score: 131
Period size: 33 Copynumber: 2.9 Consensus size: 34
6588113 ACTAAATTCG
*
6588123 CGTTTCGATTTTCATTTTCGCATTGCGATTCACT
1 CGTTGCGATTTTCATTTTCGCATTGCGATTCACT
*
6588157 CGTTGCGATTTTCA-TTTCGCATTGCGATTCTCT
1 CGTTGCGATTTTCATTTTCGCATTGCGATTCACT
** * *
6588190 CGTTGCGATAGTCATTTCCGCGTTGCGAT
1 CGTTGCGATTTTCATTTTCGCATTGCGAT
6588219 AGTCAATTCC
Statistics
Matches: 55, Mismatches: 6, Indels: 2
0.87 0.10 0.03
Matches are distributed among these distances:
33 30 0.55
34 25 0.45
ACGTcount: A:0.14, C:0.24, G:0.20, T:0.43
Consensus pattern (34 bp):
CGTTGCGATTTTCATTTTCGCATTGCGATTCACT
Found at i:6588215 original size:20 final size:20
Alignment explanation
Indices: 6588190--6588283 Score: 154
Period size: 20 Copynumber: 4.7 Consensus size: 20
6588180 GCGATTCTCT
6588190 CGTTGCGATAGTCATTTCCG
1 CGTTGCGATAGTCATTTCCG
*
6588210 CGTTGCGATAGTCAATTCCG
1 CGTTGCGATAGTCATTTCCG
6588230 CGTTGCGATAGTCATTTCCG
1 CGTTGCGATAGTCATTTCCG
*
6588250 TGTTGCGATAGTCATATT-CG
1 CGTTGCGATAGTCAT-TTCCG
6588270 CGTTGCGATAGTCA
1 CGTTGCGATAGTCA
6588284 AATGAATGTC
Statistics
Matches: 69, Mismatches: 4, Indels: 2
0.92 0.05 0.03
Matches are distributed among these distances:
20 67 0.97
21 2 0.03
ACGTcount: A:0.18, C:0.22, G:0.26, T:0.34
Consensus pattern (20 bp):
CGTTGCGATAGTCATTTCCG
Found at i:6590507 original size:3 final size:3
Alignment explanation
Indices: 6590499--6590540 Score: 84
Period size: 3 Copynumber: 14.0 Consensus size: 3
6590489 CTTTGGGGAT
6590499 TTC TTC TTC TTC TTC TTC TTC TTC TTC TTC TTC TTC TTC TTC
1 TTC TTC TTC TTC TTC TTC TTC TTC TTC TTC TTC TTC TTC TTC
6590541 AGGGTTATAT
Statistics
Matches: 39, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 39 1.00
ACGTcount: A:0.00, C:0.33, G:0.00, T:0.67
Consensus pattern (3 bp):
TTC
Found at i:6590793 original size:24 final size:24
Alignment explanation
Indices: 6590742--6590793 Score: 59
Period size: 24 Copynumber: 2.2 Consensus size: 24
6590732 ATCCGAGTAT
** *
6590742 TGACCAAGATCAAAGTTCGGGTAT
1 TGACCAAGATCAAAGTTCGAATAC
* *
6590766 TGACCAAGATCAGATTTCGAATAC
1 TGACCAAGATCAAAGTTCGAATAC
6590790 TGAC
1 TGAC
6590794 TAGTACTCAC
Statistics
Matches: 23, Mismatches: 5, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
24 23 1.00
ACGTcount: A:0.35, C:0.19, G:0.21, T:0.25
Consensus pattern (24 bp):
TGACCAAGATCAAAGTTCGAATAC
Found at i:6591646 original size:20 final size:20
Alignment explanation
Indices: 6591621--6591674 Score: 90
Period size: 20 Copynumber: 2.7 Consensus size: 20
6591611 AAATTCAGTA
6591621 TTGCGATAGTCAGAATCTCG
1 TTGCGATAGTCAGAATCTCG
* *
6591641 TTGCGATTGTCAAAATCTCG
1 TTGCGATAGTCAGAATCTCG
6591661 TTGCGATAGTCAGA
1 TTGCGATAGTCAGA
6591675 TTCGCATTGC
Statistics
Matches: 30, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
20 30 1.00
ACGTcount: A:0.26, C:0.19, G:0.24, T:0.31
Consensus pattern (20 bp):
TTGCGATAGTCAGAATCTCG
Found at i:6591684 original size:20 final size:20
Alignment explanation
Indices: 6591620--6591687 Score: 82
Period size: 20 Copynumber: 3.4 Consensus size: 20
6591610 GAAATTCAGT
6591620 ATTGCGATAGTCAGAATCTC
1 ATTGCGATAGTCAGAATCTC
* * *
6591640 GTTGCGATTGTCAAAATCTC
1 ATTGCGATAGTCAGAATCTC
* * *
6591660 GTTGCGATAGTCAGATTCGC
1 ATTGCGATAGTCAGAATCTC
6591680 ATTGCGAT
1 ATTGCGAT
6591688 TTACGTATTC
Statistics
Matches: 40, Mismatches: 8, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
20 40 1.00
ACGTcount: A:0.25, C:0.19, G:0.24, T:0.32
Consensus pattern (20 bp):
ATTGCGATAGTCAGAATCTC
Found at i:6591697 original size:20 final size:20
Alignment explanation
Indices: 6591674--6591767 Score: 134
Period size: 20 Copynumber: 4.7 Consensus size: 20
6591664 CGATAGTCAG
6591674 ATTCGCATTGCGATTTACGT
1 ATTCGCATTGCGATTTACGT
6591694 ATTCGCATTGCGATTTACGT
1 ATTCGCATTGCGATTTACGT
* * **
6591714 AATCGCATTGCGATTTTCCAA
1 ATTCGCATTGCGA-TTTACGT
*
6591735 ATTCGCGTTGCGATTTACGT
1 ATTCGCATTGCGATTTACGT
6591755 ATTCGCATTGCGA
1 ATTCGCATTGCGA
6591768 ATTAGGAAAA
Statistics
Matches: 63, Mismatches: 10, Indels: 2
0.84 0.13 0.03
Matches are distributed among these distances:
20 48 0.76
21 15 0.24
ACGTcount: A:0.21, C:0.21, G:0.20, T:0.37
Consensus pattern (20 bp):
ATTCGCATTGCGATTTACGT
Found at i:6591788 original size:41 final size:41
Alignment explanation
Indices: 6591674--6591789 Score: 144
Period size: 41 Copynumber: 2.9 Consensus size: 41
6591664 CGATAGTCAG
*
6591674 ATTCGCATTGCGATTTACG-TATTCGCATTGCGATTTACGT
1 ATTCGCATTGCGATTTACGAAATTCGCATTGCGATTTACGT
* * * *
6591714 AATCGCATTGCGATTTTCCAAATTCGCGTTGCGATTTACGT
1 ATTCGCATTGCGATTTACGAAATTCGCATTGCGATTTACGT
* * * *
6591755 ATTCGCATTGCGAATTAGGAAAATCGCAATGCGAT
1 ATTCGCATTGCGATTTACGAAATTCGCATTGCGAT
6591790 AGTCAGAATC
Statistics
Matches: 62, Mismatches: 13, Indels: 1
0.82 0.17 0.01
Matches are distributed among these distances:
40 16 0.26
41 46 0.74
ACGTcount: A:0.25, C:0.20, G:0.21, T:0.34
Consensus pattern (41 bp):
ATTCGCATTGCGATTTACGAAATTCGCATTGCGATTTACGT
Found at i:6591806 original size:61 final size:60
Alignment explanation
Indices: 6591662--6591808 Score: 179
Period size: 61 Copynumber: 2.4 Consensus size: 60
6591652 AAAATCTCGT
* * * * *
6591662 TGCGATAGTCAGATTCGCATTGCGATTTACGTATTCGCATTGCGATTTACGTAATCGCAT
1 TGCGATAGTCAGAATCGCGTTGCGATTTACGTATTCGCATTGCGAATTACGAAATCGCAA
** *
6591722 TGCGATTTTCCA-AATTCGCGTTGCGATTTACGTATTCGCATTGCGAATTAGGAAAATCGCAA
1 TGCGATAGT-CAGAA-TCGCGTTGCGATTTACGTATTCGCATTGCGAATTACG-AAATCGCAA
*
6591784 TGCGATAGTCAGAATCGTGTTGCGA
1 TGCGATAGTCAGAATCGCGTTGCGA
6591809 ATCTAGAAAC
Statistics
Matches: 72, Mismatches: 11, Indels: 7
0.80 0.12 0.08
Matches are distributed among these distances:
60 8 0.11
61 48 0.67
62 16 0.22
ACGTcount: A:0.25, C:0.19, G:0.23, T:0.33
Consensus pattern (60 bp):
TGCGATAGTCAGAATCGCGTTGCGATTTACGTATTCGCATTGCGAATTACGAAATCGCAA
Found at i:6602371 original size:2 final size:2
Alignment explanation
Indices: 6602364--6602399 Score: 72
Period size: 2 Copynumber: 18.0 Consensus size: 2
6602354 TACGTTATTA
6602364 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
6602400 TCAAAAATAA
Statistics
Matches: 34, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 34 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:6603892 original size:43 final size:43
Alignment explanation
Indices: 6603845--6603962 Score: 157
Period size: 43 Copynumber: 2.7 Consensus size: 43
6603835 CACAAACGCT
6603845 GCAATATGTCTTGAGATTTAGCGGTGTTTTTAGCAAAAACACC
1 GCAATATGTCTTGAGATTTAGCGGTGTTTTTAGCAAAAACACC
* ** *
6603888 GCAATATGTGTTGAGATTTAGCGACGTTTTTAGCTAAAACACC
1 GCAATATGTCTTGAGATTTAGCGGTGTTTTTAGCAAAAACACC
* * *
6603931 ACAATA-GGCGTTGAGGTTTAGCGGTGTTTTTA
1 GCAATATGTC-TTGAGATTTAGCGGTGTTTTTA
6603963 ATACAAACGC
Statistics
Matches: 64, Mismatches: 10, Indels: 2
0.84 0.13 0.03
Matches are distributed among these distances:
42 1 0.02
43 63 0.98
ACGTcount: A:0.28, C:0.14, G:0.24, T:0.34
Consensus pattern (43 bp):
GCAATATGTCTTGAGATTTAGCGGTGTTTTTAGCAAAAACACC
Found at i:6604059 original size:42 final size:43
Alignment explanation
Indices: 6603949--6604066 Score: 120
Period size: 43 Copynumber: 2.8 Consensus size: 43
6603939 CGTTGAGGTT
* * *
6603949 TAGCGGTGTTTTTA--ATACAAACGCCGCTAAAAATTGGTATA
1 TAGCGGCGTTTTTATGATACAAACGCCGCTAAATATTGATATA
* * *
6603990 TAGTGGCGTTTTTATGATACAAGCGCCGCTAAATGTATGATATA
1 TAGCGGCGTTTTTATGATACAAACGCCGCTAAATAT-TGATATA
*
6604034 TTA-CGGCG-TTTT-TGTTACAAACGCCGCTAAATA
1 -TAGCGGCGTTTTTATGATACAAACGCCGCTAAATA
6604067 ACACAAAATT
Statistics
Matches: 63, Mismatches: 10, Indels: 7
0.79 0.12 0.09
Matches are distributed among these distances:
41 12 0.19
42 18 0.29
43 21 0.33
44 10 0.16
45 2 0.03
ACGTcount: A:0.31, C:0.16, G:0.20, T:0.33
Consensus pattern (43 bp):
TAGCGGCGTTTTTATGATACAAACGCCGCTAAATATTGATATA
Found at i:6604409 original size:21 final size:21
Alignment explanation
Indices: 6604385--6604435 Score: 66
Period size: 21 Copynumber: 2.4 Consensus size: 21
6604375 GATATGTTGA
*
6604385 TTCTCTCTGTGCTGCCACTGC
1 TTCTCTCTCTGCTGCCACTGC
* *
6604406 TTCTCTCTCTGCTTCCGCTGC
1 TTCTCTCTCTGCTGCCACTGC
*
6604427 TGCTCTCTC
1 TTCTCTCTC
6604436 GGCTTCCCTT
Statistics
Matches: 26, Mismatches: 4, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
21 26 1.00
ACGTcount: A:0.02, C:0.41, G:0.16, T:0.41
Consensus pattern (21 bp):
TTCTCTCTCTGCTGCCACTGC
Found at i:6604448 original size:21 final size:21
Alignment explanation
Indices: 6604402--6604442 Score: 64
Period size: 21 Copynumber: 2.0 Consensus size: 21
6604392 TGTGCTGCCA
* *
6604402 CTGCTTCTCTCTCTGCTTCCG
1 CTGCTGCTCTCTCGGCTTCCG
6604423 CTGCTGCTCTCTCGGCTTCC
1 CTGCTGCTCTCTCGGCTTCC
6604443 CTTGCTTCAT
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
21 18 1.00
ACGTcount: A:0.00, C:0.44, G:0.17, T:0.39
Consensus pattern (21 bp):
CTGCTGCTCTCTCGGCTTCCG
Found at i:6610285 original size:45 final size:46
Alignment explanation
Indices: 6610221--6610324 Score: 183
Period size: 45 Copynumber: 2.3 Consensus size: 46
6610211 TTATTTTTCG
6610221 TTTTTTGAATAAGCATGCGAACTAGATATCATGCGGTTAGG-TTTA
1 TTTTTTGAATAAGCATGCGAACTAGATATCATGCGGTTAGGATTTA
*
6610266 TTTTTTGAATAAGCATGCGAATTAGATATCATGCGGTTAGGATTTA
1 TTTTTTGAATAAGCATGCGAACTAGATATCATGCGGTTAGGATTTA
6610312 TTTTTGTGAATAA
1 TTTTT-TGAATAA
6610325 CAAAGCATGG
Statistics
Matches: 56, Mismatches: 1, Indels: 2
0.95 0.02 0.03
Matches are distributed among these distances:
45 40 0.71
46 9 0.16
47 7 0.12
ACGTcount: A:0.30, C:0.09, G:0.21, T:0.40
Consensus pattern (46 bp):
TTTTTTGAATAAGCATGCGAACTAGATATCATGCGGTTAGGATTTA
Found at i:6618090 original size:31 final size:31
Alignment explanation
Indices: 6618052--6618205 Score: 256
Period size: 31 Copynumber: 5.0 Consensus size: 31
6618042 CCCGAAGGAC
* *
6618052 CAGTCCATA-GATTCCGAAGAACCTAGGTAAT
1 CAGTCCATATG-TTCCGAAGAACATAGGTAAA
* *
6618083 CAGTCCATATGTCCCGAAGGACATAGGTAAA
1 CAGTCCATATGTTCCGAAGAACATAGGTAAA
6618114 CAGTCCATATGTTCCGAAGAACATAGGTAAA
1 CAGTCCATATGTTCCGAAGAACATAGGTAAA
6618145 CAGTCCATATGTTCCGAAGAACATAGGTAAA
1 CAGTCCATATGTTCCGAAGAACATAGGTAAA
6618176 CAGTCCATATGTTCCGAAGAACATAGGTAA
1 CAGTCCATATGTTCCGAAGAACATAGGTAA
6618206 CCCTCGACCC
Statistics
Matches: 116, Mismatches: 6, Indels: 2
0.94 0.05 0.02
Matches are distributed among these distances:
31 115 0.99
32 1 0.01
ACGTcount: A:0.37, C:0.21, G:0.20, T:0.22
Consensus pattern (31 bp):
CAGTCCATATGTTCCGAAGAACATAGGTAAA
Found at i:6619102 original size:21 final size:21
Alignment explanation
Indices: 6619072--6619116 Score: 63
Period size: 21 Copynumber: 2.1 Consensus size: 21
6619062 ATTCTGTCGT
* *
6619072 TTGAAGGGGTATCGGTTCCCC
1 TTGAAGGGGTACCGATTCCCC
*
6619093 TTGAATGGGTACCGATTCCCC
1 TTGAAGGGGTACCGATTCCCC
6619114 TTG
1 TTG
6619117 CCCAGAAATC
Statistics
Matches: 21, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
21 21 1.00
ACGTcount: A:0.16, C:0.24, G:0.29, T:0.31
Consensus pattern (21 bp):
TTGAAGGGGTACCGATTCCCC
Found at i:6622114 original size:31 final size:31
Alignment explanation
Indices: 6622076--6622228 Score: 247
Period size: 31 Copynumber: 5.0 Consensus size: 31
6622066 CCCGAAGGAC
* *
6622076 CAGTCCATA-GATTCCGAAGAACCTAGGTAAT
1 CAGTCCATATG-TTCCGAAGAACATAGGTAAA
* *
6622107 CAGTCCATATGTCCCGAAGGACATAGGTAAA
1 CAGTCCATATGTTCCGAAGAACATAGGTAAA
6622138 CAGTCCATATGTTCCGAAGAACA-AGGTAAA
1 CAGTCCATATGTTCCGAAGAACATAGGTAAA
6622168 CAGTCCATATGTTCCGAAGAACATAGGTAAA
1 CAGTCCATATGTTCCGAAGAACATAGGTAAA
6622199 CAGTCCATATGTTCCGAAGAACATAGGTAA
1 CAGTCCATATGTTCCGAAGAACATAGGTAA
6622229 CCCTCGACCC
Statistics
Matches: 114, Mismatches: 6, Indels: 4
0.92 0.05 0.03
Matches are distributed among these distances:
30 30 0.26
31 83 0.73
32 1 0.01
ACGTcount: A:0.37, C:0.21, G:0.20, T:0.22
Consensus pattern (31 bp):
CAGTCCATATGTTCCGAAGAACATAGGTAAA
Found at i:6622185 original size:61 final size:61
Alignment explanation
Indices: 6622076--6622228 Score: 236
Period size: 61 Copynumber: 2.5 Consensus size: 61
6622066 CCCGAAGGAC
* * *
6622076 CAGTCCATA-GATTCCGAAGAACCTAGGTAATCAGTCCATATGTCCCGAAGGACATAGGTAAA
1 CAGTCCATATG-TTCCGAAGAA-CAAGGTAAACAGTCCATATGTCCCGAAGAACATAGGTAAA
*
6622138 CAGTCCATATGTTCCGAAGAACAAGGTAAACAGTCCATATGTTCCGAAGAACATAGGTAAA
1 CAGTCCATATGTTCCGAAGAACAAGGTAAACAGTCCATATGTCCCGAAGAACATAGGTAAA
6622199 CAGTCCATATGTTCCGAAGAACATAGGTAA
1 CAGTCCATATGTTCCGAAGAACA-AGGTAA
6622229 CCCTCGACCC
Statistics
Matches: 85, Mismatches: 4, Indels: 4
0.91 0.04 0.04
Matches are distributed among these distances:
61 59 0.69
62 25 0.29
63 1 0.01
ACGTcount: A:0.37, C:0.21, G:0.20, T:0.22
Consensus pattern (61 bp):
CAGTCCATATGTTCCGAAGAACAAGGTAAACAGTCCATATGTCCCGAAGAACATAGGTAAA
Found at i:6623121 original size:21 final size:21
Alignment explanation
Indices: 6623091--6623135 Score: 63
Period size: 21 Copynumber: 2.1 Consensus size: 21
6623081 ATTCTGTCGT
* *
6623091 TTGAAGGGGTATCGGTTCCCC
1 TTGAAGGGGTACCGATTCCCC
*
6623112 TTGAATGGGTACCGATTCCCC
1 TTGAAGGGGTACCGATTCCCC
6623133 TTG
1 TTG
6623136 CCCAGAAATC
Statistics
Matches: 21, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
21 21 1.00
ACGTcount: A:0.16, C:0.24, G:0.29, T:0.31
Consensus pattern (21 bp):
TTGAAGGGGTACCGATTCCCC
Found at i:6626469 original size:8 final size:7
Alignment explanation
Indices: 6626452--6626528 Score: 50
Period size: 7 Copynumber: 10.4 Consensus size: 7
6626442 AAGAAGAAAT
6626452 AAAAGAA
1 AAAAGAA
6626459 AAAATGAA
1 AAAA-GAA
6626467 AAAA-ATA
1 AAAAGA-A
* *
6626474 ATAATAA
1 AAAAGAA
*
6626481 AAATGAGA
1 AAAAGA-A
*
6626489 AGAAG-A
1 AAAAGAA
6626495 AAAAGAA
1 AAAAGAA
6626502 GAAAAGAA
1 -AAAAGAA
6626510 AAATGAGAA
1 AAA--AGAA
6626519 AAAAGAA
1 AAAAGAA
6626526 AAA
1 AAA
6626529 TGATGGAAAA
Statistics
Matches: 55, Mismatches: 7, Indels: 16
0.71 0.09 0.21
Matches are distributed among these distances:
6 6 0.11
7 23 0.42
8 19 0.35
9 7 0.13
ACGTcount: A:0.77, C:0.00, G:0.16, T:0.08
Consensus pattern (7 bp):
AAAAGAA
Found at i:6626497 original size:14 final size:14
Alignment explanation
Indices: 6626479--6626531 Score: 63
Period size: 16 Copynumber: 3.6 Consensus size: 14
6626469 AAATAATAAT
6626479 AAAAATGAGAAGAAG
1 AAAAATGAGAA-AAG
6626494 AAAAA-GAAGAAAAG
1 AAAAATG-AGAAAAG
6626508 AAAAATGAGAAAAAAG
1 AAAAATGAG--AAAAG
6626524 AAAAATGA
1 AAAAATGA
6626532 TGGAAAAAAC
Statistics
Matches: 34, Mismatches: 0, Indels: 7
0.83 0.00 0.17
Matches are distributed among these distances:
14 11 0.32
15 10 0.29
16 13 0.38
ACGTcount: A:0.74, C:0.00, G:0.21, T:0.06
Consensus pattern (14 bp):
AAAAATGAGAAAAG
Found at i:6626538 original size:41 final size:42
Alignment explanation
Indices: 6626493--6626572 Score: 110
Period size: 41 Copynumber: 1.9 Consensus size: 42
6626483 ATGAGAAGAA
*
6626493 GAAAAAGAAGAAAAG-AAAAATGAGAAAAAA-GAAAAATGATG
1 GAAAAA-AAGAAAAGAAAAAAAGAGAAAAAATGAAAAATGATG
* *
6626534 GAAAAAACGAAAAGAAAAAAAGAGAAAAAATGGAAAATG
1 GAAAAAAAGAAAAGAAAAAAAGAGAAAAAATGAAAAATG
6626573 GAAGAAAAAT
Statistics
Matches: 34, Mismatches: 3, Indels: 3
0.85 0.08 0.08
Matches are distributed among these distances:
40 7 0.21
41 20 0.59
42 7 0.21
ACGTcount: A:0.71, C:0.01, G:0.21, T:0.06
Consensus pattern (42 bp):
GAAAAAAAGAAAAGAAAAAAAGAGAAAAAATGAAAAATGATG
Found at i:6626545 original size:19 final size:16
Alignment explanation
Indices: 6626479--6626584 Score: 71
Period size: 18 Copynumber: 6.5 Consensus size: 16
6626469 AAATAATAAT
*
6626479 AAAAATGAG-AAGAAG
1 AAAAATGAGAAAAAAG
*
6626494 AAAAA-GA-AGAAAAG
1 AAAAATGAGAAAAAAG
6626508 AAAAATGAGAAAAAAG
1 AAAAATGAGAAAAAAG
6626524 AAAAATGATGGAAAAAACG
1 AAAAATGA--GAAAAAA-G
*
6626543 -AAAA-GAAAAAAAGAG
1 AAAAATGAGAAAAA-AG
6626558 AAAAAATG-GAAAATGGAAG
1 -AAAAATGAGAAAA---AAG
6626577 AAAAATGA
1 AAAAATGA
6626585 AAGACAAAAA
Statistics
Matches: 72, Mismatches: 5, Indels: 24
0.71 0.05 0.24
Matches are distributed among these distances:
14 11 0.15
15 13 0.18
16 15 0.21
17 10 0.14
18 19 0.26
19 3 0.04
20 1 0.01
ACGTcount: A:0.71, C:0.01, G:0.22, T:0.07
Consensus pattern (16 bp):
AAAAATGAGAAAAAAG
Found at i:6626569 original size:24 final size:25
Alignment explanation
Indices: 6626479--6626570 Score: 66
Period size: 29 Copynumber: 3.5 Consensus size: 25
6626469 AAATAATAAT
*
6626479 AAAAATGAGAAGAAGAAAAAGAAGAAAA
1 AAAAATGAGAA-AAGAAAAA-AAG-AGA
6626507 GAAAAATGAGAAAA-AAGAAAAATGATGGA
1 -AAAAATGAGAAAAGAA-AAAAA-GA--GA
*
6626536 AAAAA--CGAAAAGAAAAAAAGAGA
1 AAAAATGAGAAAAGAAAAAAAGAGA
6626559 AAAAATG-GAAAA
1 AAAAATGAGAAAA
6626571 TGGAAGAAAA
Statistics
Matches: 54, Mismatches: 2, Indels: 19
0.72 0.03 0.25
Matches are distributed among these distances:
23 7 0.13
24 5 0.09
25 2 0.04
26 10 0.19
27 7 0.13
28 11 0.20
29 12 0.22
ACGTcount: A:0.73, C:0.01, G:0.21, T:0.05
Consensus pattern (25 bp):
AAAAATGAGAAAAGAAAAAAAGAGA
Found at i:6626581 original size:41 final size:41
Alignment explanation
Indices: 6626492--6626581 Score: 103
Period size: 41 Copynumber: 2.2 Consensus size: 41
6626482 AATGAGAAGA
* *
6626492 AGAAAAAGAAGAAAAG-AAAAATGAGAAAAAAGAAAAATGAT
1 AGAAAAA-ACGAAAAGAAAAAAAGAGAAAAAAGAAAAATGAT
* *
6626533 GGAAAAAACGAAAAGAAAAAAAGAGAAAAAATGGAAAATGGA-
1 AGAAAAAACGAAAAGAAAAAAAGAGAAAAAA-GAAAAAT-GAT
6626575 AGAAAAA
1 AGAAAAA
6626582 TGAAAGACAA
Statistics
Matches: 41, Mismatches: 5, Indels: 5
0.80 0.10 0.10
Matches are distributed among these distances:
40 7 0.17
41 20 0.49
42 12 0.29
43 2 0.05
ACGTcount: A:0.72, C:0.01, G:0.21, T:0.06
Consensus pattern (41 bp):
AGAAAAAACGAAAAGAAAAAAAGAGAAAAAAGAAAAATGAT
Found at i:6626617 original size:18 final size:18
Alignment explanation
Indices: 6626577--6626634 Score: 50
Period size: 18 Copynumber: 3.2 Consensus size: 18
6626567 AAAATGGAAG
*
6626577 AAAAATGAAAGACAAAA-A
1 AAAAAAGAAA-ACAAAATA
*
6626595 CAAAAAGAAAACAAAATA
1 AAAAAAGAAAACAAAATA
6626613 AAAAATA-AAAA-AGAAATA
1 AAAAA-AGAAAACA-AAATA
6626631 AAAA
1 AAAA
6626635 GAGGGTTCAA
Statistics
Matches: 34, Mismatches: 3, Indels: 6
0.79 0.07 0.14
Matches are distributed among these distances:
17 7 0.21
18 26 0.76
19 1 0.03
ACGTcount: A:0.81, C:0.05, G:0.07, T:0.07
Consensus pattern (18 bp):
AAAAAAGAAAACAAAATA
Found at i:6628072 original size:55 final size:54
Alignment explanation
Indices: 6628002--6628246 Score: 293
Period size: 55 Copynumber: 4.5 Consensus size: 54
6627992 GATTGAGTCA
*
6628002 TATACTCTCTGAAGGAATAG-GAAGCGGACAAGTTCGTTGAAGATTGTTCGAGTTC
1 TATACTCTCTGAAGGAATAGAG-AGCGGACACGTTCGTTGAAGATT-TTCGAGTTC
* *
6628057 TATACTCTCTGAAGGAATAGAGAGCGGACCCGTTTC-ATGAAGATTGTTCGAGTTC
1 TATACTCTCTGAAGGAATAGAGAGCGGACACG-TTCGTTGAAGATT-TTCGAGTTC
* * * * *
6628112 TATACTCTCTGAAGGAATAGAGAGAGGACACGTTTGTTAAAGA--TT-AAGTCC
1 TATACTCTCTGAAGGAATAGAGAGCGGACACGTTCGTTGAAGATTTTCGAGTTC
* * * **
6628163 TATACTCTCTGAAAGAATAGGGAGCGGACATGTTTATTGAAGATTTTCCGAGTTC
1 TATACTCTCTGAAGGAATAGAGAGCGGACACGTTCGTTGAAGATTTT-CGAGTTC
6628218 TATACTCTCTGAAGGAATAGAGAGCGGAC
1 TATACTCTCTGAAGGAATAGAGAGCGGAC
6628247 CCATTTTTTT
Statistics
Matches: 163, Mismatches: 20, Indels: 14
0.83 0.10 0.07
Matches are distributed among these distances:
51 41 0.25
52 2 0.01
53 2 0.01
54 2 0.01
55 112 0.69
56 4 0.02
ACGTcount: A:0.31, C:0.16, G:0.25, T:0.29
Consensus pattern (54 bp):
TATACTCTCTGAAGGAATAGAGAGCGGACACGTTCGTTGAAGATTTTCGAGTTC
Found at i:6628188 original size:106 final size:108
Alignment explanation
Indices: 6628002--6628246 Score: 320
Period size: 106 Copynumber: 2.3 Consensus size: 108
6627992 GATTGAGTCA
* * *
6628002 TATACTCTCTGAAGGAATAG-GAAGCGGACAAGTTCGTTGAAGATTGTTCGAGTTCTATACTCTC
1 TATACTCTCTGAAGGAATAGAG-AGCGGACAAGTTCGTTAAAGA-T-TTCAAGTCCTATACTCTC
* *
6628066 TGAAGGAATAGAGAGCGGACCCGTTTCA-TGAAGATTGTT-CGAGTTC
63 TGAAAGAATAGAGAGCGGACACGTTT-ATTGAAGATT-TTCCGAGTTC
* * *
6628112 TATACTCTCTGAAGGAATAGAGAGAGGACACGTTTGTTAAAGA-TT-AAGTCCTATACTCTCTGA
1 TATACTCTCTGAAGGAATAGAGAGCGGACAAGTTCGTTAAAGATTTCAAGTCCTATACTCTCTGA
* *
6628175 AAGAATAGGGAGCGGACATGTTTATTGAAGATTTTCCGAGTTC
66 AAGAATAGAGAGCGGACACGTTTATTGAAGATTTTCCGAGTTC
6628218 TATACTCTCTGAAGGAATAGAGAGCGGAC
1 TATACTCTCTGAAGGAATAGAGAGCGGAC
6628247 CCATTTTTTT
Statistics
Matches: 121, Mismatches: 11, Indels: 10
0.85 0.08 0.07
Matches are distributed among these distances:
105 3 0.02
106 78 0.64
107 2 0.02
110 37 0.31
111 1 0.01
ACGTcount: A:0.31, C:0.16, G:0.25, T:0.29
Consensus pattern (108 bp):
TATACTCTCTGAAGGAATAGAGAGCGGACAAGTTCGTTAAAGATTTCAAGTCCTATACTCTCTGA
AAGAATAGAGAGCGGACACGTTTATTGAAGATTTTCCGAGTTC
Found at i:6628247 original size:161 final size:162
Alignment explanation
Indices: 6627982--6628305 Score: 456
Period size: 161 Copynumber: 2.0 Consensus size: 162
6627972 AAGCAAACTA
* * * *
6627982 GTTTGTTGAAGATTGAGTCATATACTCTCTGAAGGAATAGGAAGCGGACAAGTTCGTTGAAGATT
1 GTTTGTTAAAGATTAAGTCATATACTCTCTGAAAGAATAGGAAGCGGACAAGTTCATTGAAGATT
*
6628047 GTTCGAGTTCTATACTCTCTGAAGGAATAGAGAGCGGACCC-GTTTCATGAAGATTGTTCGAGT-
66 GTTCGAGTTCTATACTCTCTGAAGGAATAGAGAGCGGACCCAGTTTCATGAAGATTGTTCAAGTC
* *
6628110 TCTATACTCTCTGAAGGAATAGAGAGAGGACAC
131 T-TATACTCTCCGAAGGAATAGAGAGAAGACAC
* * * *
6628143 GTTTGTTAAAGATTAAGTCCTATACTCTCTGAAAGAATAGGGAGCGGACATGTTTATTGAAGATT
1 GTTTGTTAAAGATTAAGTCATATACTCTCTGAAAGAATAGGAAGCGGACAAGTTCATTGAAGATT
* ** *
6628208 -TTCCGAGTTCTATACTCTCTGAAGGAATAGAGAGCGGACCCATTTTTTTTTAAGATTGTTCAAG
66 GTT-CGAGTTCTATACTCTCTGAAGGAATAGAGAGCGGACCCA-GTTTCATGAAGATTGTTCAAG
*
6628272 TCTTATACTCTCCGAATGAATAGAGAGAAGACAC
129 TCTTATACTCTCCGAAGGAATAGAGAGAAGACAC
6628306 ATTTTATGAA
Statistics
Matches: 143, Mismatches: 16, Indels: 6
0.87 0.10 0.04
Matches are distributed among these distances:
160 2 0.01
161 95 0.66
163 45 0.31
164 1 0.01
ACGTcount: A:0.31, C:0.15, G:0.24, T:0.31
Consensus pattern (162 bp):
GTTTGTTAAAGATTAAGTCATATACTCTCTGAAAGAATAGGAAGCGGACAAGTTCATTGAAGATT
GTTCGAGTTCTATACTCTCTGAAGGAATAGAGAGCGGACCCAGTTTCATGAAGATTGTTCAAGTC
TTATACTCTCCGAAGGAATAGAGAGAAGACAC
Found at i:6628348 original size:55 final size:55
Alignment explanation
Indices: 6628002--6628349 Score: 292
Period size: 55 Copynumber: 6.4 Consensus size: 55
6627992 GATTGAGTCA
* *
6628002 TATACTCTCTGAAGGAATAG-GAAGCGGACA-AGTTCGT-TGAAGATTGTTCGAGTTC
1 TATACTCTCTGAAGGAATAGAG-AGAGGACACA-TT-TTATGAAGATTGTTCGAGTTC
* * * *
6628057 TATACTCTCTGAAGGAATAGAGAGCGGACCCGTTTCATGAAGATTGTTCGAGTTC
1 TATACTCTCTGAAGGAATAGAGAGAGGACACATTTTATGAAGATTGTTCGAGTTC
* * * *
6628112 TATACTCTCTGAAGGAATAGAGAGAGGACACGTTTGT-TAAAGA---TT-AAGTCC
1 TATACTCTCTGAAGGAATAGAGAGAGGACACATTT-TATGAAGATTGTTCGAGTTC
* * *
6628163 TATACTCTCTGAAAGAATAGGGAGCGG--ACATGTTTATTGAAGATT-TTCCGAGTTC
1 TATACTCTCTGAAGGAATAGAGAGAGGACACAT-TTTA-TGAAGATTGTT-CGAGTTC
* * * * *
6628218 TATACTCTCTGAAGGAATAGAGAGCGGACCCATTTTTTTTTAAGATTGTTCAAG-TC
1 TATACTCTCTGAAGGAATAGAGAGAGGACACA--TTTTATGAAGATTGTTCGAGTTC
* * * *
6628274 TTATACTCTCCGAATGAATAGAGAGAAGACACATTTTATGAAGATTGTTTGAG-TC
1 -TATACTCTCTGAAGGAATAGAGAGAGGACACATTTTATGAAGATTGTTCGAGTTC
6628329 TTATACT-TCCTGAAGGAATAG
1 -TATACTCT-CTGAAGGAATAG
6628350 GTAGCATGCT
Statistics
Matches: 241, Mismatches: 34, Indels: 36
0.77 0.11 0.12
Matches are distributed among these distances:
49 4 0.02
50 2 0.01
51 33 0.14
52 2 0.01
53 2 0.01
54 1 0.00
55 149 0.62
56 3 0.01
57 39 0.16
58 5 0.02
59 1 0.00
ACGTcount: A:0.31, C:0.15, G:0.23, T:0.31
Consensus pattern (55 bp):
TATACTCTCTGAAGGAATAGAGAGAGGACACATTTTATGAAGATTGTTCGAGTTC
Found at i:6629557 original size:16 final size:16
Alignment explanation
Indices: 6629536--6629579 Score: 79
Period size: 16 Copynumber: 2.8 Consensus size: 16
6629526 CATGACACGA
6629536 ATATATACATATGAAT
1 ATATATACATATGAAT
6629552 ATATATACATATGAAT
1 ATATATACATATGAAT
*
6629568 ATATATATATAT
1 ATATATACATAT
6629580 ATATAGTATA
Statistics
Matches: 27, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
16 27 1.00
ACGTcount: A:0.50, C:0.05, G:0.05, T:0.41
Consensus pattern (16 bp):
ATATATACATATGAAT
Found at i:6637130 original size:83 final size:83
Alignment explanation
Indices: 6636986--6637140 Score: 199
Period size: 83 Copynumber: 1.9 Consensus size: 83
6636976 TTAAAAACAT
* *
6636986 TTGCGGCGTTTTTTGTCAAAACGCCACTAAAGTACGAATCATTTGCGGCGTTTGTTAGAAAAACG
1 TTGCGGCGTTTTTTGTAAAAACGCCACTAAAGTACGAATCATTTGCGGCGTTTCTTAG-AAAACG
*
6637051 CCGCTATATGTGGAACCTA
65 CCACTATATGTGGAACCTA
** * *
6637070 TTGCGGCG-TTTTTGTAAAAACGCTGCTAAATTACTAAT-ATTTTGCGGCGTTTC-TATGAAAAC
1 TTGCGGCGTTTTTTGTAAAAACGCCACTAAAGTACGAATCA-TTTGCGGCGTTTCTTA-GAAAAC
6637132 GCCACTATA
64 GCCACTATA
6637141 GTCCAACTCT
Statistics
Matches: 62, Mismatches: 7, Indels: 6
0.83 0.09 0.08
Matches are distributed among these distances:
82 16 0.26
83 38 0.61
84 8 0.13
ACGTcount: A:0.28, C:0.19, G:0.21, T:0.32
Consensus pattern (83 bp):
TTGCGGCGTTTTTTGTAAAAACGCCACTAAAGTACGAATCATTTGCGGCGTTTCTTAGAAAACGC
CACTATATGTGGAACCTA
Found at i:6638696 original size:42 final size:42
Alignment explanation
Indices: 6638649--6638746 Score: 124
Period size: 42 Copynumber: 2.3 Consensus size: 42
6638639 AAGCATTATT
* * * * * *
6638649 TATTGCGGCGTTTGAGATATAAATGCTGCTAATTTATCATTC
1 TATTGCGGCGTTTGAGATATAAACGCCGCTAAATTACCACTA
* *
6638691 TATTGCGGCGTTTGTGGTATAAACGCCGCTAAATTACCACTA
1 TATTGCGGCGTTTGAGATATAAACGCCGCTAAATTACCACTA
6638733 TATTGCGGCGTTTG
1 TATTGCGGCGTTTG
6638747 GCGTAAAACG
Statistics
Matches: 48, Mismatches: 8, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
42 48 1.00
ACGTcount: A:0.23, C:0.17, G:0.22, T:0.37
Consensus pattern (42 bp):
TATTGCGGCGTTTGAGATATAAACGCCGCTAAATTACCACTA
Found at i:6641734 original size:60 final size:59
Alignment explanation
Indices: 6641614--6641745 Score: 144
Period size: 60 Copynumber: 2.2 Consensus size: 59
6641604 GAATATGGGT
* * *
6641614 AAAG-TACACAAATGATCTTCGATTATAGGACGATATTTTGTTGATTCCCTTGATTATTA
1 AAAGTTACA-AAATGATCTTCGATTATAGGACGATACTTTATTGAGTCCCTTGATTATTA
* * * *
6641673 AAAGTTACGAAATGGTCATTCGATTATAGGGCGATGCTTTATTGAGT-CCTTCGACTT-TTA
1 AAAGTTACAAAATGATC-TTCGATTATAGGACGATACTTTATTGAGTCCCTT-GA-TTATTA
6641733 AAAGTTACAAAAT
1 AAAGTTACAAAAT
6641746 AATCATCTGA
Statistics
Matches: 61, Mismatches: 8, Indels: 7
0.80 0.11 0.09
Matches are distributed among these distances:
59 15 0.25
60 44 0.72
61 2 0.03
ACGTcount: A:0.33, C:0.14, G:0.17, T:0.36
Consensus pattern (59 bp):
AAAGTTACAAAATGATCTTCGATTATAGGACGATACTTTATTGAGTCCCTTGATTATTA
Found at i:6667593 original size:21 final size:21
Alignment explanation
Indices: 6667568--6667626 Score: 79
Period size: 21 Copynumber: 3.0 Consensus size: 21
6667558 GGCACTGTAT
*
6667568 ATTTGTCCCGAATGACCACTG
1 ATTTGTCCCGAAGGACCACTG
6667589 ATTTGTCCCGAAGGACCACT-
1 ATTTGTCCCGAAGGACCACTG
*
6667609 A--TGTCCCTAAGGACCACT
1 ATTTGTCCCGAAGGACCACT
6667627 CCTTAAGAAC
Statistics
Matches: 36, Mismatches: 2, Indels: 3
0.88 0.05 0.07
Matches are distributed among these distances:
18 16 0.44
20 1 0.03
21 19 0.53
ACGTcount: A:0.25, C:0.31, G:0.19, T:0.25
Consensus pattern (21 bp):
ATTTGTCCCGAAGGACCACTG
Found at i:6670180 original size:6 final size:6
Alignment explanation
Indices: 6670169--6670194 Score: 52
Period size: 6 Copynumber: 4.3 Consensus size: 6
6670159 AAAAATAATT
6670169 AAAACA AAAACA AAAACA AAAACA AA
1 AAAACA AAAACA AAAACA AAAACA AA
6670195 TAGGTGACTA
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 20 1.00
ACGTcount: A:0.85, C:0.15, G:0.00, T:0.00
Consensus pattern (6 bp):
AAAACA
Found at i:6679464 original size:14 final size:14
Alignment explanation
Indices: 6679445--6679473 Score: 58
Period size: 14 Copynumber: 2.1 Consensus size: 14
6679435 TGTAATGCTT
6679445 GTTTACAAAGTAAA
1 GTTTACAAAGTAAA
6679459 GTTTACAAAGTAAA
1 GTTTACAAAGTAAA
6679473 G
1 G
6679474 CTCACAAGCT
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 15 1.00
ACGTcount: A:0.48, C:0.07, G:0.17, T:0.28
Consensus pattern (14 bp):
GTTTACAAAGTAAA
Found at i:6708467 original size:39 final size:39
Alignment explanation
Indices: 6708413--6708491 Score: 149
Period size: 39 Copynumber: 2.0 Consensus size: 39
6708403 TGGTAATCCA
6708413 TTTCATATTAACATATTTTAGAGAAGATTAAAATCTTCT
1 TTTCATATTAACATATTTTAGAGAAGATTAAAATCTTCT
*
6708452 TTTCATATTAACATATTTTAGAGAAGATTATAATCTTCT
1 TTTCATATTAACATATTTTAGAGAAGATTAAAATCTTCT
6708491 T
1 T
6708492 ACACGTGAAG
Statistics
Matches: 39, Mismatches: 1, Indels: 0
0.98 0.03 0.00
Matches are distributed among these distances:
39 39 1.00
ACGTcount: A:0.37, C:0.10, G:0.08, T:0.46
Consensus pattern (39 bp):
TTTCATATTAACATATTTTAGAGAAGATTAAAATCTTCT
Found at i:6710958 original size:16 final size:17
Alignment explanation
Indices: 6710923--6710958 Score: 56
Period size: 16 Copynumber: 2.2 Consensus size: 17
6710913 TTAAACTTAA
*
6710923 TTTGATGCTATAATAAT
1 TTTGATGCTAAAATAAT
6710940 TTTG-TGCTAAAATAAT
1 TTTGATGCTAAAATAAT
6710956 TTT
1 TTT
6710959 AAAAATTATA
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
16 14 0.78
17 4 0.22
ACGTcount: A:0.33, C:0.06, G:0.11, T:0.50
Consensus pattern (17 bp):
TTTGATGCTAAAATAAT
Found at i:6712350 original size:22 final size:22
Alignment explanation
Indices: 6712322--6712368 Score: 94
Period size: 22 Copynumber: 2.1 Consensus size: 22
6712312 ATATAGACAT
6712322 ATTCAAAAGACAAACTTTTAAA
1 ATTCAAAAGACAAACTTTTAAA
6712344 ATTCAAAAGACAAACTTTTAAA
1 ATTCAAAAGACAAACTTTTAAA
6712366 ATT
1 ATT
6712369 TTAGGCAGGA
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
22 25 1.00
ACGTcount: A:0.53, C:0.13, G:0.04, T:0.30
Consensus pattern (22 bp):
ATTCAAAAGACAAACTTTTAAA
Found at i:6715449 original size:20 final size:20
Alignment explanation
Indices: 6715424--6715558 Score: 121
Period size: 20 Copynumber: 6.7 Consensus size: 20
6715414 AATTGGGAAA
6715424 ATCGCAATGCGATACTGACT
1 ATCGCAATGCGATACTGACT
*
6715444 ATCGCAATGCGATACTTACT
1 ATCGCAATGCGATACTGACT
* *
6715464 ATCGCAATGCGATAAT-ACAAA
1 ATCGCAATGCGATACTGAC--T
* *
6715485 ATCGCAACGAGATACTGACT
1 ATCGCAATGCGATACTGACT
* * *
6715505 TTCGCAACGCGATTCTGACT
1 ATCGCAATGCGATACTGACT
* * *
6715525 TTCGCAACGCGATAAT-ACAT
1 ATCGCAATGCGATACTGAC-T
6715545 AATCGCAATGCGAT
1 -ATCGCAATGCGAT
6715559 TTTCAAAGCG
Statistics
Matches: 96, Mismatches: 14, Indels: 9
0.81 0.12 0.08
Matches are distributed among these distances:
19 4 0.04
20 66 0.69
21 24 0.25
22 2 0.02
ACGTcount: A:0.33, C:0.24, G:0.18, T:0.24
Consensus pattern (20 bp):
ATCGCAATGCGATACTGACT
Found at i:6715488 original size:61 final size:61
Alignment explanation
Indices: 6715421--6715558 Score: 195
Period size: 61 Copynumber: 2.3 Consensus size: 61
6715411 GCGAATTGGG
* * *
6715421 AAAATCGCAATGCGATACTGACTATCGCAATGCGATACTTACTATCGCAATGCGATAATAC
1 AAAATCGCAATGCGATACTGACTATCGCAACGCGATACTGACTATCGCAACGCGATAATAC
* * * * *
6715482 AAAATCGCAACGAGATACTGACTTTCGCAACGCGATTCTGACTTTCGCAACGCGATAATAC
1 AAAATCGCAATGCGATACTGACTATCGCAACGCGATACTGACTATCGCAACGCGATAATAC
*
6715543 ATAATCGCAATGCGAT
1 AAAATCGCAATGCGAT
6715559 TTTCAAAGCG
Statistics
Matches: 66, Mismatches: 11, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
61 66 1.00
ACGTcount: A:0.35, C:0.24, G:0.17, T:0.24
Consensus pattern (61 bp):
AAAATCGCAATGCGATACTGACTATCGCAACGCGATACTGACTATCGCAACGCGATAATAC
Found at i:6715756 original size:22 final size:22
Alignment explanation
Indices: 6715728--6715770 Score: 77
Period size: 22 Copynumber: 2.0 Consensus size: 22
6715718 CACTCTCTCA
6715728 CCCATCTCCGACGAAATCCGTT
1 CCCATCTCCGACGAAATCCGTT
*
6715750 CCCATCTCCGGCGAAATCCGT
1 CCCATCTCCGACGAAATCCGT
6715771 CTATCTCCAT
Statistics
Matches: 20, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
22 20 1.00
ACGTcount: A:0.21, C:0.42, G:0.16, T:0.21
Consensus pattern (22 bp):
CCCATCTCCGACGAAATCCGTT
Found at i:6716283 original size:25 final size:24
Alignment explanation
Indices: 6716229--6716283 Score: 58
Period size: 25 Copynumber: 2.2 Consensus size: 24
6716219 TGTTTATTAT
* *
6716229 TGTTTTTGGTATATCTTCACAGTG
1 TGTTTTTGGTATATCTTAACAGTA
6716253 TAGTTTTTGGTATATC-TAACTTAGTA
1 T-GTTTTTGGTATATCTTAAC--AGTA
6716279 TGTTT
1 TGTTT
6716284 ATTGTTTTTT
Statistics
Matches: 26, Mismatches: 2, Indels: 5
0.79 0.06 0.15
Matches are distributed among these distances:
24 4 0.15
25 18 0.69
26 4 0.15
ACGTcount: A:0.20, C:0.09, G:0.18, T:0.53
Consensus pattern (24 bp):
TGTTTTTGGTATATCTTAACAGTA
Found at i:6717433 original size:18 final size:18
Alignment explanation
Indices: 6717412--6717456 Score: 72
Period size: 18 Copynumber: 2.5 Consensus size: 18
6717402 TCCACTTCGG
*
6717412 GAGCCATCACCTCGCCCA
1 GAGCCATCACCTCACCCA
*
6717430 GAGCTATCACCTCACCCA
1 GAGCCATCACCTCACCCA
6717448 GAGCCATCA
1 GAGCCATCA
6717457 TCTGATCGAC
Statistics
Matches: 24, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
18 24 1.00
ACGTcount: A:0.27, C:0.44, G:0.16, T:0.13
Consensus pattern (18 bp):
GAGCCATCACCTCACCCA
Found at i:6717992 original size:19 final size:20
Alignment explanation
Indices: 6717938--6718004 Score: 73
Period size: 20 Copynumber: 3.4 Consensus size: 20
6717928 TAGTTTACTT
* *
6717938 TCGCAACACGAAAATGACTA
1 TCGCAACGCGGAAATGACTA
*
6717958 TCGCAACGCGGAAATGGCTA
1 TCGCAACGCGGAAATGACTA
* **
6717978 TCGCAATGC-GAAATGAAAA
1 TCGCAACGCGGAAATGACTA
6717997 TCGCAACG
1 TCGCAACG
6718005 ACAAAATCGC
Statistics
Matches: 39, Mismatches: 8, Indels: 1
0.81 0.17 0.02
Matches are distributed among these distances:
19 14 0.36
20 25 0.64
ACGTcount: A:0.39, C:0.24, G:0.22, T:0.15
Consensus pattern (20 bp):
TCGCAACGCGGAAATGACTA
Found at i:6718012 original size:14 final size:14
Alignment explanation
Indices: 6717993--6718050 Score: 71
Period size: 14 Copynumber: 3.9 Consensus size: 14
6717983 ATGCGAAATG
6717993 AAAATCGCAACGAC
1 AAAATCGCAACGAC
*
6718007 AAAATCGCAATGCGAA
1 AAAATCGCAA--CGAC
6718023 ATGAAATCGCAACGAC
1 A--AAATCGCAACGAC
6718039 AAAATCGCAACG
1 AAAATCGCAACG
6718051 CGAAATGAAA
Statistics
Matches: 38, Mismatches: 2, Indels: 8
0.79 0.04 0.17
Matches are distributed among these distances:
14 21 0.55
16 8 0.21
18 9 0.24
ACGTcount: A:0.48, C:0.24, G:0.17, T:0.10
Consensus pattern (14 bp):
AAAATCGCAACGAC
Found at i:6718035 original size:32 final size:33
Alignment explanation
Indices: 6717977--6718067 Score: 166
Period size: 32 Copynumber: 2.8 Consensus size: 33
6717967 GGAAATGGCT
6717977 ATCGCAATGCGAAATGAAAATCGCAACGACAAA
1 ATCGCAATGCGAAATGAAAATCGCAACGACAAA
6718010 ATCGCAATGCGAAATG-AAATCGCAACGACAAA
1 ATCGCAATGCGAAATGAAAATCGCAACGACAAA
*
6718042 ATCGCAACGCGAAATGAAAATCGCAA
1 ATCGCAATGCGAAATGAAAATCGCAA
6718068 TGCGATTTGT
Statistics
Matches: 56, Mismatches: 1, Indels: 2
0.95 0.02 0.03
Matches are distributed among these distances:
32 31 0.55
33 25 0.45
ACGTcount: A:0.47, C:0.22, G:0.19, T:0.12
Consensus pattern (33 bp):
ATCGCAATGCGAAATGAAAATCGCAACGACAAA
Found at i:6718157 original size:39 final size:39
Alignment explanation
Indices: 6718095--6718169 Score: 98
Period size: 39 Copynumber: 1.9 Consensus size: 39
6718085 GTTGCGATTT
**
6718095 CATTTCGCATTGCGATTTTCA-TTTCGCATTGCGATAGC
1 CATTTCGCATTGCGATAGTCATTTTCGCATTGCGATAGC
* *
6718133 CATTTCCGCGTTGCGATAGTCATTTTCGCGTTGCGAT
1 CATTT-CGCATTGCGATAGTCATTTTCGCATTGCGAT
6718170 TTTAAGTTTC
Statistics
Matches: 31, Mismatches: 4, Indels: 2
0.84 0.11 0.05
Matches are distributed among these distances:
38 5 0.16
39 13 0.42
40 13 0.42
ACGTcount: A:0.16, C:0.24, G:0.21, T:0.39
Consensus pattern (39 bp):
CATTTCGCATTGCGATAGTCATTTTCGCATTGCGATAGC
Found at i:6718179 original size:20 final size:19
Alignment explanation
Indices: 6718079--6718188 Score: 105
Period size: 20 Copynumber: 5.7 Consensus size: 19
6718069 GCGATTTGTG
6718079 TTTCGCGTTGCGA-TTTCA
1 TTTCGCGTTGCGATTTTCA
*
6718097 TTTCGCATTGCGATTTTCA
1 TTTCGCGTTGCGATTTTCA
* ***
6718116 TTTCGCATTGCGATAGCCA
1 TTTCGCGTTGCGATTTTCA
**
6718135 TTTCCGCGTTGCGATAGTCA
1 TTT-CGCGTTGCGATTTTCA
*
6718155 TTTTCGCGTTGCGATTTTAA
1 -TTTCGCGTTGCGATTTTCA
*
6718175 GTTTCGTGTTGCGA
1 -TTTCGCGTTGCGA
6718189 AAGTAAACTA
Statistics
Matches: 78, Mismatches: 11, Indels: 4
0.84 0.12 0.04
Matches are distributed among these distances:
18 12 0.15
19 24 0.31
20 39 0.50
21 3 0.04
ACGTcount: A:0.15, C:0.21, G:0.23, T:0.42
Consensus pattern (19 bp):
TTTCGCGTTGCGATTTTCA
Found at i:6720058 original size:14 final size:14
Alignment explanation
Indices: 6720039--6720074 Score: 54
Period size: 14 Copynumber: 2.6 Consensus size: 14
6720029 ATTGTTTAAT
6720039 TGATTTGTAAAAGA
1 TGATTTGTAAAAGA
* *
6720053 TGATTTGTAAATGT
1 TGATTTGTAAAAGA
6720067 TGATTTGT
1 TGATTTGT
6720075 TTAATTGATG
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
14 20 1.00
ACGTcount: A:0.31, C:0.00, G:0.22, T:0.47
Consensus pattern (14 bp):
TGATTTGTAAAAGA
Found at i:6720182 original size:20 final size:20
Alignment explanation
Indices: 6720157--6720195 Score: 69
Period size: 20 Copynumber: 1.9 Consensus size: 20
6720147 ATGTTGAAGG
6720157 CAAAACAGACTATCGCAACA
1 CAAAACAGACTATCGCAACA
*
6720177 CAAAACTGACTATCGCAAC
1 CAAAACAGACTATCGCAAC
6720196 GAGAGAATCG
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
20 18 1.00
ACGTcount: A:0.46, C:0.31, G:0.10, T:0.13
Consensus pattern (20 bp):
CAAAACAGACTATCGCAACA
Found at i:6720225 original size:19 final size:19
Alignment explanation
Indices: 6720201--6720265 Score: 95
Period size: 19 Copynumber: 3.7 Consensus size: 19
6720191 GCAACGAGAG
6720201 AATCGCAATGCGAAATGAA
1 AATCGCAATGCGAAATGAA
6720220 AATCGCAATGCGAAATGAA
1 AATCGCAATGCGAAATGAA
6720239 AATCGCAA--CG--A-GAA
1 AATCGCAATGCGAAATGAA
6720253 AATCGCAATGCGA
1 AATCGCAATGCGA
6720266 TTTTCATTTC
Statistics
Matches: 43, Mismatches: 0, Indels: 8
0.84 0.00 0.16
Matches are distributed among these distances:
14 11 0.26
15 1 0.02
16 2 0.05
17 2 0.05
19 27 0.63
ACGTcount: A:0.46, C:0.18, G:0.22, T:0.14
Consensus pattern (19 bp):
AATCGCAATGCGAAATGAA
Found at i:6720315 original size:19 final size:20
Alignment explanation
Indices: 6720291--6720340 Score: 84
Period size: 20 Copynumber: 2.5 Consensus size: 20
6720281 GCGATTTTGT
6720291 CGTTGCGATAGCCA-TTTCG
1 CGTTGCGATAGCCATTTTCG
6720310 CGTTGCGATAGCCATTTTCG
1 CGTTGCGATAGCCATTTTCG
*
6720330 CGTTACGATAG
1 CGTTGCGATAG
6720341 TCAAATGAAT
Statistics
Matches: 29, Mismatches: 1, Indels: 1
0.94 0.03 0.03
Matches are distributed among these distances:
19 14 0.48
20 15 0.52
ACGTcount: A:0.18, C:0.24, G:0.26, T:0.32
Consensus pattern (20 bp):
CGTTGCGATAGCCATTTTCG
Found at i:6720841 original size:19 final size:18
Alignment explanation
Indices: 6720817--6720893 Score: 81
Period size: 19 Copynumber: 4.3 Consensus size: 18
6720807 GCAACGAGAG
6720817 AATCGCAATGCGAAAATAA
1 AATCGCAATGCG-AAATAA
*
6720836 AATCGCAA--CG--ATAG
1 AATCGCAATGCGAAATAA
6720850 AATCGCAATGCGAAATGAA
1 AATCGCAATGCGAAAT-AA
*
6720869 AATCGCAACGCGAAACTAA
1 AATCGCAATGCGAAA-TAA
6720888 AATCGC
1 AATCGC
6720894 GTTGCGATTT
Statistics
Matches: 49, Mismatches: 3, Indels: 12
0.77 0.05 0.19
Matches are distributed among these distances:
14 11 0.22
16 2 0.04
17 2 0.04
18 2 0.04
19 31 0.63
20 1 0.02
ACGTcount: A:0.47, C:0.21, G:0.18, T:0.14
Consensus pattern (18 bp):
AATCGCAATGCGAAATAA
Found at i:6720846 original size:33 final size:33
Alignment explanation
Indices: 6720804--6720878 Score: 125
Period size: 33 Copynumber: 2.3 Consensus size: 33
6720794 GAAACTGACT
6720804 ATCGCAACGAGAGAATCGCAATGCGAAAAT-AAA
1 ATCGCAACGAGAGAATCGCAATGCG-AAATGAAA
*
6720837 ATCGCAACGATAGAATCGCAATGCGAAATGAAA
1 ATCGCAACGAGAGAATCGCAATGCGAAATGAAA
6720870 ATCGCAACG
1 ATCGCAACG
6720879 CGAAACTAAA
Statistics
Matches: 40, Mismatches: 1, Indels: 2
0.93 0.02 0.05
Matches are distributed among these distances:
32 4 0.10
33 36 0.90
ACGTcount: A:0.45, C:0.20, G:0.21, T:0.13
Consensus pattern (33 bp):
ATCGCAACGAGAGAATCGCAATGCGAAATGAAA
Found at i:6720952 original size:33 final size:33
Alignment explanation
Indices: 6720893--6721020 Score: 159
Period size: 33 Copynumber: 3.8 Consensus size: 33
6720883 ACTAAAATCG
* * *
6720893 CGTTGCGATTTTAATTTTCGCTTTGCGATTCCCT
1 CGTTGCGATTTTCA-TTTCGCATTGCGATTCTCT
*
6720927 CGTTACGATTTTCATTTCGCATTGCGATTCTCT
1 CGTTGCGATTTTCATTTCGCATTGCGATTCTCT
** *
6720960 CGTTGCCTTTTTCATTTCGCATTGCGATTCTAT
1 CGTTGCGATTTTCATTTCGCATTGCGATTCTCT
*
6720993 CGTTGCGATTTGT-ATTTGGCATTGCGAT
1 CGTTGCGATTT-TCATTTCGCATTGCGAT
6721021 GGTCAAATGA
Statistics
Matches: 82, Mismatches: 11, Indels: 3
0.85 0.11 0.03
Matches are distributed among these distances:
33 69 0.84
34 13 0.16
ACGTcount: A:0.13, C:0.22, G:0.19, T:0.46
Consensus pattern (33 bp):
CGTTGCGATTTTCATTTCGCATTGCGATTCTCT
Found at i:6721060 original size:20 final size:20
Alignment explanation
Indices: 6721035--6721085 Score: 102
Period size: 20 Copynumber: 2.5 Consensus size: 20
6721025 AAATGATTGC
6721035 CTTTCGCAACGCGATTCTGA
1 CTTTCGCAACGCGATTCTGA
6721055 CTTTCGCAACGCGATTCTGA
1 CTTTCGCAACGCGATTCTGA
6721075 CTTTCGCAACG
1 CTTTCGCAACG
6721086 AGATAATACA
Statistics
Matches: 31, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
20 31 1.00
ACGTcount: A:0.20, C:0.31, G:0.20, T:0.29
Consensus pattern (20 bp):
CTTTCGCAACGCGATTCTGA
Found at i:6721857 original size:24 final size:24
Alignment explanation
Indices: 6721830--6721883 Score: 81
Period size: 24 Copynumber: 2.2 Consensus size: 24
6721820 GTATTCGAAA
*
6721830 TTTGATCTTGGTCAATACCCGGAC
1 TTTGATATTGGTCAATACCCGGAC
* *
6721854 TTTGATATTGGTCAATACTCGGAT
1 TTTGATATTGGTCAATACCCGGAC
6721878 TTTGAT
1 TTTGAT
6721884 GATGTTTCAG
Statistics
Matches: 27, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
24 27 1.00
ACGTcount: A:0.22, C:0.17, G:0.20, T:0.41
Consensus pattern (24 bp):
TTTGATATTGGTCAATACCCGGAC
Found at i:6722075 original size:12 final size:12
Alignment explanation
Indices: 6722058--6722082 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
6722048 ATATAATCCT
6722058 GAAGAAGAAAAA
1 GAAGAAGAAAAA
6722070 GAAGAAGAAAAA
1 GAAGAAGAAAAA
6722082 G
1 G
6722083 TCCCCGAAGA
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:0.72, C:0.00, G:0.28, T:0.00
Consensus pattern (12 bp):
GAAGAAGAAAAA
Found at i:6724405 original size:33 final size:33
Alignment explanation
Indices: 6724363--6724487 Score: 198
Period size: 33 Copynumber: 3.8 Consensus size: 33
6724353 GGAAATTACT
6724363 ATCGCAATGCGAAATGAAAATCGCAACGAGAGA
1 ATCGCAATGCGAAATGAAAATCGCAACGAGAGA
**
6724396 ATCGCAATGCGAAATGAAAATCGCAACGCTA-A
1 ATCGCAATGCGAAATGAAAATCGCAACGAGAGA
* *
6724428 TTTCGCAATGCGAAATGAAAATCGCAACGAGGGA
1 -ATCGCAATGCGAAATGAAAATCGCAACGAGAGA
6724462 ATCGCAATGCGAAATGAAAATCGCAA
1 ATCGCAATGCGAAATGAAAATCGCAA
6724488 TGCGAATTTA
Statistics
Matches: 83, Mismatches: 7, Indels: 4
0.88 0.07 0.04
Matches are distributed among these distances:
32 1 0.01
33 81 0.98
34 1 0.01
ACGTcount: A:0.43, C:0.19, G:0.22, T:0.15
Consensus pattern (33 bp):
ATCGCAATGCGAAATGAAAATCGCAACGAGAGA
Found at i:6724470 original size:66 final size:66
Alignment explanation
Indices: 6724364--6724496 Score: 239
Period size: 66 Copynumber: 2.0 Consensus size: 66
6724354 GAAATTACTA
*
6724364 TCGCAATGCGAAATGAAAATCGCAACGAGAGAATCGCAATGCGAAATGAAAATCGCAACGCTAAT
1 TCGCAATGCGAAATGAAAATCGCAACGAGAGAATCGCAATGCGAAATGAAAATCGCAACGCGAAT
6724429 T
66 T
* *
6724430 TCGCAATGCGAAATGAAAATCGCAACGAGGGAATCGCAATGCGAAATGAAAATCGCAATGCGAAT
1 TCGCAATGCGAAATGAAAATCGCAACGAGAGAATCGCAATGCGAAATGAAAATCGCAACGCGAAT
6724495 T
66 T
6724496 T
1 T
6724497 AATTTCGCGT
Statistics
Matches: 64, Mismatches: 3, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
66 64 1.00
ACGTcount: A:0.41, C:0.19, G:0.23, T:0.17
Consensus pattern (66 bp):
TCGCAATGCGAAATGAAAATCGCAACGAGAGAATCGCAATGCGAAATGAAAATCGCAACGCGAAT
T
Found at i:6724504 original size:19 final size:19
Alignment explanation
Indices: 6724363--6724493 Score: 103
Period size: 19 Copynumber: 7.7 Consensus size: 19
6724353 GGAAATTACT
6724363 ATCGCAATGCGAAATGAAA
1 ATCGCAATGCGAAATGAAA
*
6724382 ATCGCAA--CG--A-GAGA
1 ATCGCAATGCGAAATGAAA
6724396 ATCGCAATGCGAAATGAAA
1 ATCGCAATGCGAAATGAAA
* *
6724415 ATCGCAA--CG--CT-AAT
1 ATCGCAATGCGAAATGAAA
*
6724429 TTCGCAATGCGAAATGAAA
1 ATCGCAATGCGAAATGAAA
**
6724448 ATCGCAA--CG--A-GGGA
1 ATCGCAATGCGAAATGAAA
6724462 ATCGCAATGCGAAATGAAA
1 ATCGCAATGCGAAATGAAA
6724481 ATCGCAATGCGAA
1 ATCGCAATGCGAA
6724494 TTTAATTTCG
Statistics
Matches: 85, Mismatches: 12, Indels: 30
0.67 0.09 0.24
Matches are distributed among these distances:
14 27 0.32
15 3 0.04
16 6 0.07
17 6 0.07
18 3 0.04
19 40 0.47
ACGTcount: A:0.43, C:0.19, G:0.23, T:0.15
Consensus pattern (19 bp):
ATCGCAATGCGAAATGAAA
Found at i:6724523 original size:14 final size:14
Alignment explanation
Indices: 6724504--6724560 Score: 60
Period size: 14 Copynumber: 3.7 Consensus size: 14
6724494 TTTAATTTCG
6724504 CGTTGCGATTCTCT
1 CGTTGCGATTCTCT
*
6724518 CGTTGCGATTTTCATTTCG
1 CGTTGCGA--TTC---TCT
6724537 CGTTGCGATTCTCT
1 CGTTGCGATTCTCT
6724551 CGTTGCGATT
1 CGTTGCGATT
6724561 TTCATTTCGC
Statistics
Matches: 36, Mismatches: 2, Indels: 10
0.75 0.04 0.21
Matches are distributed among these distances:
14 20 0.56
16 3 0.08
17 3 0.08
19 10 0.28
ACGTcount: A:0.09, C:0.25, G:0.23, T:0.44
Consensus pattern (14 bp):
CGTTGCGATTCTCT
Found at i:6724535 original size:33 final size:33
Alignment explanation
Indices: 6724488--6724578 Score: 155
Period size: 33 Copynumber: 2.8 Consensus size: 33
6724478 AAAATCGCAA
* *
6724488 TGCGAATTTAATTTCGCGTTGCGATTCTCTCGT
1 TGCGATTTTCATTTCGCGTTGCGATTCTCTCGT
6724521 TGCGATTTTCATTTCGCGTTGCGATTCTCTCGT
1 TGCGATTTTCATTTCGCGTTGCGATTCTCTCGT
*
6724554 TGCGATTTTCATTTCGCATTGCGAT
1 TGCGATTTTCATTTCGCGTTGCGAT
6724579 AGTACTTTTT
Statistics
Matches: 55, Mismatches: 3, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
33 55 1.00
ACGTcount: A:0.13, C:0.22, G:0.21, T:0.44
Consensus pattern (33 bp):
TGCGATTTTCATTTCGCGTTGCGATTCTCTCGT
Found at i:6724542 original size:19 final size:19
Alignment explanation
Indices: 6724518--6724578 Score: 69
Period size: 19 Copynumber: 3.5 Consensus size: 19
6724508 GCGATTCTCT
6724518 CGTTGCGATTTTCATTTCG
1 CGTTGCGATTTTCATTTCG
*
6724537 CGTTGCGA--TTC---TCT
1 CGTTGCGATTTTCATTTCG
6724551 CGTTGCGATTTTCATTTCG
1 CGTTGCGATTTTCATTTCG
*
6724570 CATTGCGAT
1 CGTTGCGAT
6724579 AGTACTTTTT
Statistics
Matches: 34, Mismatches: 3, Indels: 10
0.72 0.06 0.21
Matches are distributed among these distances:
14 10 0.29
16 3 0.09
17 3 0.09
19 18 0.53
ACGTcount: A:0.11, C:0.23, G:0.21, T:0.44
Consensus pattern (19 bp):
CGTTGCGATTTTCATTTCG
Found at i:6724704 original size:14 final size:14
Alignment explanation
Indices: 6724685--6724721 Score: 65
Period size: 14 Copynumber: 2.6 Consensus size: 14
6724675 CATCAATTAA
6724685 ACAAATCAACTTTT
1 ACAAATCAACTTTT
*
6724699 ACAAATCACCTTTT
1 ACAAATCAACTTTT
6724713 ACAAATCAA
1 ACAAATCAA
6724722 TTAAACAATC
Statistics
Matches: 21, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
14 21 1.00
ACGTcount: A:0.46, C:0.24, G:0.00, T:0.30
Consensus pattern (14 bp):
ACAAATCAACTTTT
Found at i:6726121 original size:21 final size:21
Alignment explanation
Indices: 6726097--6726212 Score: 65
Period size: 21 Copynumber: 5.5 Consensus size: 21
6726087 GTGGGAGGGA
6726097 CCTCTTCAACGATGACAGTGG
1 CCTCTTCAACGATGACAGTGG
* * ** *
6726118 CCTCTTGAACGGTGGGAGGGG
1 CCTCTTCAACGATGACAGTGG
* * * * *
6726139 ACTC-TCGAGGAATGATAGGGG
1 CCTCTTCAACG-ATGACAGTGG
6726160 CCTCTTCAACGATAGA-AGTGG
1 CCTCTTCAACGAT-GACAGTGG
* * **
6726181 ACTCTTGAGGGATGACAGTGG
1 CCTCTTCAACGATGACAGTGG
*
6726202 CCTCTTGAACG
1 CCTCTTCAACG
6726213 GTGGGAGGGG
Statistics
Matches: 68, Mismatches: 23, Indels: 8
0.69 0.23 0.08
Matches are distributed among these distances:
20 5 0.07
21 57 0.84
22 6 0.09
ACGTcount: A:0.23, C:0.22, G:0.33, T:0.22
Consensus pattern (21 bp):
CCTCTTCAACGATGACAGTGG
Found at i:6726136 original size:42 final size:41
Alignment explanation
Indices: 6726077--6726282 Score: 164
Period size: 42 Copynumber: 4.9 Consensus size: 41
6726067 GTGAATCGGG
* *
6726077 CTCTTGAATGGTGGGAGGGACCTCTTCAACGATGACAGTGGC
1 CTCTTGAACGGTGGGAGGGA-CTCTTCAAGGATGACAGTGGC
* * *
6726119 CTCTTGAACGGTGGGAGGGGACTC-TCGAGGAATGATAGGGGC
1 CTCTTGAACGGTGGGA-GGGACTCTTCAAGG-ATGACAGTGGC
* * * * * *
6726161 CTCTTCAACGATAGAAGTGGACTCTTGAGGGATGACAGTGGC
1 CTCTTGAACGGTGGGAG-GGACTCTTCAAGGATGACAGTGGC
* * *
6726203 CTCTTGAACGGTGGGAGGGGACTC-TCGAGGAATGATAGGGGC
1 CTCTTGAACGGTGGGA-GGGACTCTTCAAGG-ATGACAGTGGC
* * * * *
6726245 CTCTTCAACGATAGGAGTGGACTCTTGAGGGATGACAG
1 CTCTTGAACGGTGGGAG-GGACTCTTCAAGGATGACAG
6726283 GCGAGTCGGG
Statistics
Matches: 126, Mismatches: 30, Indels: 16
0.73 0.17 0.09
Matches are distributed among these distances:
41 9 0.07
42 106 0.84
43 11 0.09
ACGTcount: A:0.23, C:0.18, G:0.36, T:0.22
Consensus pattern (41 bp):
CTCTTGAACGGTGGGAGGGACTCTTCAAGGATGACAGTGGC
Found at i:6726218 original size:84 final size:84
Alignment explanation
Indices: 6726107--6726282 Score: 343
Period size: 84 Copynumber: 2.1 Consensus size: 84
6726097 CCTCTTCAAC
6726107 GATGACAGTGGCCTCTTGAACGGTGGGAGGGGACTCTCGAGGAATGATAGGGGCCTCTTCAACGA
1 GATGACAGTGGCCTCTTGAACGGTGGGAGGGGACTCTCGAGGAATGATAGGGGCCTCTTCAACGA
6726172 TAGAAGTGGACTCTTGAGG
66 TAGAAGTGGACTCTTGAGG
6726191 GATGACAGTGGCCTCTTGAACGGTGGGAGGGGACTCTCGAGGAATGATAGGGGCCTCTTCAACGA
1 GATGACAGTGGCCTCTTGAACGGTGGGAGGGGACTCTCGAGGAATGATAGGGGCCTCTTCAACGA
*
6726256 TAGGAGTGGACTCTTGAGG
66 TAGAAGTGGACTCTTGAGG
6726275 GATGACAG
1 GATGACAG
6726283 GCGAGTCGGG
Statistics
Matches: 91, Mismatches: 1, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
84 91 1.00
ACGTcount: A:0.24, C:0.18, G:0.38, T:0.21
Consensus pattern (84 bp):
GATGACAGTGGCCTCTTGAACGGTGGGAGGGGACTCTCGAGGAATGATAGGGGCCTCTTCAACGA
TAGAAGTGGACTCTTGAGG
Found at i:6726676 original size:91 final size:90
Alignment explanation
Indices: 6726501--6726685 Score: 300
Period size: 91 Copynumber: 2.0 Consensus size: 90
6726491 ATTTCAAACT
*
6726501 TTCAACCAAAAGACAAAACAAAGACAAATACTAACTTCACAGTGTTAAAGAATACACAGTTTAGC
1 TTCAACCAAAAGACAAAACAAAGACAAATACTAACTTCACAGTGTT--A-AATAAACAGTTTAGC
6726566 AGAATTGGCAGCAACCGAATAAATTTAC
63 AGAATTGGCAGCAACCGAATAAATTTAC
6726594 TTCAACCAAAAGACAAAACAAAAAGACAAATACTAACTTCACAGTGTT-AATAAACAGTTTAGCA
1 TTCAACCAAAAGACAAAAC--AAAGACAAATACTAACTTCACAGTGTTAAATAAACAGTTTAGCA
*
6726658 GTATTGGCAGCAACCGAATAAATTTAC
64 GAATTGGCAGCAACCGAATAAATTTAC
6726685 T
1 T
6726686 AAGCAATCTA
Statistics
Matches: 88, Mismatches: 2, Indels: 6
0.92 0.02 0.06
Matches are distributed among these distances:
91 42 0.48
93 19 0.22
95 27 0.31
ACGTcount: A:0.47, C:0.19, G:0.12, T:0.22
Consensus pattern (90 bp):
TTCAACCAAAAGACAAAACAAAGACAAATACTAACTTCACAGTGTTAAATAAACAGTTTAGCAGA
ATTGGCAGCAACCGAATAAATTTAC
Found at i:6728402 original size:20 final size:19
Alignment explanation
Indices: 6728371--6728511 Score: 97
Period size: 19 Copynumber: 7.8 Consensus size: 19
6728361 TCTTTTGGTT
6728371 GAAATGAAAATCGCAACGA
1 GAAATGAAAATCGCAACGA
* *
6728390 GATAATGAGAATCGCAACGCG
1 GA-AATGAAAATCGCAACG-A
**
6728411 GAAATGACTATCGCAACGA
1 GAAATGAAAATCGCAACGA
6728430 G--A-G--AATCGCAAC-A
1 GAAATGAAAATCGCAACGA
** *
6728443 CGAAATGACTATCGCGACGA
1 -GAAATGAAAATCGCAACGA
*
6728463 G--A-G--AATCGCAACGC
1 GAAATGAAAATCGCAACGA
*
6728477 GAAATGAAAATCGCAACGC
1 GAAATGAAAATCGCAACGA
6728496 GAAATGAAAATCGCAA
1 GAAATGAAAATCGCAA
6728512 TGCGATTTTG
Statistics
Matches: 97, Mismatches: 11, Indels: 28
0.71 0.08 0.21
Matches are distributed among these distances:
13 1 0.01
14 18 0.19
16 4 0.04
17 4 0.04
19 38 0.39
20 30 0.31
21 2 0.02
ACGTcount: A:0.44, C:0.21, G:0.23, T:0.12
Consensus pattern (19 bp):
GAAATGAAAATCGCAACGA
Found at i:6728453 original size:33 final size:33
Alignment explanation
Indices: 6728396--6728494 Score: 153
Period size: 33 Copynumber: 3.0 Consensus size: 33
6728386 ACGAGATAAT
6728396 GAGAATCGCAACGCGGAAATGACTATCGCAACGA
1 GAGAATCGCAACGC-GAAATGACTATCGCAACGA
* *
6728430 GAGAATCGCAACACGAAATGACTATCGCGACGA
1 GAGAATCGCAACGCGAAATGACTATCGCAACGA
**
6728463 GAGAATCGCAACGCGAAATGAAAATCGCAACG
1 GAGAATCGCAACGCGAAATGACTATCGCAACG
6728495 CGAAATGAAA
Statistics
Matches: 59, Mismatches: 6, Indels: 1
0.89 0.09 0.02
Matches are distributed among these distances:
33 46 0.78
34 13 0.22
ACGTcount: A:0.40, C:0.23, G:0.25, T:0.11
Consensus pattern (33 bp):
GAGAATCGCAACGCGAAATGACTATCGCAACGA
Found at i:6729178 original size:20 final size:20
Alignment explanation
Indices: 6729093--6729206 Score: 122
Period size: 20 Copynumber: 5.7 Consensus size: 20
6729083 CGCTATGTAA
* * *
6729093 ATCGCGTTGCGAAAGTCAGA
1 ATCGCATTGCGATAGTCAGT
* *
6729113 ATCGCGTTGCGAAAGTCAGT
1 ATCGCATTGCGATAGTCAGT
* * * *
6729133 ATCTCGTTGCGATTTTGT-ATT
1 ATCGCATTGCGA--TAGTCAGT
6729154 ATCGCATTGCGATAGTCAGT
1 ATCGCATTGCGATAGTCAGT
6729174 ATCGCATTGCGATAGTCAGT
1 ATCGCATTGCGATAGTCAGT
6729194 ATCGCATTGCGAT
1 ATCGCATTGCGAT
6729207 TTTCCCAATT
Statistics
Matches: 82, Mismatches: 9, Indels: 6
0.85 0.09 0.06
Matches are distributed among these distances:
19 3 0.04
20 65 0.79
21 12 0.15
22 2 0.02
ACGTcount: A:0.24, C:0.19, G:0.25, T:0.32
Consensus pattern (20 bp):
ATCGCATTGCGATAGTCAGT
Found at i:6729191 original size:61 final size:61
Alignment explanation
Indices: 6729093--6729209 Score: 171
Period size: 61 Copynumber: 1.9 Consensus size: 61
6729083 CGCTATGTAA
* * * *
6729093 ATCGCGTTGCGAAAGTCAGAATCGCGTTGCGAAAGTCAGTATCTCGTTGCGATTTTGTATT
1 ATCGCATTGCGAAAGTCAGAATCGCATTGCGAAAGTCAGTATCGCATTGCGATTTTGTATT
* * *
6729154 ATCGCATTGCGATAGTCAGTATCGCATTGCGATAGTCAGTATCGCATTGCGATTTT
1 ATCGCATTGCGAAAGTCAGAATCGCATTGCGAAAGTCAGTATCGCATTGCGATTTT
6729210 CCCAATTCGC
Statistics
Matches: 49, Mismatches: 7, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
61 49 1.00
ACGTcount: A:0.23, C:0.19, G:0.25, T:0.33
Consensus pattern (61 bp):
ATCGCATTGCGAAAGTCAGAATCGCATTGCGAAAGTCAGTATCGCATTGCGATTTTGTATT
Found at i:6729225 original size:61 final size:61
Alignment explanation
Indices: 6729093--6729227 Score: 164
Period size: 61 Copynumber: 2.2 Consensus size: 61
6729083 CGCTATGTAA
* * * * ** *
6729093 ATCGCGTTGCGAAAGTCAGAATCGCGTTGCGAAAGTCAGTATCTCGTTGCGATTTTGTATT
1 ATCGCGTTGCGATAGTCAGAATCGCATTGCGAAAGTCAGTATCGCATTGCGATTTTCCAAT
* * *
6729154 ATCGCATTGCGATAGTCAGTATCGCATTGCGATAGTCAGTATCGCATTGCGATTTTCCCAAT
1 ATCGCGTTGCGATAGTCAGAATCGCATTGCGAAAGTCAGTATCGCATTGCGATTTT-CCAAT
6729216 -TCGCGTTGCGAT
1 ATCGCGTTGCGAT
6729228 TTACTTATTC
Statistics
Matches: 62, Mismatches: 11, Indels: 2
0.83 0.15 0.03
Matches are distributed among these distances:
61 60 0.97
62 2 0.03
ACGTcount: A:0.22, C:0.21, G:0.24, T:0.33
Consensus pattern (61 bp):
ATCGCGTTGCGATAGTCAGAATCGCATTGCGAAAGTCAGTATCGCATTGCGATTTTCCAAT
Found at i:6736244 original size:4 final size:4
Alignment explanation
Indices: 6736235--6736285 Score: 61
Period size: 4 Copynumber: 13.0 Consensus size: 4
6736225 ATTAGTATAG
* *
6736235 TATT TATT TATT TATT TATT TATT CATA TATT TA-T TATT TATAT T-TT
1 TATT TATT TATT TATT TATT TATT TATT TATT TATT TATT TAT-T TATT
6736282 TATT
1 TATT
6736286 CACTAATATT
Statistics
Matches: 40, Mismatches: 4, Indels: 6
0.80 0.08 0.12
Matches are distributed among these distances:
3 5 0.12
4 33 0.82
5 2 0.05
ACGTcount: A:0.27, C:0.02, G:0.00, T:0.71
Consensus pattern (4 bp):
TATT
Found at i:6747527 original size:112 final size:112
Alignment explanation
Indices: 6747330--6747656 Score: 452
Period size: 112 Copynumber: 2.9 Consensus size: 112
6747320 GATTCAAATC
* *
6747330 CATCATTCGATGGATCAACATTTCC-G-GAAGAGTTCATAATGAGAAGAGCTCATCTGAAGAAAG
1 CATCATTCGATGGATCAACATTTCCAGAGAA-AGTTCATAATGAGAAGAACTCATCTGAAGAAGG
*
6747393 AAGAAGAAGTTCATAATGAGAAGAACTTGTTCAACTTTCTGCTTGAATT
65 AAGAAGAAGTTCATAATGAGAAGAACTTGTTCAACTTT-TGCCTGAATT
*
6747442 CATCATTCGATGGATCAGCATTTCCAGAGAAAGTTCATAATGAGAAGAAC-CTATCTGAAG-AGG
1 CATCATTCGATGGATCAACATTTCCAGAGAAAGTTCATAATGAGAAGAACTC-ATCTGAAGAAGG
* *
6747505 AAGAAGAAATTCATAATGAGAAGAATTTGTTCAACCTTTTGCCTGAATT
65 AAGAAGAAGTTCATAATGAGAAGAACTTGTTCAA-CTTTTGCCTGAATT
* * *
6747554 CATCACTT-GATGGATTAACTTTTCCAGAGAAAGTT--TCAATGAGAAGAACTCATATGAAGAAG
1 CATCA-TTCGATGGATCAACATTTCCAGAGAAAGTTCAT-AATGAGAAGAACTCATCTGAAGAAG
* *
6747616 GAAGAAGAAGTTCATAATGAGAAGAGCTTGTTCAACCTTTG
64 GAAGAAGAAGTTCATAATGAGAAGAACTTGTTCAACTTTTG
6747657 TTTGATGCTA
Statistics
Matches: 193, Mismatches: 14, Indels: 17
0.86 0.06 0.08
Matches are distributed among these distances:
110 1 0.01
111 24 0.12
112 132 0.68
113 33 0.17
114 3 0.02
ACGTcount: A:0.37, C:0.15, G:0.20, T:0.28
Consensus pattern (112 bp):
CATCATTCGATGGATCAACATTTCCAGAGAAAGTTCATAATGAGAAGAACTCATCTGAAGAAGGA
AGAAGAAGTTCATAATGAGAAGAACTTGTTCAACTTTTGCCTGAATT
Found at i:6747945 original size:112 final size:111
Alignment explanation
Indices: 6747701--6747964 Score: 395
Period size: 112 Copynumber: 2.4 Consensus size: 111
6747691 TAGCATTTCC
**
6747701 AGAAGAAGTTCATAATGAGAAGAGCTTGTTCAACCTTTTGCTCAAATCCATCATTTGAGGATCAA
1 AGAAGAAGTTCATAATGAGAAGAGCTTGTTCAACCTTTTGCTCAAATCCATCACCTGAGGATCAA
* * **
6747766 TATTTCCAGAAGTGTTCATAATGAGAAGAACTCATCTGAAGAATGA
66 CATTGCCAGAAAAGTTCATAATGAGAAGAACTCATCTGAAGAATGA
* *
6747812 AGAAGAAGTTCATAATGAGAAGAACTTGTTCAACCTTTTGCTCAAATTCATCACCTGATGGATCA
1 AGAAGAAGTTCATAATGAGAAGAGCTTGTTCAACCTTTTGCTCAAATCCATCACCTGA-GGATCA
* * * *
6747877 GCGTTGCCAGAGAAAGTTCATAATGAGAAGAATTTATCTGAAGAA-GA
65 ACATTGCCAGA-AAAGTTCATAATGAGAAGAACTCATCTGAAGAATGA
6747924 AGAAGAAGTTCATAATGAGAAGAGCTTGTTCAACCTTTTGC
1 AGAAGAAGTTCATAATGAGAAGAGCTTGTTCAACCTTTTGC
6747965 ATAACTCTAT
Statistics
Matches: 138, Mismatches: 13, Indels: 3
0.90 0.08 0.02
Matches are distributed among these distances:
111 54 0.39
112 55 0.40
113 29 0.21
ACGTcount: A:0.37, C:0.15, G:0.20, T:0.28
Consensus pattern (111 bp):
AGAAGAAGTTCATAATGAGAAGAGCTTGTTCAACCTTTTGCTCAAATCCATCACCTGAGGATCAA
CATTGCCAGAAAAGTTCATAATGAGAAGAACTCATCTGAAGAATGA
Found at i:6747948 original size:306 final size:308
Alignment explanation
Indices: 6747394--6748034 Score: 861
Period size: 307 Copynumber: 2.1 Consensus size: 308
6747384 TGAAGAAAGA
** *
6747394 AGAAGAAGTTCATAATGAGAAGAACTTGTTCAACTTTCTGCTTGAATTCATCATTCGATGGATCA
1 AGAAGAAGTTCATAATGAGAAGAACTTGTTCAACTTTCTGCTCAAATCCATCATTCGATGGATCA
*
6747459 GCATTTCCAGAGAAAGTTCATAATGAGAAGAACCTATCTGAAGAGGAAGAAGAAATTCATAATGA
66 ACATTTCCAGAGAAAGTTCATAATGAGAAGAACCTATCTGAAGAGGAAGAAGAAATTCATAATGA
* * * * * *
6747524 GAAGAATTTGTTCAACCTTTTGCCTGAATTCATCACTTGATGGATTAACTTTTCCAGAGAAAGTT
131 GAAGAACTTGTTCAACCTTTTGCCTAAATTCATCACCTGATGGATCAACGTTGCCAGAGAAAGTT
6747589 TCAATGAGAAGAACTCATATGAAGAAGGAAGAAGAAGTTCATAATGAGAAGAGCTTGTTCAACC-
196 TCAATGAGAAGAACTCATATGAAGAAGGAAGAAGAAGTTCATAATGAGAAGAGCTTGTTCAACCT
** * ** ** *
6747653 TTTGTTTGA-TGCTATCACAGAAGGAAATAGATCAGTATTAGCATTTCC
261 TTTGCATAACT-CTATCACAGAAGGAAATAGATCAACACCAACATTTCC
* *
6747701 AGAAGAAGTTCATAATGAGAAGAGCTTGTTCAACCTTT-TGCTCAAATCCATCATTTGA-GGATC
1 AGAAGAAGTTCATAATGAGAAGAACTTGTTCAA-CTTTCTGCTCAAATCCATCATTCGATGGATC
* ** * *
6747764 AATATTTCCAGA-AGTGTTCATAATGAGAAGAA-CTCATCTGAAGAATGAAGAAGAAGTTCATAA
65 AACATTTCCAGAGAAAGTTCATAATGAGAAGAACCT-ATCTGAAG-AGGAAGAAGAAATTCATAA
*
6747827 TGAGAAGAACTTGTTCAACCTTTTG-CTCAAATTCATCACCTGATGGATCAGCGTTGCCAGAGAA
128 TGAGAAGAACTTGTTCAACCTTTTGCCT-AAATTCATCACCTGATGGATCAACGTTGCCAGAGAA
* * *
6747891 AG-TTCATAATGAGAAGAATTTATCTGAAGAA-GAAGAAGAAGTTCATAATGAGAAGAGCTTGTT
192 AGTTTC--AATGAGAAGAACTCATATGAAGAAGGAAGAAGAAGTTCATAATGAGAAGAGCTTGTT
* *
6747954 CAACCTTTTGCATAACTCTATCACAGAAGGAGATAGATCAACACCAACTTTTCC
255 CAACCTTTTGCATAACTCTATCACAGAAGGAAATAGATCAACACCAACATTTCC
6748008 AG-AGAAAGTTCATAATGAGAAGAACTT
1 AGAAG-AAGTTCATAATGAGAAGAACTT
6748035 ATCTGAAGAG
Statistics
Matches: 293, Mismatches: 32, Indels: 18
0.85 0.09 0.05
Matches are distributed among these distances:
304 2 0.01
305 31 0.11
306 127 0.43
307 128 0.44
308 5 0.02
ACGTcount: A:0.37, C:0.15, G:0.20, T:0.28
Consensus pattern (308 bp):
AGAAGAAGTTCATAATGAGAAGAACTTGTTCAACTTTCTGCTCAAATCCATCATTCGATGGATCA
ACATTTCCAGAGAAAGTTCATAATGAGAAGAACCTATCTGAAGAGGAAGAAGAAATTCATAATGA
GAAGAACTTGTTCAACCTTTTGCCTAAATTCATCACCTGATGGATCAACGTTGCCAGAGAAAGTT
TCAATGAGAAGAACTCATATGAAGAAGGAAGAAGAAGTTCATAATGAGAAGAGCTTGTTCAACCT
TTTGCATAACTCTATCACAGAAGGAAATAGATCAACACCAACATTTCC
Found at i:6747977 original size:112 final size:111
Alignment explanation
Indices: 6747701--6748083 Score: 380
Period size: 123 Copynumber: 3.3 Consensus size: 111
6747691 TAGCATTTCC
* **
6747701 AGAAGAAGTTCATAATGAGAAGAGCTTGTTCAACCTTTTGCTCAAATCCATCATTTGAGGATCAA
1 AGAAGAAGTTCATAATGAGAAGAGCTTGTTCAACCTTTTGCTCAAATCTATCACCTGAGGATCAA
* * **
6747766 TATTTCCAGAAGTGTTCATAATGAGAAGAACTCATCTGAAGAATGA
66 CATTGCCAGAAAAGTTCATAATGAGAAGAACTCATCTGAAGAATGA
*
6747812 AGAAGAAGTTCATAATGAGAAGAACTTGTTCAACCTTTTGCTCAAAT-TCATCACCTGATGGATC
1 AGAAGAAGTTCATAATGAGAAGAGCTTGTTCAACCTTTTGCTCAAATCT-ATCACCTGA-GGATC
* * * *
6747876 AGCGTTGCCAGAGAAAGTTCATAATGAGAAGAATTTATCTGAAGAA-GA
64 AACATTGCCAGA-AAAGTTCATAATGAGAAGAACTCATCTGAAGAATGA
* **
6747924 AGAAGAAGTTCATAATGAGAAGAGCTTGTTCAACCTTTTGCAT-AACTCTATCACAGAAGGAGAT
1 AGAAGAAGTTCATAATGAGAAGAGCTTGTTCAACCTTTTGC-TCAAATCTATCAC---CTGAG--
* * *
6747988 AGATCAACACCAACTTTTCCAGAGAAAGTTCATAATGAGAAGAACTTATCTGAAG-AGGA
60 -GATC-A-A-C-A--TTGCCAGA-AAAGTTCATAATGAGAAGAACTCATCTGAAGAATGA
* * *
6748047 A-AAGAAAATTCATAATGAGAAGAACTTATTCAACCTT
1 AGAAG-AAGTTCATAATGAGAAGAGCTTGTTCAACCTT
6748084 GCATTGATTC
Statistics
Matches: 230, Mismatches: 23, Indels: 26
0.82 0.08 0.09
Matches are distributed among these distances:
111 53 0.23
112 63 0.27
113 31 0.13
114 1 0.00
115 2 0.01
117 4 0.02
118 1 0.00
120 1 0.00
122 4 0.02
123 70 0.30
ACGTcount: A:0.39, C:0.15, G:0.19, T:0.27
Consensus pattern (111 bp):
AGAAGAAGTTCATAATGAGAAGAGCTTGTTCAACCTTTTGCTCAAATCTATCACCTGAGGATCAA
CATTGCCAGAAAAGTTCATAATGAGAAGAACTCATCTGAAGAATGA
Found at i:6749571 original size:4 final size:4
Alignment explanation
Indices: 6749562--6749607 Score: 53
Period size: 4 Copynumber: 12.0 Consensus size: 4
6749552 ATTAGTATAG
*
6749562 TATT TATT TATT TATT TATT TATA TA-T TA-T TATT TATAT T-TT TATT
1 TATT TATT TATT TATT TATT TATT TATT TATT TATT TAT-T TATT TATT
6749608 CACTAATATT
Statistics
Matches: 37, Mismatches: 2, Indels: 6
0.82 0.04 0.13
Matches are distributed among these distances:
3 7 0.19
4 28 0.76
5 2 0.05
ACGTcount: A:0.28, C:0.00, G:0.00, T:0.72
Consensus pattern (4 bp):
TATT
Found at i:6749969 original size:6 final size:7
Alignment explanation
Indices: 6749944--6749973 Score: 51
Period size: 7 Copynumber: 4.3 Consensus size: 7
6749934 TAAATTAAAT
*
6749944 ATTTTGA
1 ATTTTTA
6749951 ATTTTTA
1 ATTTTTA
6749958 ATTTTTA
1 ATTTTTA
6749965 ATTTTTA
1 ATTTTTA
6749972 AT
1 AT
6749974 AATAGAGACA
Statistics
Matches: 22, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
7 22 1.00
ACGTcount: A:0.30, C:0.00, G:0.03, T:0.67
Consensus pattern (7 bp):
ATTTTTA
Found at i:6754826 original size:55 final size:55
Alignment explanation
Indices: 6754768--6755284 Score: 493
Period size: 55 Copynumber: 9.6 Consensus size: 55
6754758 TGACGAGCCT
* * * **
6754768 GCTCCCTATTCCTTCAG-GAAGTATA-AGGCTCGAACAATCTTCATAAAATGTGTAT
1 GCTCTCTATTCCTTCAGAG-AGTATAGA-ACTCGAACAATCTTCATAAAACGTGTCC
** * *
6754823 GCTCTCTATTTATTCAGAGAGTATA-AGACTTGAACAATCTTCAATAAAACGGGTCC
1 GCTCTCTATTCCTTCAGAGAGTATAGA-ACTCGAACAATCTTC-ATAAAACGTGTCC
* *
6754879 GCTCTCTATTCCTTCAGAGAGTATAGAACTCGGAA-AATCTTTA-ATAAACAG-GTCT
1 GCTCTCTATTCCTTCAGAGAGTATAGAACTC-GAACAATCTTCATA-AAAC-GTGTCC
* * * *
6754934 GCTCCCTATTCTTTCAGAGAGTATAGGACT----CAATCTTTA-ACAAACGTGTCC
1 GCTCTCTATTCCTTCAGAGAGTATAGAACTCGAACAATCTTCATA-AAACGTGTCC
* * *
6754985 GCTCCCTATTCCTTCAGAGAGTATAGAACTCGAGCAATCTTCATAAAACGGGTCC
1 GCTCTCTATTCCTTCAGAGAGTATAGAACTCGAACAATCTTCATAAAACGTGTCC
6755040 GCTCTCTATTCCTTCAGAGAGTATAGAACTCGAACAATCTTCA-ACAAACGTGTCC
1 GCTCTCTATTCCTTCAGAGAGTATAGAACTCGAACAATCTTCATA-AAACGTGTCC
** *
6755095 GCTCTCTATTCCTTCAGAGAGTATAGAACTCGAACAATCTTCATGCAACGGGTCC
1 GCTCTCTATTCCTTCAGAGAGTATAGAACTCGAACAATCTTCATAAAACGTGTCC
* * * *
6755150 GCTCTCTATTCCTTCAGAGAGTAAAGGACT----CAATCTTTA-ACAAACATGTCC
1 GCTCTCTATTCCTTCAGAGAGTATAGAACTCGAACAATCTTCATA-AAACGTGTCC
* * * **
6755201 GCTCCCTATTCTTTCAGAGAGTATA-AGACTCG----ATCTTTATAAAATATGTCC
1 GCTCTCTATTCCTTCAGAGAGTATAGA-ACTCGAACAATCTTCATAAAACGTGTCC
* *
6755252 GCTCCCTATTCCTTCAGAGAGTATAGGACTCGA
1 GCTCTCTATTCCTTCAGAGAGTATAGAACTCGA
6755285 TCTTCATAAA
Statistics
Matches: 397, Mismatches: 43, Indels: 47
0.82 0.09 0.10
Matches are distributed among these distances:
50 1 0.00
51 129 0.32
52 1 0.00
54 2 0.01
55 216 0.54
56 44 0.11
57 4 0.01
ACGTcount: A:0.30, C:0.24, G:0.16, T:0.30
Consensus pattern (55 bp):
GCTCTCTATTCCTTCAGAGAGTATAGAACTCGAACAATCTTCATAAAACGTGTCC
Found at i:6755055 original size:161 final size:158
Alignment explanation
Indices: 6754835--6755292 Score: 506
Period size: 161 Copynumber: 2.9 Consensus size: 158
6754825 TCTCTATTTA
6754835 TTCAGAGAGTATA-AGACTTGAACAATCTTCAATAAAACGGGTCCGCTCTCTATTCCTTCAGAGA
1 TTCAGAGAGTATAGA-AC-TG-ACAATCTTC-ATAAAACGGGTCCGCTCTCTATTCCTTCAGAGA
* *
6754899 GTATAGAACTCGGAAAATCTTTAATAAACAGGTCTGCTCCCTATTCTTTCAGAGAGTATAGGACT
62 GTATAGAACTC-GAAAATCTTTAATAAACAGGTCCGCTCCCTATTCCTTCAGAGAGTATAGGACT
* *
6754964 CAATCTTTA-ACAAACGTGTCCGCTCCCTATTCC
126 CAATCTTCATAC-AACGGGTCCGCTCCCTATTCC
6754997 TTCAGAGAGTATAGAACTCGAGCAATCTTCATAAAACGGGTCCGCTCTCTATTCCTTCAGAGAGT
1 TTCAGAGAGTATAGAACT-GA-CAATCTTCATAAAACGGGTCCGCTCTCTATTCCTTCAGAGAGT
* * * *
6755062 ATAGAACTCGAACAATCTTCAACAAAC-GTGTCCGCTCTCTATTCCTTCAGAGAGTATAGAACTC
64 ATAGAACTCGAA-AATCTTTAATAAACAG-GTCCGCTCCCTATTCCTTCAGAGAGTATAGGACT-
* *
6755126 GAACAATCTTCATGCAACGGGTCCGCTCTCTATTCC
126 ---CAATCTTCATACAACGGGTCCGCTCCCTATTCC
* * * ** * *
6755162 TTCAGAGAGTAAAGGACT--CAATCTTTA-ACAAACATGTCCGCTCCCTATTCTTTCAGAGAGTA
1 TTCAGAGAGTATAGAACTGACAATCTTCATA-AAACGGGTCCGCTCTCTATTCCTTCAGAGAGTA
* * *
6755224 TA-AGACTCG---ATCTTT-ATAAAATATGTCCGCTCCCTATTCCTTCAGAGAGTATAGGACTCG
65 TAGA-ACTCGAAAATCTTTAAT-AAACAGGTCCGCTCCCTATTCCTTCAGAGAGTATAGGACTCA
6755284 ATCTTCATA
128 ATCTTCATA
6755293 AAATGAGTTT
Statistics
Matches: 257, Mismatches: 25, Indels: 37
0.81 0.08 0.12
Matches are distributed among these distances:
153 9 0.04
156 1 0.00
157 40 0.16
160 6 0.02
161 132 0.51
162 24 0.09
163 1 0.00
165 43 0.17
166 1 0.00
ACGTcount: A:0.30, C:0.24, G:0.16, T:0.29
Consensus pattern (158 bp):
TTCAGAGAGTATAGAACTGACAATCTTCATAAAACGGGTCCGCTCTCTATTCCTTCAGAGAGTAT
AGAACTCGAAAATCTTTAATAAACAGGTCCGCTCCCTATTCCTTCAGAGAGTATAGGACTCAATC
TTCATACAACGGGTCCGCTCCCTATTCC
Found at i:6755193 original size:216 final size:217
Alignment explanation
Indices: 6754768--6755284 Score: 703
Period size: 216 Copynumber: 2.4 Consensus size: 217
6754758 TGACGAGCCT
* * **
6754768 GCTCCCTATTCCTTCAG-GAAGTATAAGGCTCGAACAATCTTCATAAAATGTGTATGCTCTCTAT
1 GCTCCCTATTCCTTCAGAG-AGTATAAGACTCGAGCAATCTTCATAAAATGTGTCCGCTCTCTAT
** *
6754832 TTATTCAGAGAGTATA-AGACTTGAACAATCTTCAATAAAACGGGTCCGCTCTCTATTCCTTCAG
65 TCCTTCAGAGAGTATAGA-ACTCGAACAATCTTCAATAAAACGGGTCCGCTCTCTATTCCTTCAG
* * *
6754896 AGAGTATAGAACTCGGAAAATCTTTAATAAACAGGTCTGCTCCCTATTCTTTCAGAGAGTATAGG
129 AGAGTATAGAACTCGGAAAATCTTTAATAAACAGGTCCGCTCCCTATTCCTTCAGAGAGTAAAGG
*
6754961 ACTCAATCTTTAACAAACGTGTCC
194 ACTCAATCTTTAACAAACATGTCC
* *
6754985 GCTCCCTATTCCTTCAGAGAGTAT-AGAACTCGAGCAATCTTCATAAAACGGGTCCGCTCTCTAT
1 GCTCCCTATTCCTTCAGAGAGTATAAG-ACTCGAGCAATCTTCATAAAATGTGTCCGCTCTCTAT
* *
6755049 TCCTTCAGAGAGTATAGAACTCGAACAATCTTCAA-CAAACGTGTCCGCTCTCTATTCCTTCAGA
65 TCCTTCAGAGAGTATAGAACTCGAACAATCTTCAATAAAACGGGTCCGCTCTCTATTCCTTCAGA
* * * *
6755113 GAGTATAGAACTC-GAACAATC-TTCATGCAACGGGTCCGCTCTCTATTCCTTCAGAGAGTAAAG
130 GAGTATAGAACTCGGAA-AATCTTTAAT-AAACAGGTCCGCTCCCTATTCCTTCAGAGAGTAAAG
6755176 GACTCAATCTTTAACAAACATGTCC
193 GACTCAATCTTTAACAAACATGTCC
* * * *
6755201 GCTCCCTATTCTTTCAGAGAGTATAAGACTC--G--ATCTTTATAAAATATGTCCGCTCCCTATT
1 GCTCCCTATTCCTTCAGAGAGTATAAGACTCGAGCAATCTTCATAAAATGTGTCCGCTCTCTATT
*
6755262 CCTTCAGAGAGTATAGGACTCGA
66 CCTTCAGAGAGTATAGAACTCGA
6755285 TCTTCATAAA
Statistics
Matches: 268, Mismatches: 26, Indels: 17
0.86 0.08 0.05
Matches are distributed among these distances:
212 46 0.17
214 1 0.00
215 7 0.03
216 127 0.47
217 85 0.32
218 2 0.01
ACGTcount: A:0.30, C:0.24, G:0.16, T:0.30
Consensus pattern (217 bp):
GCTCCCTATTCCTTCAGAGAGTATAAGACTCGAGCAATCTTCATAAAATGTGTCCGCTCTCTATT
CCTTCAGAGAGTATAGAACTCGAACAATCTTCAATAAAACGGGTCCGCTCTCTATTCCTTCAGAG
AGTATAGAACTCGGAAAATCTTTAATAAACAGGTCCGCTCCCTATTCCTTCAGAGAGTAAAGGAC
TCAATCTTTAACAAACATGTCC
Found at i:6755345 original size:37 final size:36
Alignment explanation
Indices: 6755299--6755370 Score: 108
Period size: 37 Copynumber: 2.0 Consensus size: 36
6755289 CATAAAATGA
*
6755299 GTTTGCTTCACTAATCTACCGTGAAGGCTTACAGATG
1 GTTTACTTCACTAATCTACCGTGAAGGCTTA-AGATG
* *
6755336 GTTTACTTCACTACTCTTCCGTGAAGGCTTAAGAT
1 GTTTACTTCACTAATCTACCGTGAAGGCTTAAGAT
6755371 TGACCTGTTT
Statistics
Matches: 32, Mismatches: 3, Indels: 1
0.89 0.08 0.03
Matches are distributed among these distances:
36 4 0.12
37 28 0.88
ACGTcount: A:0.24, C:0.22, G:0.19, T:0.35
Consensus pattern (36 bp):
GTTTACTTCACTAATCTACCGTGAAGGCTTAAGATG
Found at i:6756736 original size:47 final size:47
Alignment explanation
Indices: 6756672--6756785 Score: 124
Period size: 48 Copynumber: 2.4 Consensus size: 47
6756662 TTTTTCATTT
*
6756672 TTCTC-TTTTTTCATTTTTCATTTTTTCTTCTATTTTCCATTTTTCTC-
1 TTCTCTTTTTTTC-TTTTTCATTTTTTCATC-ATTTTCCATTTTTCTCA
** * *
6756719 TTCTCTTTTTTTCTTTTTGTTTTTTTCATCATTTTTCTTTTTTCTCA
1 TTCTCTTTTTTTCTTTTTCATTTTTTCATCATTTTCCATTTTTCTCA
* *
6756766 TTTTTCTTTTCTTCTTTTTC
1 -TTCTCTTTTTTTCTTTTTC
6756786 TTCTTCTCAT
Statistics
Matches: 56, Mismatches: 8, Indels: 5
0.81 0.12 0.07
Matches are distributed among these distances:
46 14 0.25
47 19 0.34
48 23 0.41
ACGTcount: A:0.06, C:0.19, G:0.01, T:0.74
Consensus pattern (47 bp):
TTCTCTTTTTTTCTTTTTCATTTTTTCATCATTTTCCATTTTTCTCA
Found at i:6756736 original size:55 final size:53
Alignment explanation
Indices: 6756664--6756831 Score: 171
Period size: 55 Copynumber: 3.1 Consensus size: 53
6756654 TCTCTTTTTT
* * *
6756664 TTTCATTTTTCTCTTTTTTCATTTTTCATTTTTTCTTCTATTTTCCATTTTTCTC
1 TTTC-TTTTTTTCTTTTTTCATTTTTCATTATTT-TTCTTTTTTCCATTTTTCTC
* *
6756719 TTCTCTTTTTTTCTTTTTGT-TTTTTTCATCATTTTTCTTTTTTCTCATTTTTCT-
1 TT-TCTTTTTTTCTTTTT-TCATTTTTCATTATTTTTCTTTTTTC-CATTTTTCTC
* *
6756773 TTTCTTCTTTTTCTTCTTCTCATTTTT-ATTATTTTTCATTTTTTTCATTTTTTCTC
1 TTTCTT-TTTTTCTT-TTTTCATTTTTCATTATTTTTC-TTTTTTCCA-TTTTTCTC
6756829 TTT
1 TTT
6756832 TATTTCTTCT
Statistics
Matches: 95, Mismatches: 9, Indels: 17
0.79 0.07 0.14
Matches are distributed among these distances:
53 4 0.04
54 31 0.33
55 54 0.57
56 6 0.06
ACGTcount: A:0.08, C:0.18, G:0.01, T:0.74
Consensus pattern (53 bp):
TTTCTTTTTTTCTTTTTTCATTTTTCATTATTTTTCTTTTTTCCATTTTTCTC
Found at i:6756770 original size:29 final size:28
Alignment explanation
Indices: 6756685--6756799 Score: 80
Period size: 31 Copynumber: 4.0 Consensus size: 28
6756675 TCTTTTTTCA
*
6756685 TTTTTCAT-TTTTTCTTCTATTTTCCATTTT
1 TTTTTCATCTTTTTCTTC--TTCT-CATTTT
*
6756715 TCTCTTC-TCTTTTT-TTCTT-T--TTGTT
1 T-TTTTCATCTTTTTCTTCTTCTCATT-TT
*
6756740 TTTTTCATCATTTTTCTTTTTTCTCATTTT
1 TTTTTCATC-TTTTTC-TTCTTCTCATTTT
*
6756770 TCTTTTCTTCTTTTTCTTCTTCTCATTTT
1 T-TTTTCATCTTTTTCTTCTTCTCATTTT
6756799 T
1 T
6756800 ATTATTTTTC
Statistics
Matches: 69, Mismatches: 5, Indels: 23
0.71 0.05 0.24
Matches are distributed among these distances:
24 6 0.09
25 5 0.07
26 5 0.07
27 1 0.01
28 6 0.09
29 14 0.20
30 14 0.20
31 18 0.26
ACGTcount: A:0.06, C:0.19, G:0.01, T:0.74
Consensus pattern (28 bp):
TTTTTCATCTTTTTCTTCTTCTCATTTT
Found at i:6756776 original size:45 final size:44
Alignment explanation
Indices: 6756662--6756815 Score: 129
Period size: 45 Copynumber: 3.5 Consensus size: 44
6756652 TTTCTCTTTT
* * * * *
6756662 TTTTTCATTTTTCTCTTTTTTCATTT-TTCATTTTTTCTTCT-A
1 TTTTTCTTTTTTCTCATTTTTCTTTTCTTCTTTTTTTTTTCTCA
* * *
6756704 TTTTCCATTTTTCTC-TTCTCTTTTTTTCTT-TTTGTTTTTTTCATCA
1 TTTTTCTTTTTTCTCATT-T-TTCTTTTCTTCTTT-TTTTTTTC-TCA
*
6756750 TTTTTCTTTTTTCTCATTTTTCTTTTCTTCTTTTTCTTCTTCTCA
1 TTTTTCTTTTTTCTCATTTTTCTTTTCTTCTTTTT-TTTTTCTCA
*
6756795 TTTTTATTATTTT-TCATTTTT
1 TTTTTCTT-TTTTCTCATTTTT
6756816 TTCATTTTTT
Statistics
Matches: 92, Mismatches: 10, Indels: 17
0.77 0.08 0.14
Matches are distributed among these distances:
41 2 0.02
42 15 0.16
43 7 0.08
44 9 0.10
45 30 0.33
46 27 0.29
47 2 0.02
ACGTcount: A:0.08, C:0.18, G:0.01, T:0.74
Consensus pattern (44 bp):
TTTTTCTTTTTTCTCATTTTTCTTTTCTTCTTTTTTTTTTCTCA
Found at i:6766556 original size:45 final size:45
Alignment explanation
Indices: 6766489--6766622 Score: 205
Period size: 45 Copynumber: 2.9 Consensus size: 45
6766479 CCATGCTTTG
* *
6766489 TTATTCACAAAAATAAATCCTAACCGCATGATATCTAATTCGCATAC
1 TTATTCA-AAAAATAAA-CCTAACCACATGATATCTAGTTCGCATAC
*
6766536 TTATTCAAAAAATAAACCTAACCACATGATATCTAGTTCGCATGC
1 TTATTCAAAAAATAAACCTAACCACATGATATCTAGTTCGCATAC
* *
6766581 TTGTTCGAAAAATAAACCTAACCACATGATATCTAGTTCGCA
1 TTATTCAAAAAATAAACCTAACCACATGATATCTAGTTCGCA
6766623 AGCATTTATT
Statistics
Matches: 82, Mismatches: 5, Indels: 2
0.92 0.06 0.02
Matches are distributed among these distances:
45 66 0.80
46 9 0.11
47 7 0.09
ACGTcount: A:0.40, C:0.22, G:0.09, T:0.29
Consensus pattern (45 bp):
TTATTCAAAAAATAAACCTAACCACATGATATCTAGTTCGCATAC
Found at i:6772627 original size:21 final size:21
Alignment explanation
Indices: 6772603--6772643 Score: 64
Period size: 21 Copynumber: 2.0 Consensus size: 21
6772593 ATCATCCCCA
* *
6772603 TCATCAGCCATGTCATCATCC
1 TCATCACCCATATCATCATCC
6772624 TCATCACCCATATCATCATC
1 TCATCACCCATATCATCATC
6772644 TGCCCTATTC
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
21 18 1.00
ACGTcount: A:0.27, C:0.39, G:0.05, T:0.29
Consensus pattern (21 bp):
TCATCACCCATATCATCATCC
Found at i:6778166 original size:15 final size:16
Alignment explanation
Indices: 6778134--6778166 Score: 50
Period size: 15 Copynumber: 2.1 Consensus size: 16
6778124 TAAATCTTTC
6778134 TTTCCCGTTCTAGATT
1 TTTCCCGTTCTAGATT
*
6778150 TTTCCCG-TCTGGATT
1 TTTCCCGTTCTAGATT
6778165 TT
1 TT
6778167 GATCTGCCAC
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
15 9 0.56
16 7 0.44
ACGTcount: A:0.09, C:0.24, G:0.15, T:0.52
Consensus pattern (16 bp):
TTTCCCGTTCTAGATT
Found at i:6778933 original size:15 final size:15
Alignment explanation
Indices: 6778909--6778939 Score: 53
Period size: 15 Copynumber: 2.1 Consensus size: 15
6778899 GTATCGCCGA
*
6778909 CCGAATTTCACTATT
1 CCGAAATTCACTATT
6778924 CCGAAATTCACTATT
1 CCGAAATTCACTATT
6778939 C
1 C
6778940 ACGTGAATAG
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
15 15 1.00
ACGTcount: A:0.29, C:0.29, G:0.06, T:0.35
Consensus pattern (15 bp):
CCGAAATTCACTATT
Found at i:6781747 original size:21 final size:21
Alignment explanation
Indices: 6781696--6781851 Score: 68
Period size: 21 Copynumber: 7.5 Consensus size: 21
6781686 ATTATGACTA
*
6781696 TCGCAATGTGATTTT-CCAATT
1 TCGCAATGCGATTTTCCCAA-T
**
6781717 TCGCGTTGCGATTTTCCCAAT
1 TCGCAATGCGATTTTCCCAAT
* ** *
6781738 TCGCAATGCGAATTAT-GAAAA
1 TCGCAATGCG-ATTTTCCCAAT
** ** *
6781759 TCGCAATGCGATACTGACTA-
1 TCGCAATGCGATTTTCCCAAT
* *
6781779 TCGCAATGCAATTTTCCTAAT
1 TCGCAATGCGATTTTCCCAAT
* * **
6781800 TCGCATTGCGA-TTTACGTAT
1 TCGCAATGCGATTTTCCCAAT
** **
6781820 TCGCGTTGCGATTTTCATAAT
1 TCGCAATGCGATTTTCCCAAT
6781841 TCGCAATGCGA
1 TCGCAATGCGA
6781852 ATACGTAAAT
Statistics
Matches: 97, Mismatches: 33, Indels: 10
0.69 0.24 0.07
Matches are distributed among these distances:
20 32 0.33
21 57 0.59
22 8 0.08
ACGTcount: A:0.26, C:0.22, G:0.18, T:0.35
Consensus pattern (21 bp):
TCGCAATGCGATTTTCCCAAT
Found at i:6781804 original size:41 final size:41
Alignment explanation
Indices: 6781736--6781851 Score: 103
Period size: 41 Copynumber: 2.8 Consensus size: 41
6781726 GATTTTCCCA
* * *
6781736 ATTCGCAATGCGAATTATGA-AAATCGCAATGCGATACTGAC-T
1 ATTCGCAATGC-AATTTTCATAATTCGCAATGCGAT--TGACGT
* * *
6781778 A-TCGCAATGCAATTTTCCTAATTCGCATTGCGATTTACGT
1 ATTCGCAATGCAATTTTCATAATTCGCAATGCGATTGACGT
** *
6781818 ATTCGCGTTGCGATTTTCATAATTCGCAATGCGA
1 ATTCGCAATGCAATTTTCATAATTCGCAATGCGA
6781852 ATACGTAAAT
Statistics
Matches: 60, Mismatches: 11, Indels: 7
0.77 0.14 0.09
Matches are distributed among these distances:
39 3 0.05
40 7 0.12
41 49 0.82
42 1 0.02
ACGTcount: A:0.28, C:0.21, G:0.18, T:0.33
Consensus pattern (41 bp):
ATTCGCAATGCAATTTTCATAATTCGCAATGCGATTGACGT
Found at i:6781866 original size:20 final size:20
Alignment explanation
Indices: 6781841--6781952 Score: 118
Period size: 20 Copynumber: 5.5 Consensus size: 20
6781831 TTTTCATAAT
6781841 TCGCAATGCGAATACGTAAA
1 TCGCAATGCGAATACGTAAA
* * *
6781861 TCGCAACGCGATTAAGTAAA
1 TCGCAATGCGAATACGTAAA
* *
6781881 TCGCAATGCGAATTAGGAAAA
1 TCGCAATGCGAA-TACGTAAA
*
6781902 TTGCAATGCGAATACGTAAA
1 TCGCAATGCGAATACGTAAA
* * *
6781922 TCGCAATGGGAAT-CTTACTA
1 TCGCAATGCGAATACGTA-AA
6781942 TCGCAATGCGA
1 TCGCAATGCGA
6781953 TTTACATAGG
Statistics
Matches: 75, Mismatches: 15, Indels: 4
0.80 0.16 0.04
Matches are distributed among these distances:
19 3 0.04
20 55 0.73
21 17 0.23
ACGTcount: A:0.38, C:0.19, G:0.21, T:0.22
Consensus pattern (20 bp):
TCGCAATGCGAATACGTAAA
Found at i:6781872 original size:41 final size:41
Alignment explanation
Indices: 6781759--6781873 Score: 110
Period size: 41 Copynumber: 2.8 Consensus size: 41
6781749 ATTATGAAAA
* *
6781759 TCGCAATGCGATACTGAC-T-ATCGCAATGCAATTTTCCTAAT
1 TCGCAATGCGATA-T-ACGTAATCGCAATGCGATTTTCATAAT
* * * **
6781800 TCGCATTGCGATTTACGTATTCGCGTTGCGATTTTCATAAT
1 TCGCAATGCGATATACGTAATCGCAATGCGATTTTCATAAT
*
6781841 TCGCAATGCGA-ATACGTAAATCGCAACGCGATT
1 TCGCAATGCGATATACGT-AATCGCAATGCGATT
6781874 AAGTAAATCG
Statistics
Matches: 58, Mismatches: 13, Indels: 6
0.75 0.17 0.08
Matches are distributed among these distances:
39 2 0.03
40 7 0.12
41 49 0.84
ACGTcount: A:0.27, C:0.23, G:0.18, T:0.32
Consensus pattern (41 bp):
TCGCAATGCGATATACGTAATCGCAATGCGATTTTCATAAT
Found at i:6781929 original size:41 final size:41
Alignment explanation
Indices: 6781841--6781934 Score: 118
Period size: 41 Copynumber: 2.3 Consensus size: 41
6781831 TTTTCATAAT
* *
6781841 TCGCAATGCGAA-TACGTAAATCGCAACGCGATTAAGTAAA
1 TCGCAATGCGAATTACGAAAATCGCAACGCGAATAAGTAAA
* * * *
6781881 TCGCAATGCGAATTAGGAAAATTGCAATGCGAATACGTAAA
1 TCGCAATGCGAATTACGAAAATCGCAACGCGAATAAGTAAA
*
6781922 TCGCAATGGGAAT
1 TCGCAATGCGAAT
6781935 CTTACTATCG
Statistics
Matches: 46, Mismatches: 7, Indels: 1
0.85 0.13 0.02
Matches are distributed among these distances:
40 12 0.26
41 34 0.74
ACGTcount: A:0.39, C:0.17, G:0.22, T:0.21
Consensus pattern (41 bp):
TCGCAATGCGAATTACGAAAATCGCAACGCGAATAAGTAAA
Found at i:6782521 original size:19 final size:19
Alignment explanation
Indices: 6782472--6782542 Score: 81
Period size: 19 Copynumber: 3.7 Consensus size: 19
6782462 TAGTTTCGAG
*
6782472 AATGAAAATCGCAACGTGGA
1 AATGAAAATCGCAACG-CGA
*
6782492 AAT-AACTATCGCAACGCGA
1 AATGAA-AATCGCAACGCGA
6782511 AATGAAAATCGCAACGCGA
1 AATGAAAATCGCAACGCGA
**
6782530 AACCAAAATCGCA
1 AATGAAAATCGCA
6782543 TTGCGATTTT
Statistics
Matches: 44, Mismatches: 5, Indels: 5
0.81 0.09 0.09
Matches are distributed among these distances:
19 30 0.68
20 14 0.32
ACGTcount: A:0.46, C:0.23, G:0.18, T:0.13
Consensus pattern (19 bp):
AATGAAAATCGCAACGCGA
Found at i:6782591 original size:33 final size:33
Alignment explanation
Indices: 6782554--6782636 Score: 139
Period size: 33 Copynumber: 2.5 Consensus size: 33
6782544 TGCGATTTTT
* *
6782554 ATTTCGCGTTGTGATTCTCTCGTTGCGATAGTC
1 ATTTCGCGTTGCGATTCTCTCGTTACGATAGTC
6782587 ATTTCGCGTTGCGATTCTCTCGTTACGATAGTC
1 ATTTCGCGTTGCGATTCTCTCGTTACGATAGTC
6782620 ATTTCCGCGTTGCGATT
1 ATTT-CGCGTTGCGATT
6782637 TTCATTATCT
Statistics
Matches: 47, Mismatches: 2, Indels: 1
0.94 0.04 0.02
Matches are distributed among these distances:
33 35 0.74
34 12 0.26
ACGTcount: A:0.13, C:0.23, G:0.23, T:0.41
Consensus pattern (33 bp):
ATTTCGCGTTGCGATTCTCTCGTTACGATAGTC
Found at i:6782641 original size:20 final size:20
Alignment explanation
Indices: 6782618--6782664 Score: 69
Period size: 20 Copynumber: 2.4 Consensus size: 20
6782608 GTTACGATAG
6782618 TCATTTCCGCGTTGCGATTT
1 TCATTTCCGCGTTGCGATTT
*
6782638 TCATTAT-CTCGTTGCGATTT
1 TCATT-TCCGCGTTGCGATTT
6782658 TCATTTC
1 TCATTTC
6782665 AACCAAAAGA
Statistics
Matches: 24, Mismatches: 1, Indels: 4
0.83 0.03 0.14
Matches are distributed among these distances:
19 1 0.04
20 22 0.92
21 1 0.04
ACGTcount: A:0.13, C:0.23, G:0.15, T:0.49
Consensus pattern (20 bp):
TCATTTCCGCGTTGCGATTT
Found at i:6783991 original size:21 final size:20
Alignment explanation
Indices: 6783920--6783992 Score: 62
Period size: 21 Copynumber: 3.6 Consensus size: 20
6783910 CTCCACTTCG
6783920 AGAGCCATCACCTCAC--CC
1 AGAGCCATCACCTCACGACC
*
6783938 AGAGCCATCACCTGATCGACC
1 AGAGCCATCACCTCA-CGACC
* * *
6783959 CGA-CTATACACCTCTACGACG
1 AGAGCCAT-CACCTC-ACGACC
6783980 AGAGCCATCACCT
1 AGAGCCATCACCT
6783993 ATCCCGTCAC
Statistics
Matches: 42, Mismatches: 7, Indels: 9
0.72 0.12 0.16
Matches are distributed among these distances:
18 14 0.33
19 1 0.02
20 3 0.07
21 20 0.48
22 4 0.10
ACGTcount: A:0.29, C:0.41, G:0.15, T:0.15
Consensus pattern (20 bp):
AGAGCCATCACCTCACGACC
Found at i:6786244 original size:14 final size:14
Alignment explanation
Indices: 6786225--6786260 Score: 63
Period size: 14 Copynumber: 2.6 Consensus size: 14
6786215 ATTGTTTAAT
6786225 TGATTTGTAAAAGG
1 TGATTTGTAAAAGG
*
6786239 TGATTTGTAAAAGT
1 TGATTTGTAAAAGG
6786253 TGATTTGT
1 TGATTTGT
6786261 TTAATTGATG
Statistics
Matches: 21, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
14 21 1.00
ACGTcount: A:0.31, C:0.00, G:0.25, T:0.44
Consensus pattern (14 bp):
TGATTTGTAAAAGG
Found at i:6786389 original size:19 final size:18
Alignment explanation
Indices: 6786367--6786442 Score: 70
Period size: 19 Copynumber: 4.3 Consensus size: 18
6786357 AAAAATTACT
6786367 ATCGCAATGCGAAATGAAA
1 ATCGCAATGCGAAAT-AAA
*
6786386 ATCGCAA--CG--ACAAA
1 ATCGCAATGCGAAATAAA
*
6786400 ATCGCAACGCGAAACTAAA
1 ATCGCAATGCGAAA-TAAA
6786419 ATCGCAATGCGAAACTAAA
1 ATCGCAATGCGAAA-TAAA
*
6786438 TTCGC
1 ATCGC
6786443 GTTGCAATTT
Statistics
Matches: 48, Mismatches: 4, Indels: 10
0.77 0.06 0.16
Matches are distributed among these distances:
14 10 0.21
15 1 0.02
16 2 0.04
17 2 0.04
18 1 0.02
19 32 0.67
ACGTcount: A:0.45, C:0.24, G:0.17, T:0.14
Consensus pattern (18 bp):
ATCGCAATGCGAAATAAA
Found at i:6786486 original size:33 final size:33
Alignment explanation
Indices: 6786442--6786568 Score: 182
Period size: 33 Copynumber: 3.8 Consensus size: 33
6786432 ACTAAATTCG
* * *
6786442 CGTTGCAATTTTCATTTCTCTTTGGGATTCCCT
1 CGTTGCAATTTTCATTTCGCATTGCGATTCCCT
* *
6786475 CGTTGCGATTTTCATTTCGCATTGCGATTCTCT
1 CGTTGCAATTTTCATTTCGCATTGCGATTCCCT
*
6786508 CGTTGCAATTTTCATTTCGCATTGCGATTACCT
1 CGTTGCAATTTTCATTTCGCATTGCGATTCCCT
* *
6786541 CGTTGCGATTTTTATTTCGCATTGCGAT
1 CGTTGCAATTTTCATTTCGCATTGCGAT
6786569 AGTAATTTCC
Statistics
Matches: 84, Mismatches: 10, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
33 84 1.00
ACGTcount: A:0.14, C:0.23, G:0.17, T:0.46
Consensus pattern (33 bp):
CGTTGCAATTTTCATTTCGCATTGCGATTCCCT
Done.