Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: VEPZ01006423.1 Hibiscus syriacus cultivar Beakdansim tig00015498_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: 772901
ACGTcount: A:0.33, C:0.17, G:0.17, T:0.33
File 1 of 4
Found at i:3781 original size:21 final size:22
Alignment explanation
Indices: 3749--3790 Score: 61
Period size: 21 Copynumber: 2.0 Consensus size: 22
3739 GTATGTATTT
3749 TTTAAAATTAATTAA-TTAAAA
1 TTTAAAATTAATTAAGTTAAAA
3770 TTTATAAA-TAATTAAGTTAAA
1 TTTA-AAATTAATTAAGTTAAA
3791 GTTTTTCCAA
Statistics
Matches: 19, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
21 11 0.58
22 8 0.42
ACGTcount: A:0.55, C:0.00, G:0.02, T:0.43
Consensus pattern (22 bp):
TTTAAAATTAATTAAGTTAAAA
Found at i:5477 original size:26 final size:26
Alignment explanation
Indices: 5440--5493 Score: 99
Period size: 26 Copynumber: 2.1 Consensus size: 26
5430 ATTTTGAGGG
5440 TGTTAAAACTTGGATCATCTGATGAC
1 TGTTAAAACTTGGATCATCTGATGAC
*
5466 TGTTAAAGCTTGGATCATCTGATGAC
1 TGTTAAAACTTGGATCATCTGATGAC
5492 TG
1 TG
5494 ATATTATGGT
Statistics
Matches: 27, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
26 27 1.00
ACGTcount: A:0.28, C:0.15, G:0.22, T:0.35
Consensus pattern (26 bp):
TGTTAAAACTTGGATCATCTGATGAC
Found at i:17653 original size:2 final size:2
Alignment explanation
Indices: 17629--17676 Score: 68
Period size: 2 Copynumber: 26.0 Consensus size: 2
17619 GTAAAATTTA
17629 AT AT A- AT AT -T AT A- AT AT -T 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 AT AT AT
17667 AT AT AT AT AT
1 AT AT AT AT AT
17677 GTAGACACTC
Statistics
Matches: 42, Mismatches: 0, Indels: 8
0.84 0.00 0.16
Matches are distributed among these distances:
1 4 0.10
2 38 0.90
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:17779 original size:37 final size:37
Alignment explanation
Indices: 17724--18059 Score: 192
Period size: 39 Copynumber: 9.3 Consensus size: 37
17714 TTCTACATAT
* *
17724 ATATATATATACAGTATATAGTTTGAAAACATTTTTAAT
1 ATATATATATA-A-TATATAGTTTGAAAACATTTTGAAA
*
17763 ATATATATATAATATATAATTTTGAAAAGCATGTTTGAAA
1 ATATATATATAATATAT-AGTTTGAAAA-CAT-TTTGAAA
* * * * *
17803 ACATTTATAT-TTATATAGTTCTTAAGACATTTTGAAA
1 ATATATATATAATATATAGTT-TGAAAACATTTTGAAA
* *
17840 AT-TA-ATATAATATATGGTTGTCAAAACATTTTGAAA
1 ATATATATATAATATATAGTT-TGAAAACATTTTGAAA
*
17876 ATATATATAT-ATAGT-T--TTTAAAAACATTTTGAAA
1 ATATATATATAATA-TATAGTTTGAAAACATTTTGAAA
* *
17910 AT-TA-ATATAATATATAGTTTTTAAAATATTTTG-AA
1 ATATATATATAATATATAG-TTTGAAAACATTTTGAAA
* * *
17945 A-ATACATGT--TATATAGTTTTTAAAACATTTT--AA
1 ATATATATATAATATATAG-TTTGAAAACATTTTGAAA
* **
17978 A-A-ATATATAGT-T-T--TTAAAAAACATTTTGAAA
1 ATATATATATAATATATAGTTTGAAAACATTTTGAAA
* * * *
18009 ACATAAATATATTATATAGTTTTTGAAATCATTTTGAAA
1 ATATATATATAATATATAG--TTTGAAAACATTTTGAAA
*
18048 ACATATAATATA
1 ATATAT-ATATA
18060 TAGTTTTAAA
Statistics
Matches: 238, Mismatches: 31, Indels: 55
0.73 0.10 0.17
Matches are distributed among these distances:
29 12 0.05
31 3 0.01
32 11 0.05
33 18 0.08
34 40 0.17
35 12 0.05
36 41 0.17
37 19 0.08
38 21 0.09
39 43 0.18
40 18 0.08
ACGTcount: A:0.45, C:0.04, G:0.07, T:0.43
Consensus pattern (37 bp):
ATATATATATAATATATAGTTTGAAAACATTTTGAAA
Found at i:17869 original size:36 final size:36
Alignment explanation
Indices: 17749--18071 Score: 169
Period size: 36 Copynumber: 9.1 Consensus size: 36
17739 ATATAGTTTG
* * **
17749 AAAACATTTTTAATATATATATATAATATATAATTTTGA
1 AAAACATTTTGAAAAT-TA-ATATAATATATGGTTTT-A
* * * *
17788 AAAGCATGTTTGAAAACATTTATAT-TTATATAGTTCTT-
1 AAAACAT-TTTG-AAA-ATTAATATAATATATGGTT-TTA
* * *
17826 AAGACATTTTGAAAATTAATATAATATATGGTTGTC
1 AAAACATTTTGAAAATTAATATAATATATGGTTTTA
*
17862 AAAACATTTTGAAAA-T-ATAT-ATATATAGTTTTTA
1 AAAACATTTTGAAAATTAATATAATATAT-GGTTTTA
* *
17896 AAAACATTTTGAAAATTAATATAATATATAGTTTTT
1 AAAACATTTTGAAAATTAATATAATATATGGTTTTA
* * * *
17932 AAAATATTTTGAAAA-TACATGT--TATATAGTTTTT
1 AAAACATTTTGAAAATTA-ATATAATATATGGTTTTA
*
17966 AAAACATTTT--AAA--AATAT-ATAGT-T--TTTAA
1 AAAACATTTTGAAAATTAATATAATA-TATGGTTTTA
* * * *
17995 AAAACATTTTGAAAACATAAATATATTATATAGTTTTTG
1 AAAACATTTTG-AAA-ATTAATATAATATAT-GGTTTTA
* * *
18034 AAATCATTTTGAAAA--CATATAATATATAGTTTTA
1 AAAACATTTTGAAAATTAATATAATATATGGTTTTA
18068 AAAA
1 AAAA
18072 AACATTTTTA
Statistics
Matches: 225, Mismatches: 35, Indels: 53
0.72 0.11 0.17
Matches are distributed among these distances:
29 13 0.06
30 3 0.01
31 4 0.02
32 6 0.03
33 7 0.03
34 51 0.23
35 28 0.12
36 53 0.24
37 11 0.05
38 8 0.04
39 27 0.12
40 9 0.04
41 3 0.01
42 2 0.01
ACGTcount: A:0.46, C:0.04, G:0.07, T:0.43
Consensus pattern (36 bp):
AAAACATTTTGAAAATTAATATAATATATGGTTTTA
Found at i:17882 original size:34 final size:34
Alignment explanation
Indices: 17767--18169 Score: 276
Period size: 34 Copynumber: 11.6 Consensus size: 34
17757 TTTAATATAT
* *
17767 ATATATAATATATAATTTTGAAAAGCATGTTTGAAAA
1 ATATATAATATATAGTTTTTAAAA-CAT-TTTG-AAA
* * * *
17804 CATTTATATTTATATAGTTCTTAAGACATTTTGAAA
1 -ATATATA-ATATATAGTTTTTAAAACATTTTGAAA
* * *
17840 ATTAATATAATATATGGTTGTCAAAACATTTTGAAA
1 A-T-ATATAATATATAGTTTTTAAAACATTTTGAAA
17876 ATATAT-ATATATAGTTTTTAAAAACATTTTGAAA
1 ATATATAATATATAGTTTTT-AAAACATTTTGAAA
*
17910 ATTAATATAATATATAGTTTTTAAAATATTTTGAAA
1 A-T-ATATAATATATAGTTTTTAAAACATTTTGAAA
* **
17946 ATACATGTTATATAGTTTTTAAAACATTTT----
1 ATATATAATATATAGTTTTTAAAACATTTTGAAA
17976 A-A-A-AATATATAGTTTTTAAAAAACATTTTGAAAA
1 ATATATAATATATAGTTTTT--AAAACATTTTG-AAA
* *
18010 CATAAATATATTATATAGTTTTTGAAATCATTTTGAAA
1 -AT--ATATAATATATAGTTTTT-AAAACATTTTGAAA
* * *
18048 ACATATAATATATAGTTTTAAAAAAACATTTTTAAA
1 ATATATAATATATAGTTTT--TAAAACATTTTGAAA
*
18084 A-A-ACT-ATATA-A-TTTTGAAAACATTTTTAGAAA
1 ATATA-TAATATATAGTTTTTAAAACA-TTTT-GAAA
* * * *
18116 GTATATAATATATA-ATTTTAAAATATTTTTAAA
1 ATATATAATATATAGTTTTTAAAACATTTTGAAA
*
18149 AGTATATATTATATAAGTTTT
1 A-TATATAATATAT-AGTTTT
18170 GGGAAAATAT
Statistics
Matches: 293, Mismatches: 40, Indels: 66
0.73 0.10 0.17
Matches are distributed among these distances:
27 12 0.04
28 1 0.00
29 11 0.04
30 7 0.02
31 4 0.01
32 7 0.02
33 16 0.05
34 70 0.24
35 33 0.11
36 61 0.21
37 22 0.08
38 13 0.04
39 23 0.08
40 13 0.04
ACGTcount: A:0.46, C:0.04, G:0.07, T:0.43
Consensus pattern (34 bp):
ATATATAATATATAGTTTTTAAAACATTTTGAAA
Found at i:17919 original size:70 final size:69
Alignment explanation
Indices: 17738--18169 Score: 273
Period size: 70 Copynumber: 6.2 Consensus size: 69
17728 ATATATACAG
* * * * * *
17738 TATATAG-TTTGAAAACATTTTTAATATATATATATAATATATAATTTTGAAAAGCATGTTTGAA
1 TATATAGTTTTTAAAACATTTTGAAAAT-TA-ATATAATATATAGTTGTCAAAA-CAT-TTTG-A
17802 AACATTTATATT
61 AA-A--TATATT
* * *
17814 TATATAGTTCTTAAGACATTTTGAAAATTAATATAATATATGGTTGTCAAAACATTTTGAAAATA
1 TATATAGTTTTTAAAACATTTTGAAAATTAATATAATATATAGTTGTCAAAACATTTTGAAAATA
*
17879 TATA
66 TATT
* * *
17883 TATATAGTTTTTAAAAACATTTTGAAAATTAATATAATATATAGTTTTTAAAATATTTTGAAAAT
1 TATATAGTTTTT-AAAACATTTTGAAAATTAATATAATATATAGTTGTCAAAACATTTTGAAAAT
*
17948 ACATGT
65 ATAT-T
* * **
17954 TATATAGTTTTTAAAACATTTT-AAAAAT-ATATAGT-T-T--TT-AAAAAACATTTTGAAAACA
1 TATATAGTTTTTAAAACATTTTGAAAATTAATATAATATATAGTTGTCAAAACATTTTG-AAA-A
18012 TAAATATAT
64 T--ATAT-T
* * * * *
18021 TATATAGTTTTTGAAATCATTTTGAAAA--CATATAATATATAGTTTTAAAAAAACATTTTTAAA
1 TATATAGTTTTT-AAAACATTTTGAAAATTAATATAATATATAGTTGT--CAAAACATTTTGAAA
*
18084 A-A-A-C
63 ATATATT
* * * * * * * *
18088 TATATAATTTTGAAAACATTTTTAGAAAGT-ATATAATATATAATT-TTAAAATATTTTTAAAAG
1 TATATAGTTTTTAAAACATTTTGA-AAATTAATATAATATATAGTTGTCAAAACATTTTGAAAA-
18151 TATATAT
64 TATAT-T
18158 TATATAAGTTTT
1 TATAT-AGTTTT
18170 GGGAAAATAT
Statistics
Matches: 291, Mismatches: 39, Indels: 57
0.75 0.10 0.15
Matches are distributed among these distances:
63 10 0.03
64 5 0.02
65 16 0.05
66 11 0.04
67 32 0.11
68 36 0.12
69 27 0.09
70 67 0.23
71 18 0.06
72 5 0.02
73 5 0.02
74 6 0.02
75 29 0.10
76 9 0.03
77 15 0.05
ACGTcount: A:0.46, C:0.04, G:0.07, T:0.44
Consensus pattern (69 bp):
TATATAGTTTTTAAAACATTTTGAAAATTAATATAATATATAGTTGTCAAAACATTTTGAAAATA
TATT
Found at i:18130 original size:36 final size:35
Alignment explanation
Indices: 18015--18170 Score: 128
Period size: 35 Copynumber: 4.5 Consensus size: 35
18005 GAAAACATAA
* * * * *
18015 ATATATTATATAGTTTTTGAAATCATTTTGAAAA-C
1 ATATAATATATA-ATTTTGAAAACATTTTTAAAAGT
* *
18050 ATATAATATATAGTTTTAAAAAAACATTTTT-AAA--
1 ATATAATATATAATTTT--GAAAACATTTTTAAAAGT
*
18084 A-A-ACTATATAATTTTGAAAACATTTTTAGAAAGT
1 ATATAATATATAATTTTGAAAACATTTTTA-AAAGT
*
18118 ATATAATATATAATTTT-AAAATATTTTTAAAAGT
1 ATATAATATATAATTTTGAAAACATTTTTAAAAGT
*
18152 ATATATTATATAAGTTTTG
1 ATATAATATATAA-TTTTG
18171 GGAAAATATT
Statistics
Matches: 100, Mismatches: 11, Indels: 19
0.77 0.08 0.15
Matches are distributed among these distances:
30 11 0.11
32 14 0.14
33 1 0.01
34 23 0.23
35 30 0.30
36 21 0.21
ACGTcount: A:0.46, C:0.03, G:0.06, T:0.44
Consensus pattern (35 bp):
ATATAATATATAATTTTGAAAACATTTTTAAAAGT
Found at i:23606 original size:15 final size:16
Alignment explanation
Indices: 23583--23612 Score: 53
Period size: 15 Copynumber: 1.9 Consensus size: 16
23573 TACACCCTTT
23583 AAATATAATAAATTAA
1 AAATATAATAAATTAA
23599 AAAT-TAATAAATTA
1 AAATATAATAAATTA
23613 GTATGAAAAT
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
15 10 0.71
16 4 0.29
ACGTcount: A:0.67, C:0.00, G:0.00, T:0.33
Consensus pattern (16 bp):
AAATATAATAAATTAA
Found at i:23853 original size:28 final size:27
Alignment explanation
Indices: 23804--23857 Score: 65
Period size: 28 Copynumber: 2.0 Consensus size: 27
23794 ACTAATTTAT
23804 CAAACATGTAATCATATGTAAATAATAC
1 CAAACATGTAATCATATGTAAA-AATAC
* *
23832 CAAATATGTATATTATAT-TAAAAATA
1 CAAACATGTA-ATCATATGTAAAAATA
23858 TATTTTAATA
Statistics
Matches: 23, Mismatches: 2, Indels: 3
0.82 0.07 0.11
Matches are distributed among these distances:
27 4 0.17
28 13 0.57
29 6 0.26
ACGTcount: A:0.52, C:0.09, G:0.06, T:0.33
Consensus pattern (27 bp):
CAAACATGTAATCATATGTAAAAATAC
Found at i:33101 original size:13 final size:12
Alignment explanation
Indices: 33068--33104 Score: 56
Period size: 12 Copynumber: 3.0 Consensus size: 12
33058 CACAGATCGG
33068 TAAAACATCTCC
1 TAAAACATCTCC
33080 TAAAACATCTCC
1 TAAAACATCTCC
*
33092 TATTAACATCTCC
1 TA-AAACATCTCC
33105 AAAGTAACTT
Statistics
Matches: 23, Mismatches: 1, Indels: 1
0.92 0.04 0.04
Matches are distributed among these distances:
12 14 0.61
13 9 0.39
ACGTcount: A:0.38, C:0.32, G:0.00, T:0.30
Consensus pattern (12 bp):
TAAAACATCTCC
Found at i:34012 original size:14 final size:16
Alignment explanation
Indices: 33989--34022 Score: 54
Period size: 15 Copynumber: 2.2 Consensus size: 16
33979 CTTCTAAACC
33989 AAAAATCAATAA-AAT
1 AAAAATCAATAACAAT
34004 AAAAA-CAATAACAAT
1 AAAAATCAATAACAAT
34019 AAAA
1 AAAA
34023 CAAGGACACC
Statistics
Matches: 18, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
14 6 0.33
15 12 0.67
ACGTcount: A:0.76, C:0.09, G:0.00, T:0.15
Consensus pattern (16 bp):
AAAAATCAATAACAAT
Found at i:35742 original size:31 final size:31
Alignment explanation
Indices: 35705--35763 Score: 109
Period size: 31 Copynumber: 1.9 Consensus size: 31
35695 TTTTGAGTGA
*
35705 TAACCTAATATTACGCCCTTTGTGCTTTTCT
1 TAACCTAATATTACGCCCTTTGTCCTTTTCT
35736 TAACCTAATATTACGCCCTTTGTCCTTT
1 TAACCTAATATTACGCCCTTTGTCCTTT
35764 GCCAAATCTT
Statistics
Matches: 27, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
31 27 1.00
ACGTcount: A:0.20, C:0.27, G:0.08, T:0.44
Consensus pattern (31 bp):
TAACCTAATATTACGCCCTTTGTCCTTTTCT
Found at i:37352 original size:20 final size:21
Alignment explanation
Indices: 37327--37378 Score: 61
Period size: 21 Copynumber: 2.5 Consensus size: 21
37317 TTTTCCCAAT
*
37327 TCGCAATGCGAA-TAAGTAAA
1 TCGCAATGCGAATTAAGAAAA
* **
37347 TCGCAACGCGAATTGGGAAAA
1 TCGCAATGCGAATTAAGAAAA
37368 TCGCAATGCGA
1 TCGCAATGCGA
37379 TACTGACTAT
Statistics
Matches: 26, Mismatches: 5, Indels: 1
0.81 0.16 0.03
Matches are distributed among these distances:
20 11 0.42
21 15 0.58
ACGTcount: A:0.38, C:0.19, G:0.25, T:0.17
Consensus pattern (21 bp):
TCGCAATGCGAATTAAGAAAA
Found at i:37392 original size:20 final size:20
Alignment explanation
Indices: 37367--37480 Score: 113
Period size: 20 Copynumber: 5.7 Consensus size: 20
37357 AATTGGGAAA
37367 ATCGCAATGCGATACTGACT
1 ATCGCAATGCGATACTGACT
* *
37387 ATCGCAATACGATACTTACT
1 ATCGCAATGCGATACTGACT
* *
37407 ATCGCAATGCGATAAT-ACAAA
1 ATCGCAATGCGATACTGAC--T
* *
37428 ATCGCAACGAGATACTGACT
1 ATCGCAATGCGATACTGACT
* *
37448 TTCGCAATGCGATTCTGACT
1 ATCGCAATGCGATACTGACT
* *
37468 TTCGCAACGCGAT
1 ATCGCAATGCGAT
37481 TTACATAGCG
Statistics
Matches: 77, Mismatches: 14, Indels: 6
0.79 0.14 0.06
Matches are distributed among these distances:
19 2 0.03
20 60 0.78
21 13 0.17
22 2 0.03
ACGTcount: A:0.32, C:0.25, G:0.18, T:0.25
Consensus pattern (20 bp):
ATCGCAATGCGATACTGACT
Found at i:37413 original size:61 final size:61
Alignment explanation
Indices: 37364--37480 Score: 162
Period size: 61 Copynumber: 1.9 Consensus size: 61
37354 GCGAATTGGG
* * * *
37364 AAAATCGCAATGCGATACTGACTATCGCAATACGATACTTACTATCGCAATGCGATAATAC
1 AAAATCGCAACGAGATACTGACTATCGCAATACGATACTGACTATCGCAACGCGATAATAC
* * * *
37425 AAAATCGCAACGAGATACTGACTTTCGCAATGCGATTCTGACTTTCGCAACGCGAT
1 AAAATCGCAACGAGATACTGACTATCGCAATACGATACTGACTATCGCAACGCGAT
37481 TTACATAGCG
Statistics
Matches: 48, Mismatches: 8, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
61 48 1.00
ACGTcount: A:0.34, C:0.24, G:0.17, T:0.25
Consensus pattern (61 bp):
AAAATCGCAACGAGATACTGACTATCGCAATACGATACTGACTATCGCAACGCGATAATAC
Found at i:38085 original size:19 final size:19
Alignment explanation
Indices: 38038--38079 Score: 66
Period size: 19 Copynumber: 2.2 Consensus size: 19
38028 ACGAGATAAT
*
38038 CGCAACGCGAAATAAAAAA
1 CGCAACGCGAAACAAAAAA
*
38057 CGCAACGCGAAACAAAAAT
1 CGCAACGCGAAACAAAAAA
38076 CGCA
1 CGCA
38080 TTGCGATTTT
Statistics
Matches: 21, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
19 21 1.00
ACGTcount: A:0.52, C:0.26, G:0.17, T:0.05
Consensus pattern (19 bp):
CGCAACGCGAAACAAAAAA
Found at i:38105 original size:20 final size:19
Alignment explanation
Indices: 38075--38221 Score: 98
Period size: 20 Copynumber: 8.1 Consensus size: 19
38065 GAAACAAAAA
* *
38075 TCGCATTGCGATTTTTATT
1 TCGCGTTGCGATTTTCATT
38094 TCGCGGTTGCGATTTTCATT
1 TCGC-GTTGCGATTTTCATT
*
38114 TCGCGTTGCGATTGTC---
1 TCGCGTTGCGATTTTCATT
* **
38130 T-G-GTCGCGATAGTCATT
1 TCGCGTTGCGATTTTCATT
38147 TCGCGTTGCGA--TTC---
1 TCGCGTTGCGATTTTCATT
* **
38161 TCTCGTTGCGATAGTCATT
1 TCGCGTTGCGATTTTCATT
*
38180 TCCGCGTTGCGATTCTCATT
1 T-CGCGTTGCGATTTTCATT
*
38200 ATCTCGTTGCGATTTTCATT
1 -TCGCGTTGCGATTTTCATT
38220 TC
1 TC
38222 AACCAAAAGA
Statistics
Matches: 101, Mismatches: 14, Indels: 26
0.72 0.10 0.18
Matches are distributed among these distances:
14 20 0.20
15 1 0.01
16 3 0.03
17 3 0.03
18 1 0.01
19 24 0.24
20 48 0.48
21 1 0.01
ACGTcount: A:0.12, C:0.22, G:0.22, T:0.43
Consensus pattern (19 bp):
TCGCGTTGCGATTTTCATT
Found at i:38146 original size:33 final size:33
Alignment explanation
Indices: 38109--38196 Score: 140
Period size: 33 Copynumber: 2.6 Consensus size: 33
38099 GTTGCGATTT
* *
38109 TCATTTCGCGTTGCGATTGTCTGGTCGCGATAG
1 TCATTTCGCGTTGCGATTCTCTCGTCGCGATAG
*
38142 TCATTTCGCGTTGCGATTCTCTCGTTGCGATAG
1 TCATTTCGCGTTGCGATTCTCTCGTCGCGATAG
38175 TCATTTCCGCGTTGCGATTCTC
1 TCATTT-CGCGTTGCGATTCTC
38197 ATTATCTCGT
Statistics
Matches: 51, Mismatches: 3, Indels: 1
0.93 0.05 0.02
Matches are distributed among these distances:
33 36 0.71
34 15 0.29
ACGTcount: A:0.11, C:0.25, G:0.25, T:0.39
Consensus pattern (33 bp):
TCATTTCGCGTTGCGATTCTCTCGTCGCGATAG
Found at i:40280 original size:42 final size:42
Alignment explanation
Indices: 40220--40342 Score: 122
Period size: 42 Copynumber: 2.9 Consensus size: 42
40210 GCCCGACTCG
* * *
40220 CCTATCATCCCTCAAGAGTCCACTCCTATCGTTGAAGAGGCC
1 CCTATCATCCCTCAAGAGTCCACTCCCACCGTTCAAGAGGCC
* * *
40262 CCTATCATTCCTCGAGAGTCCCCTCCCACCGTTCAAGAGGCC
1 CCTATCATCCCTCAAGAGTCCACTCCCACCGTTCAAGAGGCC
* * ** * *
40304 ACTGTCATCGTTGAAGAGGTCC-CTCCCACCATTCAAGAG
1 CCTATCATCCCTCAAGA-GTCCACTCCCACCGTTCAAGAG
40343 CCCGATTCAC
Statistics
Matches: 66, Mismatches: 14, Indels: 2
0.80 0.17 0.02
Matches are distributed among these distances:
42 62 0.94
43 4 0.06
ACGTcount: A:0.23, C:0.37, G:0.18, T:0.23
Consensus pattern (42 bp):
CCTATCATCCCTCAAGAGTCCACTCCCACCGTTCAAGAGGCC
Found at i:40300 original size:21 final size:21
Alignment explanation
Indices: 40276--40342 Score: 55
Period size: 21 Copynumber: 3.2 Consensus size: 21
40266 TCATTCCTCG
40276 AGAGTCCCCTCCCACCGTTCA
1 AGAGTCCCCTCCCACCGTTCA
* * ** * *
40297 AGAGGCCACTGTCATCGTTGA
1 AGAGTCCCCTCCCACCGTTCA
*
40318 AGAGGT-CCCTCCCACCATTCA
1 AGA-GTCCCCTCCCACCGTTCA
40339 AGAG
1 AGAG
40343 CCCGATTCAC
Statistics
Matches: 32, Mismatches: 13, Indels: 3
0.67 0.27 0.06
Matches are distributed among these distances:
20 1 0.03
21 30 0.94
22 1 0.03
ACGTcount: A:0.24, C:0.36, G:0.21, T:0.19
Consensus pattern (21 bp):
AGAGTCCCCTCCCACCGTTCA
Found at i:41719 original size:14 final size:14
Alignment explanation
Indices: 41700--41735 Score: 63
Period size: 14 Copynumber: 2.6 Consensus size: 14
41690 ATTGTTTAAT
41700 TGATTTGTAAAAGG
1 TGATTTGTAAAAGG
*
41714 TGATTTGTAAAAGT
1 TGATTTGTAAAAGG
41728 TGATTTGT
1 TGATTTGT
41736 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:41936 original size:19 final size:19
Alignment explanation
Indices: 41914--42064 Score: 71
Period size: 19 Copynumber: 8.7 Consensus size: 19
41904 CGAAATTAAA
41914 TTCGCGTTGCGATTTTCAT
1 TTCGCGTTGCGATTTTCAT
*
41933 TTCGCATTGCGA--TTC--
1 TTCGCGTTGCGATTTTCAT
* *
41948 -CCTCGTTGCGATTTTCAT
1 TTCGCGTTGCGATTTTCAT
* *
41966 TTCGCATTGCGA-----AA
1 TTCGCGTTGCGATTTTCAT
*
41980 TTAGCGTTGCGATTTTCAT
1 TTCGCGTTGCGATTTTCAT
*
41999 TTCGCATTGCGA--TTC--
1 TTCGCGTTGCGATTTTCAT
* *
42014 -TCTCGTTGTGATTTTCAT
1 TTCGCGTTGCGATTTTCAT
* ** *
42032 TTCGCATTGCGATAGTAAT
1 TTCGCGTTGCGATTTTCAT
42051 TTCCGCGTTGCGAT
1 TT-CGCGTTGCGAT
42065 AGACATTAAG
Statistics
Matches: 93, Mismatches: 23, Indels: 31
0.63 0.16 0.21
Matches are distributed among these distances:
14 27 0.29
16 6 0.06
17 6 0.06
19 44 0.47
20 10 0.11
ACGTcount: A:0.15, C:0.22, G:0.21, T:0.42
Consensus pattern (19 bp):
TTCGCGTTGCGATTTTCAT
Found at i:41960 original size:33 final size:32
Alignment explanation
Indices: 41918--42044 Score: 184
Period size: 33 Copynumber: 3.9 Consensus size: 32
41908 ATTAAATTCG
41918 CGTTGCGATTTTCATTTCGCATTGCGATTCCCT
1 CGTTGCGATTTTCATTTCGCATTGCGATT-CCT
**
41951 CGTTGCGATTTTCATTTCGCATTGCGAAATT-AG
1 CGTTGCGATTTTCATTTCGCATTGCG--ATTCCT
41984 CGTTGCGATTTTCATTTCGCATTGCGATTCTCT
1 CGTTGCGATTTTCATTTCGCATTGCGATTC-CT
*
42017 CGTTGTGATTTTCATTTCGCATTGCGAT
1 CGTTGCGATTTTCATTTCGCATTGCGAT
42045 AGTAATTTCC
Statistics
Matches: 85, Mismatches: 5, Indels: 8
0.87 0.05 0.08
Matches are distributed among these distances:
31 3 0.04
33 79 0.93
35 3 0.04
ACGTcount: A:0.15, C:0.22, G:0.20, T:0.43
Consensus pattern (32 bp):
CGTTGCGATTTTCATTTCGCATTGCGATTCCT
Found at i:42007 original size:66 final size:66
Alignment explanation
Indices: 41911--42043 Score: 239
Period size: 66 Copynumber: 2.0 Consensus size: 66
41901 ACGCGAAATT
*
41911 AAATTCGCGTTGCGATTTTCATTTCGCATTGCGATTCCCTCGTTGCGATTTTCATTTCGCATTGC
1 AAATTAGCGTTGCGATTTTCATTTCGCATTGCGATTCCCTCGTTGCGATTTTCATTTCGCATTGC
41976 G
66 G
* *
41977 AAATTAGCGTTGCGATTTTCATTTCGCATTGCGATTCTCTCGTTGTGATTTTCATTTCGCATTGC
1 AAATTAGCGTTGCGATTTTCATTTCGCATTGCGATTCCCTCGTTGCGATTTTCATTTCGCATTGC
42042 G
66 G
42043 A
1 A
42044 TAGTAATTTC
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:0.17, C:0.22, G:0.20, T:0.42
Consensus pattern (66 bp):
AAATTAGCGTTGCGATTTTCATTTCGCATTGCGATTCCCTCGTTGCGATTTTCATTTCGCATTGC
G
Found at i:44562 original size:24 final size:24
Alignment explanation
Indices: 44528--44581 Score: 81
Period size: 24 Copynumber: 2.2 Consensus size: 24
44518 CTGAAACATC
* *
44528 ATCAAAATCCGTGTATTGACCAAT
1 ATCAAAATCCGGGTATTGACCAAG
*
44552 ATCAAAGTCCGGGTATTGACCAAG
1 ATCAAAATCCGGGTATTGACCAAG
44576 ATCAAA
1 ATCAAA
44582 TTTCAAATAC
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:0.39, C:0.20, G:0.17, T:0.24
Consensus pattern (24 bp):
ATCAAAATCCGGGTATTGACCAAG
Found at i:45661 original size:20 final size:20
Alignment explanation
Indices: 45636--45673 Score: 67
Period size: 20 Copynumber: 1.9 Consensus size: 20
45626 ATTCATTTGA
*
45636 CTATCGCAACGCGAAAATGG
1 CTATCGCAACGAGAAAATGG
45656 CTATCGCAACGAGAAAAT
1 CTATCGCAACGAGAAAAT
45674 CGCAATGCGA
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:0.39, C:0.24, G:0.21, T:0.16
Consensus pattern (20 bp):
CTATCGCAACGAGAAAATGG
Found at i:47755 original size:20 final size:19
Alignment explanation
Indices: 47720--47786 Score: 89
Period size: 19 Copynumber: 3.5 Consensus size: 19
47710 GAAACTTAAA
47720 ATCGCAACGCGAAATGACT
1 ATCGCAACGCGAAATGACT
*
47739 ATCGCAACGCGGAAATGGCT
1 ATCGCAACGC-GAAATGACT
* **
47759 ATCGCAATGCGAAATGAAA
1 ATCGCAACGCGAAATGACT
47778 ATCGCAACG
1 ATCGCAACG
47787 ATAAAATCGC
Statistics
Matches: 41, Mismatches: 6, Indels: 2
0.84 0.12 0.04
Matches are distributed among these distances:
19 24 0.59
20 17 0.41
ACGTcount: A:0.37, C:0.24, G:0.24, T:0.15
Consensus pattern (19 bp):
ATCGCAACGCGAAATGACT
Found at i:47857 original size:14 final size:14
Alignment explanation
Indices: 47834--47891 Score: 62
Period size: 14 Copynumber: 3.9 Consensus size: 14
47824 TTTCATTTCG
*
47834 CGTTGTGATTTTGT
1 CGTTGCGATTTTGT
*
47848 CGTTGCGATTTCATTT
1 CGTTGCGATTT--TGT
47864 CGTATTGCGATTTTGT
1 CG--TTGCGATTTTGT
47880 CGTTGCGATTTT
1 CGTTGCGATTTT
47892 CATTTCGCAT
Statistics
Matches: 37, Mismatches: 3, Indels: 8
0.77 0.06 0.17
Matches are distributed among these distances:
14 20 0.54
16 8 0.22
18 9 0.24
ACGTcount: A:0.10, C:0.14, G:0.24, T:0.52
Consensus pattern (14 bp):
CGTTGCGATTTTGT
Found at i:47898 original size:33 final size:33
Alignment explanation
Indices: 47817--47907 Score: 148
Period size: 32 Copynumber: 2.8 Consensus size: 33
47807 ACAAATCGCA
* *
47817 TTGCGATTTTCATTTCGCGTTGTGATTTTGTCG
1 TTGCGATTTTCATTTCGCATTGCGATTTTGTCG
*
47850 TTGCGA-TTTCATTTCGTATTGCGATTTTGTCG
1 TTGCGATTTTCATTTCGCATTGCGATTTTGTCG
47882 TTGCGATTTTCATTTCGCATTGCGAT
1 TTGCGATTTTCATTTCGCATTGCGAT
47908 AGCCATTTCC
Statistics
Matches: 53, Mismatches: 4, Indels: 2
0.90 0.07 0.03
Matches are distributed among these distances:
32 29 0.55
33 24 0.45
ACGTcount: A:0.12, C:0.16, G:0.22, T:0.49
Consensus pattern (33 bp):
TTGCGATTTTCATTTCGCATTGCGATTTTGTCG
Found at i:47926 original size:20 final size:19
Alignment explanation
Indices: 47892--47946 Score: 65
Period size: 20 Copynumber: 2.8 Consensus size: 19
47882 TTGCGATTTT
*
47892 CATTTCGCATTGCGATAGC
1 CATTTCGCGTTGCGATAGC
*
47911 CATTTCCGCGTTGCGATAGT
1 CATTT-CGCGTTGCGATAGC
*
47931 CATTTTCGTGTTGCGA
1 CA-TTTCGCGTTGCGA
47947 AAGTAACTAT
Statistics
Matches: 31, Mismatches: 3, Indels: 3
0.84 0.08 0.08
Matches are distributed among these distances:
19 5 0.16
20 23 0.74
21 3 0.10
ACGTcount: A:0.16, C:0.24, G:0.24, T:0.36
Consensus pattern (19 bp):
CATTTCGCGTTGCGATAGC
Found at i:49178 original size:21 final size:21
Alignment explanation
Indices: 49152--49194 Score: 59
Period size: 21 Copynumber: 2.0 Consensus size: 21
49142 TTTTCGGGCT
* *
49152 AGGGGAATCGGTACCCATTCA
1 AGGGGAACCGATACCCATTCA
*
49173 AGGGGAACCGATACCCCTTCA
1 AGGGGAACCGATACCCATTCA
49194 A
1 A
49195 CGAAAGAATT
Statistics
Matches: 19, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
21 19 1.00
ACGTcount: A:0.30, C:0.28, G:0.26, T:0.16
Consensus pattern (21 bp):
AGGGGAACCGATACCCATTCA
Found at i:49300 original size:67 final size:65
Alignment explanation
Indices: 49174--49309 Score: 184
Period size: 67 Copynumber: 2.1 Consensus size: 65
49164 ACCCATTCAA
* * *
49174 GGGGAACCGATACCCCTTCAACGAAAGAATTTCCAGAATGTTAGAGGGGAATCGGTACCCCAGGG
1 GGGGAACCGATACCCCCTCAACGAAAGAAATTCCAGAATGTTAGAGGGGAATCGATACCCCAGGG
* * *
49239 GGGGAACCGATACCCCCTCATCGTATATGAAATTCCAGATTGCTT-GAGGGGAATCGATACCCCA
1 GGGGAACCGATACCCCCTCAACG-A-AAGAAATTCCAGAATG-TTAGAGGGGAATCGATACCCCA
49303 GGG
63 GGG
49306 GGGG
1 GGGG
49310 GGGGAACCGA
Statistics
Matches: 62, Mismatches: 6, Indels: 4
0.86 0.08 0.06
Matches are distributed among these distances:
65 21 0.34
66 1 0.02
67 38 0.61
68 2 0.03
ACGTcount: A:0.28, C:0.24, G:0.30, T:0.18
Consensus pattern (65 bp):
GGGGAACCGATACCCCCTCAACGAAAGAAATTCCAGAATGTTAGAGGGGAATCGATACCCCAGGG
Found at i:49992 original size:22 final size:22
Alignment explanation
Indices: 49964--50008 Score: 90
Period size: 22 Copynumber: 2.0 Consensus size: 22
49954 TTATGGACAT
49964 AATTCTACGGGCACTTCGGTGC
1 AATTCTACGGGCACTTCGGTGC
49986 AATTCTACGGGCACTTCGGTGC
1 AATTCTACGGGCACTTCGGTGC
50008 A
1 A
50009 TTTATACGAG
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
22 23 1.00
ACGTcount: A:0.20, C:0.27, G:0.27, T:0.27
Consensus pattern (22 bp):
AATTCTACGGGCACTTCGGTGC
Found at i:50016 original size:22 final size:22
Alignment explanation
Indices: 49964--50016 Score: 79
Period size: 22 Copynumber: 2.4 Consensus size: 22
49954 TTATGGACAT
*
49964 AATTCTACGGGCACTTCGGTGC
1 AATTATACGGGCACTTCGGTGC
*
49986 AATTCTACGGGCACTTCGGTGC
1 AATTATACGGGCACTTCGGTGC
*
50008 ATTTATACG
1 AATTATACG
50017 AGCTGTGGTG
Statistics
Matches: 29, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
22 29 1.00
ACGTcount: A:0.21, C:0.25, G:0.25, T:0.30
Consensus pattern (22 bp):
AATTATACGGGCACTTCGGTGC
Found at i:56047 original size:21 final size:21
Alignment explanation
Indices: 56021--56063 Score: 59
Period size: 21 Copynumber: 2.0 Consensus size: 21
56011 TTTTCGGGCT
* *
56021 AGGGGAATCGGTACCCATTCA
1 AGGGGAACCGATACCCATTCA
*
56042 AGGGGAACCGATACCCCTTCA
1 AGGGGAACCGATACCCATTCA
56063 A
1 A
56064 CGAAATGAAT
Statistics
Matches: 19, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
21 19 1.00
ACGTcount: A:0.30, C:0.28, G:0.26, T:0.16
Consensus pattern (21 bp):
AGGGGAACCGATACCCATTCA
Found at i:56143 original size:65 final size:63
Alignment explanation
Indices: 56021--56187 Score: 185
Period size: 64 Copynumber: 2.6 Consensus size: 63
56011 TTTTCGGGCT
* * *
56021 AGGGGAATCGGTACCCATTCAAGGGGAACCGATACCCCTTCAACGAAATGAATTTCCAGAATG-T
1 AGGGGAATCGGTACCC---CAGGGGGAACCGATACCCCTTCAACGAAATAAAATTCCAG-ATGCT
56085 TAG
62 T-G
* *
56088 AGGGGAATCGGTACCCCAGGGGGGAACCGATACCCC-TCATCGTATATAAAATTCCAGATGCTTG
1 AGGGGAATCGGTACCCCA-GGGGGAACCGATACCCCTTCAACG-AAATAAAATTCCAGATGCTTG
* *
56152 AGGGGAATCGATACCCCCAGGGGGAACCGATTCCCC
1 AGGGGAATCGGTA-CCCCAGGGGGAACCGATACCCC
56188 CATGAGAAAA
Statistics
Matches: 89, Mismatches: 7, Indels: 11
0.83 0.07 0.10
Matches are distributed among these distances:
64 39 0.44
65 34 0.38
67 16 0.18
ACGTcount: A:0.29, C:0.26, G:0.26, T:0.19
Consensus pattern (63 bp):
AGGGGAATCGGTACCCCAGGGGGAACCGATACCCCTTCAACGAAATAAAATTCCAGATGCTTG
Found at i:56177 original size:19 final size:19
Alignment explanation
Indices: 56153--56189 Score: 56
Period size: 19 Copynumber: 1.9 Consensus size: 19
56143 AGATGCTTGA
*
56153 GGGGAATCGATACCCCCAG
1 GGGGAACCGATACCCCCAG
*
56172 GGGGAACCGATTCCCCCA
1 GGGGAACCGATACCCCCA
56190 TGAGAAAAAG
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
19 16 1.00
ACGTcount: A:0.24, C:0.35, G:0.30, T:0.11
Consensus pattern (19 bp):
GGGGAACCGATACCCCCAG
Found at i:56849 original size:22 final size:22
Alignment explanation
Indices: 56821--56865 Score: 90
Period size: 22 Copynumber: 2.0 Consensus size: 22
56811 TTATGGACAT
56821 AATTCTACGGGCACTTCGGTGC
1 AATTCTACGGGCACTTCGGTGC
56843 AATTCTACGGGCACTTCGGTGC
1 AATTCTACGGGCACTTCGGTGC
56865 A
1 A
56866 TTTATACGAG
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
22 23 1.00
ACGTcount: A:0.20, C:0.27, G:0.27, T:0.27
Consensus pattern (22 bp):
AATTCTACGGGCACTTCGGTGC
Found at i:56873 original size:22 final size:22
Alignment explanation
Indices: 56821--56873 Score: 79
Period size: 22 Copynumber: 2.4 Consensus size: 22
56811 TTATGGACAT
*
56821 AATTCTACGGGCACTTCGGTGC
1 AATTATACGGGCACTTCGGTGC
*
56843 AATTCTACGGGCACTTCGGTGC
1 AATTATACGGGCACTTCGGTGC
*
56865 ATTTATACG
1 AATTATACG
56874 AGCTGTGGTG
Statistics
Matches: 29, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
22 29 1.00
ACGTcount: A:0.21, C:0.25, G:0.25, T:0.30
Consensus pattern (22 bp):
AATTATACGGGCACTTCGGTGC
Found at i:58801 original size:20 final size:20
Alignment explanation
Indices: 58776--58818 Score: 77
Period size: 20 Copynumber: 2.1 Consensus size: 20
58766 AATAGTTTCT
58776 GAAAATGAAAATCGCAACAC
1 GAAAATGAAAATCGCAACAC
*
58796 GAAAATGAAAATCGCAACGC
1 GAAAATGAAAATCGCAACAC
58816 GAA
1 GAA
58819 TTCGACTATC
Statistics
Matches: 22, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
20 22 1.00
ACGTcount: A:0.53, C:0.19, G:0.19, T:0.09
Consensus pattern (20 bp):
GAAAATGAAAATCGCAACAC
Found at i:59123 original size:22 final size:22
Alignment explanation
Indices: 59096--59139 Score: 79
Period size: 22 Copynumber: 2.0 Consensus size: 22
59086 GATGGAGATA
59096 GACGGATTTCGCCGGAGATGGG
1 GACGGATTTCGCCGGAGATGGG
*
59118 GACGGATTTCGTCGGAGATGGG
1 GACGGATTTCGCCGGAGATGGG
59140 TGAGAGAGTG
Statistics
Matches: 21, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
22 21 1.00
ACGTcount: A:0.18, C:0.16, G:0.45, T:0.20
Consensus pattern (22 bp):
GACGGATTTCGCCGGAGATGGG
Found at i:59353 original size:20 final size:20
Alignment explanation
Indices: 59327--59399 Score: 119
Period size: 20 Copynumber: 3.6 Consensus size: 20
59317 GATTATGTAT
59327 TATCGCGTTGCGAAAGTCAG
1 TATCGCGTTGCGAAAGTCAG
*
59347 AATCGCGTTGCGAAAGTCAG
1 TATCGCGTTGCGAAAGTCAG
*
59367 TATCGCGTTGCGAAAGTAAG
1 TATCGCGTTGCGAAAGTCAG
*
59387 TATCTCGTTGCGA
1 TATCGCGTTGCGA
59400 TTTTTTATTA
Statistics
Matches: 49, Mismatches: 4, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
20 49 1.00
ACGTcount: A:0.26, C:0.19, G:0.29, T:0.26
Consensus pattern (20 bp):
TATCGCGTTGCGAAAGTCAG
Found at i:59444 original size:41 final size:41
Alignment explanation
Indices: 59306--59442 Score: 141
Period size: 41 Copynumber: 3.4 Consensus size: 41
59296 GCGCTTTGAA
*
59306 AATCGCATTGCGATTATGTATTATCGCGTTGCGAAAGTCAG
1 AATCGCATTGCGATTATTTATTATCGCGTTGCGAAAGTCAG
* * * * * *
59347 AATCGCGTTGCGA-AAGTCAGTATCGCGTTGCGAAAGTAAG
1 AATCGCATTGCGATTATTTATTATCGCGTTGCGAAAGTCAG
* * * * * *
59387 TATCTCGTTGCGATTTTTTATTATCGCATTGCGATAGTCAG
1 AATCGCATTGCGATTATTTATTATCGCGTTGCGAAAGTCAG
*
59428 CATCGCATTGCGATT
1 AATCGCATTGCGATT
59443 TTCCCAATTC
Statistics
Matches: 75, Mismatches: 20, Indels: 2
0.77 0.21 0.02
Matches are distributed among these distances:
40 32 0.43
41 43 0.57
ACGTcount: A:0.25, C:0.18, G:0.24, T:0.33
Consensus pattern (41 bp):
AATCGCATTGCGATTATTTATTATCGCGTTGCGAAAGTCAG
Found at i:59460 original size:41 final size:40
Alignment explanation
Indices: 59433--59522 Score: 126
Period size: 41 Copynumber: 2.2 Consensus size: 40
59423 GTCAGCATCG
*
59433 CATTGCGATTTTCCCAATTCACGTTGCGATTTACTTATTCA
1 CATTGCGATTTTCCCAATTCACGTTGCGATTCAC-TATTCA
* * *
59474 CATTGCGATTTTCCCAATTCGCGTTGCGATTTACTTATTCG
1 CATTGCGATTTTCCCAATTCACGTTGCGATTCAC-TATTCA
59515 CATTGCGA
1 CATTGCGA
59523 ATTGGGAAAA
Statistics
Matches: 47, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
41 47 1.00
ACGTcount: A:0.20, C:0.24, G:0.16, T:0.40
Consensus pattern (40 bp):
CATTGCGATTTTCCCAATTCACGTTGCGATTCACTATTCA
Found at i:59461 original size:21 final size:21
Alignment explanation
Indices: 59435--59505 Score: 90
Period size: 21 Copynumber: 3.4 Consensus size: 21
59425 CAGCATCGCA
59435 TTGCGATTTTCCCAATTCACG
1 TTGCGATTTTCCCAATTCACG
* ** *
59456 TTGCGA-TTTACTTATTCACA
1 TTGCGATTTTCCCAATTCACG
*
59476 TTGCGATTTTCCCAATTCGCG
1 TTGCGATTTTCCCAATTCACG
59497 TTGCGATTT
1 TTGCGATTT
59506 ACTTATTCGC
Statistics
Matches: 40, Mismatches: 9, Indels: 2
0.78 0.18 0.04
Matches are distributed among these distances:
20 16 0.40
21 24 0.60
ACGTcount: A:0.18, C:0.24, G:0.15, T:0.42
Consensus pattern (21 bp):
TTGCGATTTTCCCAATTCACG
Found at i:59515 original size:20 final size:20
Alignment explanation
Indices: 59449--59522 Score: 76
Period size: 20 Copynumber: 3.6 Consensus size: 20
59439 GATTTTCCCA
*
59449 ATTCACGTTGCGATTTACTT
1 ATTCACATTGCGATTTACTT
* **
59469 ATTCACATTGCGATTTTCCCA
1 ATTCACATTGCGA-TTTACTT
* *
59490 ATTCGCGTTGCGATTTACTT
1 ATTCACATTGCGATTTACTT
*
59510 ATTCGCATTGCGA
1 ATTCACATTGCGA
59523 ATTGGGAAAA
Statistics
Matches: 43, Mismatches: 10, Indels: 2
0.78 0.18 0.04
Matches are distributed among these distances:
20 28 0.65
21 15 0.35
ACGTcount: A:0.20, C:0.23, G:0.16, T:0.41
Consensus pattern (20 bp):
ATTCACATTGCGATTTACTT
Found at i:60617 original size:21 final size:21
Alignment explanation
Indices: 60502--60617 Score: 60
Period size: 21 Copynumber: 5.6 Consensus size: 21
60492 ACGAAATAAA
**
60502 AATCGCAACGCGA-TCCCCAG
1 AATCGCAACGCGATTTTCCAG
** * *
60522 AATCGCAAATC-AGTTTCCAA
1 AATCGCAACGCGATTTTCCAG
* *
60542 AATCGCAACGCGATTCTT-GAC
1 AATCGCAACGCGATT-TTCCAG
* ** *
60563 AATCGCAATGCGATAGTACA-
1 AATCGCAACGCGATTTTCCAG
**
60583 AATTCGCATTGCGATTTTCCAG
1 AA-TCGCAACGCGATTTTCCAG
60605 AATCGCAACGCGA
1 AATCGCAACGCGA
60618 ATATGAAAAT
Statistics
Matches: 70, Mismatches: 20, Indels: 11
0.69 0.20 0.11
Matches are distributed among these distances:
19 1 0.01
20 25 0.36
21 40 0.57
22 4 0.06
ACGTcount: A:0.33, C:0.28, G:0.18, T:0.22
Consensus pattern (21 bp):
AATCGCAACGCGATTTTCCAG
Found at i:60630 original size:20 final size:20
Alignment explanation
Indices: 60605--60798 Score: 94
Period size: 20 Copynumber: 9.7 Consensus size: 20
60595 GATTTTCCAG
* *
60605 AATCGCAACGCGAATATGA-A
1 AATCGCAACGCGAACA-CATA
60625 AATCGCAACGCGAACACATA
1 AATCGCAACGCGAACACATA
*
60645 AATCGCAACGCGTATC-CATA
1 AATCGCAACGCG-AACACATA
* * *
60665 AATCGCAACGTGTATC-CGTA
1 AATCGCAACGCG-AACACATA
* *
60685 AATCGCAACGCGTATC-CGTA
1 AATCGCAACGCG-AACACATA
* * * *
60705 AATCGCAATGCGTACCCGTA
1 AATCGCAACGCGAACACATA
* * *
60725 TATCGCAACGCGTATC-CGTA
1 AATCGCAACGCG-AACACATA
** * *
60745 AATCGCAACGATAATACGTAA
1 AATCGCAACGCGAACACAT-A
* *
60766 AATCGCAACGCGTATC-CGTA
1 AATCGCAACGCG-AACACATA
60786 AATCGCAACGCGA
1 AATCGCAACGCGA
60799 TTTTTAAAGC
Statistics
Matches: 145, Mismatches: 22, Indels: 15
0.80 0.12 0.08
Matches are distributed among these distances:
19 4 0.03
20 123 0.85
21 17 0.12
22 1 0.01
ACGTcount: A:0.36, C:0.27, G:0.19, T:0.19
Consensus pattern (20 bp):
AATCGCAACGCGAACACATA
Found at i:60652 original size:40 final size:40
Alignment explanation
Indices: 60605--60798 Score: 228
Period size: 40 Copynumber: 4.8 Consensus size: 40
60595 GATTTTCCAG
* ** * *
60605 AATCGCAACGCGAATATGAAAATCGCAACGCGAACACATA
1 AATCGCAACGCGTATCCGTAAATCGCAACGCGAACACGTA
* * *
60645 AATCGCAACGCGTATCCATAAATCGCAACGTGTATC-CGTA
1 AATCGCAACGCGTATCCGTAAATCGCAACGCG-AACACGTA
* * *
60685 AATCGCAACGCGTATCCGTAAATCGCAATGCGTACCCGTA
1 AATCGCAACGCGTATCCGTAAATCGCAACGCGAACACGTA
* ** *
60725 TATCGCAACGCGTATCCGTAAATCGCAACGATAATACGTAA
1 AATCGCAACGCGTATCCGTAAATCGCAACGCGAACACGT-A
60766 AATCGCAACGCGTATCCGTAAATCGCAACGCGA
1 AATCGCAACGCGTATCCGTAAATCGCAACGCGA
60799 TTTTTAAAGC
Statistics
Matches: 128, Mismatches: 23, Indels: 5
0.82 0.15 0.03
Matches are distributed among these distances:
39 1 0.01
40 94 0.73
41 33 0.26
ACGTcount: A:0.36, C:0.27, G:0.19, T:0.19
Consensus pattern (40 bp):
AATCGCAACGCGTATCCGTAAATCGCAACGCGAACACGTA
Found at i:60688 original size:60 final size:60
Alignment explanation
Indices: 60605--60797 Score: 235
Period size: 60 Copynumber: 3.2 Consensus size: 60
60595 GATTTTCCAG
* ** * * *
60605 AATCGCAACGCGAATATGAAAATCGCAACGCGAACACATAAATCGCAACGCGTATCCATA
1 AATCGCAACGCGTATCCGTAAATCGCAACGCGAACACGTAAATCGCAACGCGTATCCGTA
* * * *
60665 AATCGCAACGTGTATCCGTAAATCGCAACGCGTATC-CGTAAATCGCAATGCGTACCCGTA
1 AATCGCAACGCGTATCCGTAAATCGCAACGCG-AACACGTAAATCGCAACGCGTATCCGTA
* ** *
60725 TATCGCAACGCGTATCCGTAAATCGCAACGATAATACGTAAAATCGCAACGCGTATCCGTA
1 AATCGCAACGCGTATCCGTAAATCGCAACGCGAACACGT-AAATCGCAACGCGTATCCGTA
60786 AATCGCAACGCG
1 AATCGCAACGCG
60798 ATTTTTAAAG
Statistics
Matches: 111, Mismatches: 19, Indels: 5
0.82 0.14 0.04
Matches are distributed among these distances:
59 1 0.01
60 78 0.70
61 32 0.29
ACGTcount: A:0.35, C:0.27, G:0.19, T:0.19
Consensus pattern (60 bp):
AATCGCAACGCGTATCCGTAAATCGCAACGCGAACACGTAAATCGCAACGCGTATCCGTA
Found at i:61213 original size:33 final size:33
Alignment explanation
Indices: 61174--61244 Score: 124
Period size: 33 Copynumber: 2.2 Consensus size: 33
61164 TTCACTTAGA
61174 TTTCATTTCGCGTTACGATTCTCTCGTTGCGAT
1 TTTCATTTCGCGTTACGATTCTCTCGTTGCGAT
* *
61207 TTTCATTTCGCGTTGCTATTCTCTCGTTGCGAT
1 TTTCATTTCGCGTTACGATTCTCTCGTTGCGAT
61240 TTTCA
1 TTTCA
61245 AGTTAGTATT
Statistics
Matches: 36, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
33 36 1.00
ACGTcount: A:0.11, C:0.24, G:0.17, T:0.48
Consensus pattern (33 bp):
TTTCATTTCGCGTTACGATTCTCTCGTTGCGAT
Found at i:61350 original size:21 final size:20
Alignment explanation
Indices: 61324--61429 Score: 93
Period size: 21 Copynumber: 5.5 Consensus size: 20
61314 TGCAGAAGAG
61324 TCGCAACGAGATAAATGAAAA
1 TCGCAACGAGA-AAATGAAAA
* **
61345 TCGCAACGTGAAAATGACTA
1 TCGCAACGAGAAAATGAAAA
61365 TCTGCAACGAGAAAAATG-AAA
1 TC-GCAACGAG-AAAATGAAAA
61386 TCGCAACGAG---A-G--AA
1 TCGCAACGAGAAAATGAAAA
*
61400 TCGCAACGCG-AAATGAAAA
1 TCGCAACGAGAAAATGAAAA
61419 TCGCAACGAGA
1 TCGCAACGAGA
61430 GAATCGCAAC
Statistics
Matches: 69, Mismatches: 8, Indels: 17
0.73 0.09 0.18
Matches are distributed among these distances:
14 11 0.16
15 1 0.01
16 2 0.03
17 1 0.01
19 11 0.16
20 17 0.25
21 20 0.29
22 6 0.09
ACGTcount: A:0.46, C:0.19, G:0.22, T:0.13
Consensus pattern (20 bp):
TCGCAACGAGAAAATGAAAA
Found at i:61403 original size:14 final size:14
Alignment explanation
Indices: 61384--61440 Score: 60
Period size: 14 Copynumber: 3.7 Consensus size: 14
61374 AGAAAAATGA
61384 AATCGCAACGAGAG
1 AATCGCAACGAGAG
*
61398 AATCGCAACGCGAAATGAA
1 AATCGCAA--CG--A-GAG
61417 AATCGCAACGAGAG
1 AATCGCAACGAGAG
61431 AATCGCAACG
1 AATCGCAACG
61441 CGAAACCAAA
Statistics
Matches: 36, Mismatches: 2, Indels: 10
0.75 0.04 0.21
Matches are distributed among these distances:
14 20 0.56
15 1 0.03
16 2 0.06
17 2 0.06
18 1 0.03
19 10 0.28
ACGTcount: A:0.44, C:0.23, G:0.25, T:0.09
Consensus pattern (14 bp):
AATCGCAACGAGAG
Found at i:61423 original size:33 final size:33
Alignment explanation
Indices: 61378--61456 Score: 133
Period size: 33 Copynumber: 2.4 Consensus size: 33
61368 GCAACGAGAA
61378 AAATG-AAATCGCAACGAGAGAATCGCAACGCG
1 AAATGAAAATCGCAACGAGAGAATCGCAACGCG
61410 AAATGAAAATCGCAACGAGAGAATCGCAACGCG
1 AAATGAAAATCGCAACGAGAGAATCGCAACGCG
**
61443 AAACCAAAATCGCA
1 AAATGAAAATCGCA
61457 TTGCGATTTT
Statistics
Matches: 44, Mismatches: 2, Indels: 1
0.94 0.04 0.02
Matches are distributed among these distances:
32 5 0.11
33 39 0.89
ACGTcount: A:0.47, C:0.23, G:0.22, T:0.09
Consensus pattern (33 bp):
AAATGAAAATCGCAACGAGAGAATCGCAACGCG
Found at i:61478 original size:18 final size:18
Alignment explanation
Indices: 61452--61534 Score: 67
Period size: 18 Copynumber: 5.1 Consensus size: 18
61442 GAAACCAAAA
*
61452 TCGCATTGCGATTTTCAT
1 TCGCGTTGCGATTTTCAT
61470 TCGCGTTGCGA--TTC--
1 TCGCGTTGCGATTTTCAT
*
61484 TCTCGTTGCGATTTTCATT
1 TCGCGTTGCGATTTTCA-T
61503 TCGCG-TGCGA--TTC--
1 TCGCGTTGCGATTTTCAT
*
61516 TCTCGTTGCGATTTTCAT
1 TCGCGTTGCGATTTTCAT
61534 T
1 T
61535 TCTCTCGTTG
Statistics
Matches: 51, Mismatches: 4, Indels: 20
0.68 0.05 0.27
Matches are distributed among these distances:
13 4 0.08
14 15 0.29
16 12 0.24
18 16 0.31
19 4 0.08
ACGTcount: A:0.11, C:0.24, G:0.20, T:0.45
Consensus pattern (18 bp):
TCGCGTTGCGATTTTCAT
Found at i:61492 original size:14 final size:14
Alignment explanation
Indices: 61473--61528 Score: 58
Period size: 14 Copynumber: 3.7 Consensus size: 14
61463 TTTTCATTCG
61473 CGTTGCGATTCTCT
1 CGTTGCGATTCTCT
*
61487 CGTTGCGATTTTCATTT
1 CGTTGCGA--TTC-TCT
*
61504 CGCGTGCGATTCTCT
1 CG-TTGCGATTCTCT
61519 CGTTGCGATT
1 CGTTGCGATT
61529 TTCATTTCTC
Statistics
Matches: 34, Mismatches: 4, Indels: 8
0.74 0.09 0.17
Matches are distributed among these distances:
14 15 0.44
15 4 0.12
16 6 0.18
17 4 0.12
18 5 0.15
ACGTcount: A:0.09, C:0.25, G:0.23, T:0.43
Consensus pattern (14 bp):
CGTTGCGATTCTCT
Found at i:61535 original size:32 final size:33
Alignment explanation
Indices: 61457--61577 Score: 147
Period size: 32 Copynumber: 3.5 Consensus size: 33
61447 CAAAATCGCA
61457 TTGCGATTTTCA-TTCGCGTTGCGATTCTCTCG
1 TTGCGATTTTCATTTCGCGTTGCGATTCTCTCG
61489 TTGCGATTTTCATTTCGCG-TGCGATTCTCTCG
1 TTGCGATTTTCATTTCGCGTTGCGATTCTCTCG
*
61521 TTGCGATTTTCATTTCTCTCGTTGCGACAGTCATTCTCTCG
1 TTGCGATTTTCA-TT-TCGCGTT--G-C-G--ATTCTCTCG
61562 TTGCGATTTTCATTTC
1 TTGCGATTTTCATTTC
61578 AACCAAAAGA
Statistics
Matches: 78, Mismatches: 1, Indels: 13
0.85 0.01 0.14
Matches are distributed among these distances:
32 37 0.47
33 8 0.10
34 4 0.05
35 1 0.01
37 1 0.01
38 1 0.01
39 3 0.04
40 2 0.03
41 21 0.27
ACGTcount: A:0.11, C:0.25, G:0.19, T:0.45
Consensus pattern (33 bp):
TTGCGATTTTCATTTCGCGTTGCGATTCTCTCG
Found at i:61539 original size:21 final size:21
Alignment explanation
Indices: 61513--61577 Score: 96
Period size: 21 Copynumber: 3.1 Consensus size: 21
61503 TCGCGTGCGA
61513 TTCTCTCGTTGCGATTTTCAT
1 TTCTCTCGTTGCGATTTTCAT
***
61534 TTCTCTCGTTGCGACAGTCA-
1 TTCTCTCGTTGCGATTTTCAT
61554 TTCTCTCGTTGCGATTTTCAT
1 TTCTCTCGTTGCGATTTTCAT
61575 TTC
1 TTC
61578 AACCAAAAGA
Statistics
Matches: 37, Mismatches: 6, Indels: 2
0.82 0.13 0.04
Matches are distributed among these distances:
20 17 0.46
21 20 0.54
ACGTcount: A:0.11, C:0.26, G:0.15, T:0.48
Consensus pattern (21 bp):
TTCTCTCGTTGCGATTTTCAT
Found at i:61574 original size:20 final size:20
Alignment explanation
Indices: 61512--61575 Score: 92
Period size: 20 Copynumber: 3.1 Consensus size: 20
61502 TTCGCGTGCG
61512 ATTCTCTCGTTGCGATTTTC
1 ATTCTCTCGTTGCGATTTTC
***
61532 ATTTCTCTCGTTGCGACAGTC
1 A-TTCTCTCGTTGCGATTTTC
61553 ATTCTCTCGTTGCGATTTTC
1 ATTCTCTCGTTGCGATTTTC
61573 ATT
1 ATT
61576 TCAACCAAAA
Statistics
Matches: 37, Mismatches: 6, Indels: 2
0.82 0.13 0.04
Matches are distributed among these distances:
20 20 0.54
21 17 0.46
ACGTcount: A:0.12, C:0.25, G:0.16, T:0.47
Consensus pattern (20 bp):
ATTCTCTCGTTGCGATTTTC
Found at i:63419 original size:93 final size:92
Alignment explanation
Indices: 63260--63477 Score: 418
Period size: 93 Copynumber: 2.4 Consensus size: 92
63250 ATTGCTTAGT
*
63260 AATTTATTCGGTTGCTGCCAATTCTGCTAAACTGTGTATTCTTTAACACTGTGAAATAGTATTTG
1 AATTTGTTCGGTTGCTGCCAATTCTGCTAAACTGTGTATTCTTTAACACTGTGAAATAGTATTTG
63325 TCTTTGTTTTGTCTTTTGGTTGAAAGTA
66 TCTTTG-TTTGTCTTTTGGTTGAAAGTA
63353 AATTTGTTCGGTTGCTGCCAATTCTGCTAAACTGTGTATTCTTTAACACTGTGAAATAGTATTTG
1 AATTTGTTCGGTTGCTGCCAATTCTGCTAAACTGTGTATTCTTTAACACTGTGAAATAGTATTTG
63418 TCTTTGTTTGTCTTTTGGTTGAAAGTA
66 TCTTTGTTTGTCTTTTGGTTGAAAGTA
63445 AATTTGTTCGGTTGCTGCCAATTCTGCTAAACT
1 AATTTGTTCGGTTGCTGCCAATTCTGCTAAACT
63478 AATACCCTGA
Statistics
Matches: 124, Mismatches: 1, Indels: 1
0.98 0.01 0.01
Matches are distributed among these distances:
92 54 0.44
93 70 0.56
ACGTcount: A:0.22, C:0.14, G:0.19, T:0.45
Consensus pattern (92 bp):
AATTTGTTCGGTTGCTGCCAATTCTGCTAAACTGTGTATTCTTTAACACTGTGAAATAGTATTTG
TCTTTGTTTGTCTTTTGGTTGAAAGTA
Found at i:63631 original size:19 final size:19
Alignment explanation
Indices: 63607--63665 Score: 83
Period size: 19 Copynumber: 3.4 Consensus size: 19
63597 GCAACGAGAG
63607 AATCGCAACGCGAAACCAA
1 AATCGCAACGCGAAACCAA
63626 AATCGCAA--CG--A-CAA
1 AATCGCAACGCGAAACCAA
63640 AATCGCAACGCGAAACCAA
1 AATCGCAACGCGAAACCAA
63659 AATCGCA
1 AATCGCA
63666 TTGCGATTTT
Statistics
Matches: 35, Mismatches: 0, Indels: 10
0.78 0.00 0.22
Matches are distributed among these distances:
14 11 0.31
15 1 0.03
16 2 0.06
17 2 0.06
18 1 0.03
19 18 0.51
ACGTcount: A:0.47, C:0.31, G:0.15, T:0.07
Consensus pattern (19 bp):
AATCGCAACGCGAAACCAA
Found at i:63633 original size:33 final size:33
Alignment explanation
Indices: 63575--63665 Score: 137
Period size: 33 Copynumber: 2.7 Consensus size: 33
63565 TAGTTTACTT
* * * *
63575 TCGCAACACGAAACTTAAAATCGCAACGAGAGAA
1 TCGCAACGCGAAAC-CAAAATCGCAACGACAAAA
63609 TCGCAACGCGAAACCAAAATCGCAACGACAAAA
1 TCGCAACGCGAAACCAAAATCGCAACGACAAAA
63642 TCGCAACGCGAAACCAAAATCGCA
1 TCGCAACGCGAAACCAAAATCGCA
63666 TTGCGATTTT
Statistics
Matches: 53, Mismatches: 4, Indels: 1
0.91 0.07 0.02
Matches are distributed among these distances:
33 40 0.75
34 13 0.25
ACGTcount: A:0.46, C:0.29, G:0.16, T:0.09
Consensus pattern (33 bp):
TCGCAACGCGAAACCAAAATCGCAACGACAAAA
Found at i:63642 original size:14 final size:14
Alignment explanation
Indices: 63591--63649 Score: 55
Period size: 14 Copynumber: 3.9 Consensus size: 14
63581 CACGAAACTT
*
63591 AAAATCGCAACGAG
1 AAAATCGCAACGAC
*
63605 AGAATCGCAACGCGAAACC
1 AAAATCGCAA--CG--A-C
63624 AAAATCGCAACGAC
1 AAAATCGCAACGAC
63638 AAAATCGCAACG
1 AAAATCGCAACG
63650 CGAAACCAAA
Statistics
Matches: 37, Mismatches: 3, Indels: 10
0.74 0.06 0.20
Matches are distributed among these distances:
14 22 0.59
15 1 0.03
16 2 0.05
17 2 0.05
18 1 0.03
19 9 0.24
ACGTcount: A:0.47, C:0.27, G:0.19, T:0.07
Consensus pattern (14 bp):
AAAATCGCAACGAC
Found at i:63683 original size:19 final size:19
Alignment explanation
Indices: 63661--63833 Score: 159
Period size: 19 Copynumber: 9.6 Consensus size: 19
63651 GAAACCAAAA
*
63661 TCGCATTGCGATTTTCATT
1 TCGCGTTGCGATTTTCATT
63680 TCGCGTTGCGA--TTC---
1 TCGCGTTGCGATTTTCATT
*
63694 TCTCGTTGCGATTTTCATT
1 TCGCGTTGCGATTTTCATT
* *
63713 TCGCATTGCGA--TTC-TG
1 TCGCGTTGCGATTTTCATT
63729 T--CGTTGCGATTTTCATT
1 TCGCGTTGCGATTTTCATT
**
63746 TCGCGTTGCGATTTTGGTT
1 TCGCGTTGCGATTTTCATT
**
63765 TCGCGTTGCGATTTTGGTT
1 TCGCGTTGCGATTTTCATT
* *
63784 TCTCGTTGCGATTCTCATT
1 TCGCGTTGCGATTTTCATT
*
63803 TCGCGTTGCGATTTTAAGTT
1 TCGCGTTGCGATTTTCA-TT
*
63823 TCGTGTTGCGA
1 TCGCGTTGCGA
63834 AAGTAAACTA
Statistics
Matches: 126, Mismatches: 17, Indels: 21
0.77 0.10 0.13
Matches are distributed among these distances:
14 17 0.13
16 8 0.06
17 8 0.06
19 81 0.64
20 12 0.10
ACGTcount: A:0.10, C:0.20, G:0.24, T:0.46
Consensus pattern (19 bp):
TCGCGTTGCGATTTTCATT
Found at i:63702 original size:14 final size:14
Alignment explanation
Indices: 63683--63739 Score: 51
Period size: 14 Copynumber: 3.7 Consensus size: 14
63673 TTTCATTTCG
63683 CGTTGCGATTCTCT
1 CGTTGCGATTCTCT
*
63697 CGTTGCGATTTTCATTT
1 CGTTGCGA--TTC-TCT
*
63714 CGCATTGCGATTCTGT
1 CG--TTGCGATTCTCT
63730 CGTTGCGATT
1 CGTTGCGATT
63740 TTCATTTCGC
Statistics
Matches: 36, Mismatches: 2, Indels: 10
0.75 0.04 0.21
Matches are distributed among these distances:
14 16 0.44
16 7 0.19
17 7 0.19
19 6 0.17
ACGTcount: A:0.11, C:0.23, G:0.23, T:0.44
Consensus pattern (14 bp):
CGTTGCGATTCTCT
Found at i:63791 original size:38 final size:38
Alignment explanation
Indices: 63661--63833 Score: 168
Period size: 33 Copynumber: 4.8 Consensus size: 38
63651 GAAACCAAAA
*
63661 TCGCATTGCGATTTTCATTTCGCGTTGCGATTCTC---
1 TCGCGTTGCGATTTTCATTTCGCGTTGCGATTCTCATT
* *
63696 T--CGTTGCGATTTTCATTTCGCATTGCGA-T-TC-TG
1 TCGCGTTGCGATTTTCATTTCGCGTTGCGATTCTCATT
* **
63729 T--CGTTGCGATTTTCATTTCGCGTTGCGATTTTGGTT
1 TCGCGTTGCGATTTTCATTTCGCGTTGCGATTCTCATT
** *
63765 TCGCGTTGCGATTTTGGTTTCTCGTTGCGATTCTCATT
1 TCGCGTTGCGATTTTCATTTCGCGTTGCGATTCTCATT
* *
63803 TCGCGTTGCGATTTTAAGTTTCGTGTTGCGA
1 TCGCGTTGCGATTTTCA-TTTCGCGTTGCGA
63834 AAGTAAACTA
Statistics
Matches: 115, Mismatches: 15, Indels: 12
0.81 0.11 0.08
Matches are distributed among these distances:
31 2 0.02
32 1 0.01
33 52 0.45
34 1 0.01
35 2 0.02
36 2 0.02
38 44 0.38
39 11 0.10
ACGTcount: A:0.10, C:0.20, G:0.24, T:0.46
Consensus pattern (38 bp):
TCGCGTTGCGATTTTCATTTCGCGTTGCGATTCTCATT
Found at i:65784 original size:13 final size:14
Alignment explanation
Indices: 65759--65793 Score: 54
Period size: 13 Copynumber: 2.6 Consensus size: 14
65749 ATTGTTTAAT
65759 TGATTTGTAAAAGA
1 TGATTTGTAAAAGA
*
65773 TGATTTGT-AAAGT
1 TGATTTGTAAAAGA
65786 TGATTTGT
1 TGATTTGT
65794 GTAATTGATG
Statistics
Matches: 20, Mismatches: 1, Indels: 1
0.91 0.05 0.05
Matches are distributed among these distances:
13 12 0.60
14 8 0.40
ACGTcount: A:0.31, C:0.00, G:0.23, T:0.46
Consensus pattern (14 bp):
TGATTTGTAAAAGA
Found at i:65908 original size:19 final size:19
Alignment explanation
Indices: 65884--65971 Score: 114
Period size: 19 Copynumber: 4.8 Consensus size: 19
65874 GCATTATGTT
65884 GAAATGAAAATCGCAATGC
1 GAAATGAAAATCGCAATGC
65903 GAAATGAAAATCGCAA--C
1 GAAATGAAAATCGCAATGC
*
65920 G--A-GAGAATCGCAATGC
1 GAAATGAAAATCGCAATGC
*
65936 GAAATGAAAATCGTAATGC
1 GAAATGAAAATCGCAATGC
65955 GGAAATGAAAATCGCAA
1 -GAAATGAAAATCGCAA
65972 CGAGAGAATC
Statistics
Matches: 59, Mismatches: 4, Indels: 11
0.80 0.05 0.15
Matches are distributed among these distances:
14 10 0.17
15 1 0.02
16 2 0.03
17 2 0.03
18 1 0.02
19 28 0.47
20 15 0.25
ACGTcount: A:0.48, C:0.15, G:0.23, T:0.15
Consensus pattern (19 bp):
GAAATGAAAATCGCAATGC
Found at i:65974 original size:53 final size:52
Alignment explanation
Indices: 65884--65990 Score: 196
Period size: 53 Copynumber: 2.0 Consensus size: 52
65874 GCATTATGTT
65884 GAAATGAAAATCGCAATGCGAAATGAAAATCGCAACGAGAGAATCGCAATGC
1 GAAATGAAAATCGCAATGCGAAATGAAAATCGCAACGAGAGAATCGCAATGC
*
65936 GAAATGAAAATCGTAATGCGGAAATGAAAATCGCAACGAGAGAATCGCAATGC
1 GAAATGAAAATCGCAATGC-GAAATGAAAATCGCAACGAGAGAATCGCAATGC
65989 GA
1 GA
65991 TTTTCATTTC
Statistics
Matches: 53, Mismatches: 1, Indels: 1
0.96 0.02 0.02
Matches are distributed among these distances:
52 18 0.34
53 35 0.66
ACGTcount: A:0.46, C:0.16, G:0.24, T:0.14
Consensus pattern (52 bp):
GAAATGAAAATCGCAATGCGAAATGAAAATCGCAACGAGAGAATCGCAATGC
Found at i:66008 original size:19 final size:19
Alignment explanation
Indices: 65980--66221 Score: 247
Period size: 19 Copynumber: 13.7 Consensus size: 19
65970 AACGAGAGAA
*
65980 TCGCAATGCGATTTTCATT
1 TCGCATTGCGATTTTCATT
65999 TCGCATTGCGATTTTCATT
1 TCGCATTGCGATTTTCATT
** *
66018 TCCGCATTAAGA--TTC-TC
1 T-CGCATTGCGATTTTCATT
66035 TCG--TTGCGATTTTCATT
1 TCGCATTGCGATTTTCATT
66052 TCGCATTGCGATTTTCATT
1 TCGCATTGCGATTTTCATT
*
66071 TCGCATTGCGA--TTC-TC
1 TCGCATTGCGATTTTCATT
66087 TCG--TTGCGATTTTCATT
1 TCGCATTGCGATTTTCATT
66104 TCGCATTGCGA-TTTCATT
1 TCGCATTGCGATTTTCATT
*
66122 TCCGCATTGCGA--TTC-TC
1 T-CGCATTGCGATTTTCATT
66139 TCG--TTGCGATTTTCATT
1 TCGCATTGCGATTTTCATT
66156 TCGCATTGCGATTTTCATT
1 TCGCATTGCGATTTTCATT
66175 TCCGCATTGCGATTTTC--T
1 T-CGCATTGCGATTTTCATT
*
66193 T-G--TTGGGATTTTCATT
1 TCGCATTGCGATTTTCATT
66209 TCGCATTGCGATT
1 TCGCATTGCGATT
66222 CTCTCGTTGC
Statistics
Matches: 187, Mismatches: 13, Indels: 46
0.76 0.05 0.19
Matches are distributed among these distances:
14 26 0.14
16 20 0.11
17 20 0.11
18 16 0.09
19 82 0.44
20 23 0.12
ACGTcount: A:0.15, C:0.22, G:0.17, T:0.45
Consensus pattern (19 bp):
TCGCATTGCGATTTTCATT
Found at i:66098 original size:52 final size:53
Alignment explanation
Indices: 65986--66221 Score: 413
Period size: 52 Copynumber: 4.5 Consensus size: 53
65976 AGAATCGCAA
**
65986 TGCGATTTTCATTTCGCATTGCGATTTTCATTTCCGCATTAAGATTCTCTCGT
1 TGCGATTTTCATTTCGCATTGCGATTTTCATTTCCGCATTGCGATTCTCTCGT
66039 TGCGATTTTCATTTCGCATTGCGATTTTCATTT-CGCATTGCGATTCTCTCGT
1 TGCGATTTTCATTTCGCATTGCGATTTTCATTTCCGCATTGCGATTCTCTCGT
66091 TGCGATTTTCATTTCGCATTGCGA-TTTCATTTCCGCATTGCGATTCTCTCGT
1 TGCGATTTTCATTTCGCATTGCGATTTTCATTTCCGCATTGCGATTCTCTCGT
* *
66143 TGCGATTTTCATTTCGCATTGCGATTTTCATTTCCGCATTGCGATTTTCTTGT
1 TGCGATTTTCATTTCGCATTGCGATTTTCATTTCCGCATTGCGATTCTCTCGT
*
66196 TGGGATTTTCATTTCGCATTGCGATT
1 TGCGATTTTCATTTCGCATTGCGATT
66222 CTCTCGTTGC
Statistics
Matches: 176, Mismatches: 5, Indels: 4
0.95 0.03 0.02
Matches are distributed among these distances:
51 8 0.05
52 84 0.48
53 84 0.48
ACGTcount: A:0.14, C:0.22, G:0.17, T:0.46
Consensus pattern (53 bp):
TGCGATTTTCATTTCGCATTGCGATTTTCATTTCCGCATTGCGATTCTCTCGT
Found at i:66243 original size:33 final size:33
Alignment explanation
Indices: 66057--66235 Score: 175
Period size: 33 Copynumber: 5.2 Consensus size: 33
66047 TCATTTCGCA
66057 TTGCGATTTTCATTTCGCATTGCGATTCTCTCG
1 TTGCGATTTTCATTTCGCATTGCGATTCTCTCG
*
66090 TTGCGATTTTCATTTCGCATTGCGATTTCATTTCCG
1 TTGCGATTTTCATTTCGCATTGCGA-TTC-TCT-CG
* * * * *
66126 CATTGCGATTCTCTCGTTGCG-ATTTTC-ATT-TCGCA
1 --TTGCGATT-T-TCATTTCGCA-TTGCGATTCTCTCG
* *
66161 TTGCGATTTTCATTTCCGCATTGCGATTTTCTTG
1 TTGCGATTTTCATTT-CGCATTGCGATTCTCTCG
*
66195 TTGGGATTTTCATTTCGCATTGCGATTCTCTCG
1 TTGCGATTTTCATTTCGCATTGCGATTCTCTCG
66228 TTGCGATT
1 TTGCGATT
66236 GTAATTTCCG
Statistics
Matches: 117, Mismatches: 17, Indels: 24
0.74 0.11 0.15
Matches are distributed among these distances:
31 4 0.03
32 6 0.05
33 60 0.51
34 19 0.16
35 3 0.03
36 3 0.03
38 10 0.09
39 3 0.03
40 9 0.08
ACGTcount: A:0.13, C:0.22, G:0.18, T:0.46
Consensus pattern (33 bp):
TTGCGATTTTCATTTCGCATTGCGATTCTCTCG
Found at i:68534 original size:12 final size:12
Alignment explanation
Indices: 68517--68541 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
68507 TCTTCGGGGA
68517 CTTTTTCTTCTT
1 CTTTTTCTTCTT
68529 CTTTTTCTTCTT
1 CTTTTTCTTCTT
68541 C
1 C
68542 AGGATTATAT
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:0.00, C:0.28, G:0.00, T:0.72
Consensus pattern (12 bp):
CTTTTTCTTCTT
Found at i:68750 original size:24 final size:24
Alignment explanation
Indices: 68716--68762 Score: 69
Period size: 24 Copynumber: 2.0 Consensus size: 24
68706 CTGAAACATC
68716 ATCAAAATCCGTG-TATTGACCAAT
1 ATCAAAATCCG-GATATTGACCAAT
*
68740 ATCAAAGTCCGGATATTGACCAA
1 ATCAAAATCCGGATATTGACCAA
68763 GACCAAATTT
Statistics
Matches: 21, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
23 1 0.05
24 20 0.95
ACGTcount: A:0.38, C:0.21, G:0.15, T:0.26
Consensus pattern (24 bp):
ATCAAAATCCGGATATTGACCAAT
Found at i:69482 original size:20 final size:20
Alignment explanation
Indices: 69454--69682 Score: 217
Period size: 20 Copynumber: 11.4 Consensus size: 20
69444 AAATTTCAGT
* * *
69454 GTTGTGATTTACAGATTCTC
1 GTTGCGATTTACGGATTCGC
**
69474 GTTGCGATTTACGGATTATC
1 GTTGCGATTTACGGATTCGC
* *
69494 GTTGCGATTTACAGATTCTC
1 GTTGCGATTTACGGATTCGC
**
69514 GTTGCGATTTACGGATTATC
1 GTTGCGATTTACGGATTCGC
*
69534 GTTGCGATTTACGGATACGC
1 GTTGCGATTTACGGATTCGC
* *
69554 GTTGCGATATACGGATACGC
1 GTTGCGATTTACGGATTCGC
* * *
69574 ATTACGATTTACGGATACGC
1 GTTGCGATTTACGGATTCGC
* * *
69594 GTTGCTATTTACGGATACAC
1 GTTGCGATTTACGGATTCGC
* *
69614 GTTGCGGTTTACGGATACGC
1 GTTGCGATTTACGGATTCGC
* *
69634 GTTGCAATTTATGTG-TTCGC
1 GTTGCGATTTACG-GATTCGC
* **
69654 GTTGCGATTTTCATATTCGC
1 GTTGCGATTTACGGATTCGC
69674 GTTGCGATT
1 GTTGCGATT
69683 CTTGAAAATC
Statistics
Matches: 177, Mismatches: 30, Indels: 4
0.84 0.14 0.02
Matches are distributed among these distances:
20 176 0.99
21 1 0.01
ACGTcount: A:0.20, C:0.18, G:0.25, T:0.37
Consensus pattern (20 bp):
GTTGCGATTTACGGATTCGC
Found at i:69735 original size:21 final size:20
Alignment explanation
Indices: 69650--69747 Score: 81
Period size: 21 Copynumber: 4.8 Consensus size: 20
69640 ATTTATGTGT
* *
69650 TCGCGTTGCGATTTTCATAT
1 TCGCGTTGCGATTTTCAAAA
*
69670 TCGCGTTGCGATTCTTGAAAA
1 TCGCGTTGCGATT-TTCAAAA
** **
69691 TCGCAATGCGAATTTGT-ACTA
1 TCGCGTTGCG-ATTT-TCAAAA
*
69712 TCGCATTGCGATTTTCAAGAA
1 TCGCGTTGCGATTTTCAA-AA
69733 TCGCGTTGCGATTTT
1 TCGCGTTGCGATTTT
69748 GGAAACTGAT
Statistics
Matches: 62, Mismatches: 11, Indels: 9
0.76 0.13 0.11
Matches are distributed among these distances:
19 1 0.02
20 18 0.29
21 39 0.63
22 4 0.06
ACGTcount: A:0.21, C:0.19, G:0.21, T:0.38
Consensus pattern (20 bp):
TCGCGTTGCGATTTTCAAAA
Found at i:69743 original size:42 final size:43
Alignment explanation
Indices: 69650--69748 Score: 100
Period size: 42 Copynumber: 2.4 Consensus size: 43
69640 ATTTATGTGT
* *
69650 TCGCGTTGCG-ATTT-TCATATTCGCGTTGCGATTCTTGAAAA
1 TCGCGTTGCGAATTTGTCATATTCGCATTGCGATTCTTCAAAA
**
69691 TCGCAATGCGAATTTGT-ACTA-TCGCATTGCGATT-TTCAAGAA
1 TCGCGTTGCGAATTTGTCA-TATTCGCATTGCGATTCTTCAA-AA
*
69733 TCGCGTTGCGATTTTG
1 TCGCGTTGCGAATTTG
69749 GAAACTGATT
Statistics
Matches: 47, Mismatches: 7, Indels: 7
0.77 0.11 0.11
Matches are distributed among these distances:
41 12 0.26
42 32 0.68
43 3 0.06
ACGTcount: A:0.21, C:0.19, G:0.22, T:0.37
Consensus pattern (43 bp):
TCGCGTTGCGAATTTGTCATATTCGCATTGCGATTCTTCAAAA
Found at i:77663 original size:20 final size:19
Alignment explanation
Indices: 77626--77673 Score: 64
Period size: 19 Copynumber: 2.6 Consensus size: 19
77616 AATTTTACAG
77626 ATAT-AAAAAATCAGAAAA
1 ATATAAAAAAATCAGAAAA
*
77644 ATATAAAAAAATCTGAAAA
1 ATATAAAAAAATCAGAAAA
77663 AT-TACAAAAAA
1 ATATA-AAAAAA
77674 AATAGTATAA
Statistics
Matches: 27, Mismatches: 1, Indels: 3
0.87 0.03 0.10
Matches are distributed among these distances:
18 6 0.22
19 21 0.78
ACGTcount: A:0.71, C:0.06, G:0.04, T:0.19
Consensus pattern (19 bp):
ATATAAAAAAATCAGAAAA
Found at i:77708 original size:10 final size:10
Alignment explanation
Indices: 77695--77739 Score: 51
Period size: 10 Copynumber: 4.8 Consensus size: 10
77685 TATTTATCTA
77695 ATTTTAATAT
1 ATTTTAATAT
* *
77705 ATTTTTATCT
1 ATTTTAATAT
77715 ATTTT-ATA-
1 ATTTTAATAT
77723 A-TTTAATAT
1 ATTTTAATAT
77732 ATTTTAAT
1 ATTTTAAT
77740 TAAAAAAAGA
Statistics
Matches: 29, Mismatches: 3, Indels: 6
0.76 0.08 0.16
Matches are distributed among these distances:
7 3 0.10
8 4 0.14
9 3 0.10
10 19 0.66
ACGTcount: A:0.36, C:0.02, G:0.00, T:0.62
Consensus pattern (10 bp):
ATTTTAATAT
Found at i:79942 original size:16 final size:16
Alignment explanation
Indices: 79923--79953 Score: 53
Period size: 16 Copynumber: 1.9 Consensus size: 16
79913 GGTTAGTTTA
*
79923 AAAAAGGAAATAAAAC
1 AAAAAGAAAATAAAAC
79939 AAAAAGAAAATAAAA
1 AAAAAGAAAATAAAA
79954 AAATTAAAAT
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
16 14 1.00
ACGTcount: A:0.81, C:0.03, G:0.10, T:0.06
Consensus pattern (16 bp):
AAAAAGAAAATAAAAC
Found at i:80005 original size:15 final size:15
Alignment explanation
Indices: 79930--80025 Score: 59
Period size: 15 Copynumber: 6.0 Consensus size: 15
79920 TTAAAAAAGG
79930 AAATAAAACAAA-AAGA
1 AAATAAAA-AAATAA-A
79946 AAATAAAAAAATTAAA
1 AAATAAAAAAA-TAAA
*
79962 ATAATATAAAATATATATA
1 A-AATA-AAAA-A-ATAAA
* * *
79981 ATACAAAAAAATAAG
1 AAATAAAAAAATAAA
* *
79996 TAATAAAAAATTAAA
1 AAATAAAAAAATAAA
*
80011 AAATAAATAAATAAA
1 AAATAAAAAAATAAA
80026 TAGTATATAT
Statistics
Matches: 61, Mismatches: 13, Indels: 13
0.70 0.15 0.15
Matches are distributed among these distances:
15 28 0.46
16 11 0.18
17 10 0.16
18 6 0.10
19 5 0.08
20 1 0.02
ACGTcount: A:0.75, C:0.02, G:0.02, T:0.21
Consensus pattern (15 bp):
AAATAAAAAAATAAA
Found at i:80528 original size:35 final size:35
Alignment explanation
Indices: 80465--80564 Score: 119
Period size: 35 Copynumber: 2.7 Consensus size: 35
80455 TTTCGTCCTA
*
80465 CTAGGATTCAAACTCTCAAAAATAGGATAGAATTCTG
1 CTAGGATTC-AACTC-CTAAAATAGGATAGAATTCTG
*
80502 CTAGGATTCAACTCCTAAAATAGGATAGAATTTTG
1 CTAGGATTCAACTCCTAAAATAGGATAGAATTCTG
** *
80537 CTATGTTTTAAACTCCTAAAGATAGGAT
1 CTA-GGATTCAACTCCTAAA-ATAGGAT
80565 CCACAAGCAC
Statistics
Matches: 56, Mismatches: 5, Indels: 4
0.86 0.08 0.06
Matches are distributed among these distances:
35 22 0.39
36 18 0.32
37 16 0.29
ACGTcount: A:0.38, C:0.15, G:0.16, T:0.31
Consensus pattern (35 bp):
CTAGGATTCAACTCCTAAAATAGGATAGAATTCTG
Found at i:81113 original size:21 final size:19
Alignment explanation
Indices: 81089--81142 Score: 56
Period size: 21 Copynumber: 2.7 Consensus size: 19
81079 TTTTACTTTT
81089 TTTATATATTTTACTCATTTA
1 TTTATATATTTTA-T-ATTTA
*
81110 TTTATCTATTTTTATATTTA
1 TTTATATA-TTTTATATTTA
*
81130 -TCATATATTTTAT
1 TTTATATATTTTAT
81143 GTTTTTATAT
Statistics
Matches: 29, Mismatches: 3, Indels: 5
0.78 0.08 0.14
Matches are distributed among these distances:
18 6 0.21
19 5 0.17
20 5 0.17
21 8 0.28
22 5 0.17
ACGTcount: A:0.28, C:0.07, G:0.00, T:0.65
Consensus pattern (19 bp):
TTTATATATTTTATATTTA
Found at i:81129 original size:16 final size:18
Alignment explanation
Indices: 81108--81142 Score: 56
Period size: 16 Copynumber: 2.1 Consensus size: 18
81098 TTTACTCATT
81108 TATTTATC-TAT-TTTTA
1 TATTTATCATATATTTTA
81124 TATTTATCATATATTTTA
1 TATTTATCATATATTTTA
81142 T
1 T
81143 GTTTTTATAT
Statistics
Matches: 17, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
16 8 0.47
17 3 0.18
18 6 0.35
ACGTcount: A:0.29, C:0.06, G:0.00, T:0.66
Consensus pattern (18 bp):
TATTTATCATATATTTTA
Found at i:85011 original size:20 final size:21
Alignment explanation
Indices: 84988--85059 Score: 71
Period size: 20 Copynumber: 3.5 Consensus size: 21
84978 AACAAAAAGG
84988 GCAAAAAAAAAAGAA-AAGAA
1 GCAAAAAAAAAAGAACAAGAA
85008 GCAAAAAAGGAAAA-AACAAGAA
1 GCAAAAAA--AAAAGAACAAGAA
*
85030 -CAAAAAAGAAAGAACAA-AA
1 GCAAAAAAAAAAGAACAAGAA
**
85049 ATAAAAAAAAA
1 GCAAAAAAAAA
85060 GGGGACAAAA
Statistics
Matches: 44, Mismatches: 3, Indels: 10
0.77 0.05 0.18
Matches are distributed among these distances:
19 5 0.11
20 21 0.48
21 9 0.20
22 9 0.20
ACGTcount: A:0.79, C:0.07, G:0.12, T:0.01
Consensus pattern (21 bp):
GCAAAAAAAAAAGAACAAGAA
Found at i:85695 original size:22 final size:22
Alignment explanation
Indices: 85667--85717 Score: 93
Period size: 22 Copynumber: 2.3 Consensus size: 22
85657 CCCCATCAAT
85667 CCTTTGAGCATCAAATACCAAA
1 CCTTTGAGCATCAAATACCAAA
*
85689 CCTTTGAGCATCAAATGCCAAA
1 CCTTTGAGCATCAAATACCAAA
85711 CCTTTGA
1 CCTTTGA
85718 CCAAACACAA
Statistics
Matches: 28, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
22 28 1.00
ACGTcount: A:0.35, C:0.27, G:0.12, T:0.25
Consensus pattern (22 bp):
CCTTTGAGCATCAAATACCAAA
Found at i:86678 original size:37 final size:37
Alignment explanation
Indices: 86584--86693 Score: 159
Period size: 37 Copynumber: 3.0 Consensus size: 37
86574 GTGCTCACCA
*
86584 TTGTCTCTCTTGAGACAGTTTCCCTTGAAA-TAAACT
1 TTGTCTCTCTTGAGACAGTTTCCCTTGAAACAAAACT
*
86620 TTGTCTCTCTTGAGACAGTTTCCCTTGAAACAAAATT
1 TTGTCTCTCTTGAGACAGTTTCCCTTGAAACAAAACT
* * *
86657 TTTTCTCCCTTGAGACAGTTTCTCTTGAAACATAAAC
1 TTGTCTCTCTTGAGACAGTTTCCCTTGAAACA-AAAC
86694 ATTGAAAACA
Statistics
Matches: 66, Mismatches: 6, Indels: 2
0.89 0.08 0.03
Matches are distributed among these distances:
36 30 0.45
37 33 0.50
38 3 0.05
ACGTcount: A:0.26, C:0.23, G:0.13, T:0.38
Consensus pattern (37 bp):
TTGTCTCTCTTGAGACAGTTTCCCTTGAAACAAAACT
Found at i:86751 original size:36 final size:36
Alignment explanation
Indices: 86708--86788 Score: 90
Period size: 37 Copynumber: 2.2 Consensus size: 36
86698 AAAACATTTT
* *
86708 CCTTGAAATGAGTTTTGTCTCTCTTGAGATAGTTTC
1 CCTTGAAATAAATTTTGTCTCTCTTGAGATAGTTTC
* * * *
86744 CCTTGAAACAAAATTTTTTCTCCCTTGAGACAGTTTC
1 CCTTGAAA-TAAATTTTGTCTCTCTTGAGATAGTTTC
*
86781 TCTTGAAA
1 CCTTGAAA
86789 CATAAACATT
Statistics
Matches: 37, Mismatches: 7, Indels: 1
0.82 0.16 0.02
Matches are distributed among these distances:
36 8 0.22
37 29 0.78
ACGTcount: A:0.25, C:0.20, G:0.15, T:0.41
Consensus pattern (36 bp):
CCTTGAAATAAATTTTGTCTCTCTTGAGATAGTTTC
Found at i:86779 original size:37 final size:37
Alignment explanation
Indices: 86720--86790 Score: 106
Period size: 37 Copynumber: 1.9 Consensus size: 37
86710 TTGAAATGAG
* *
86720 TTTTGTCTCTCTTGAGATAGTTTCCCTTGAAACAAAA
1 TTTTGTCTCCCTTGAGACAGTTTCCCTTGAAACAAAA
* *
86757 TTTTTTCTCCCTTGAGACAGTTTCTCTTGAAACA
1 TTTTGTCTCCCTTGAGACAGTTTCCCTTGAAACA
86791 TAAACATTGG
Statistics
Matches: 30, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
37 30 1.00
ACGTcount: A:0.24, C:0.21, G:0.13, T:0.42
Consensus pattern (37 bp):
TTTTGTCTCCCTTGAGACAGTTTCCCTTGAAACAAAA
Found at i:86782 original size:102 final size:102
Alignment explanation
Indices: 86602--86993 Score: 660
Period size: 102 Copynumber: 3.9 Consensus size: 102
86592 CTTGAGACAG
* * * *
86602 TTTCCCTTGAAATAAACTTTGTCTCTCTTGAGACAGTTTCCCTTGAAACAAAATTTTTTCTCCCT
1 TTTCCCTTGAAATGAATTTTGTCTCTCTTGAGATAGTTTCCCTTGAAACAAAATTTTGTCTCCCT
86667 TGAGACAGTTTCTCTTGAAACATAAACATTGAAAACA
66 TGAGACAGTTTCTCTTGAAACATAAACATTGAAAACA
* * *
86704 TTTTCCTTGAAATGAGTTTTGTCTCTCTTGAGATAGTTTCCCTTGAAACAAAATTTTTTCTCCCT
1 TTTCCCTTGAAATGAATTTTGTCTCTCTTGAGATAGTTTCCCTTGAAACAAAATTTTGTCTCCCT
*
86769 TGAGACAGTTTCTCTTGAAACATAAACATTGGAAACA
66 TGAGACAGTTTCTCTTGAAACATAAACATTGAAAACA
86806 TTTCCCTTGAAATGAATTTTGTCTCTCTTGAGATAGTTTCCCTTGAAACAAAATTTTGTCTCCCT
1 TTTCCCTTGAAATGAATTTTGTCTCTCTTGAGATAGTTTCCCTTGAAACAAAATTTTGTCTCCCT
* *
86871 TGAGACAGTTTCTCCTGAAACATAAACATTGAAAATA
66 TGAGACAGTTTCTCTTGAAACATAAACATTGAAAACA
* *
86908 TTTCCCTTGAAATGAATTTCGTCTCTCTTGAGATAATTTCCCTTGAAAC-AAATTTTGTCTCCCT
1 TTTCCCTTGAAATGAATTTTGTCTCTCTTGAGATAGTTTCCCTTGAAACAAAATTTTGTCTCCCT
*
86972 TGAGATAGTTTCTCTTGAAACA
66 TGAGACAGTTTCTCTTGAAACA
86994 CAAAACCTTT
Statistics
Matches: 274, Mismatches: 16, Indels: 1
0.94 0.05 0.00
Matches are distributed among these distances:
101 35 0.13
102 239 0.87
ACGTcount: A:0.29, C:0.20, G:0.12, T:0.38
Consensus pattern (102 bp):
TTTCCCTTGAAATGAATTTTGTCTCTCTTGAGATAGTTTCCCTTGAAACAAAATTTTGTCTCCCT
TGAGACAGTTTCTCTTGAAACATAAACATTGAAAACA
Found at i:86873 original size:37 final size:37
Alignment explanation
Indices: 86806--86892 Score: 115
Period size: 37 Copynumber: 2.4 Consensus size: 37
86796 ATTGGAAACA
** * *
86806 TTTCCCTTGAAA-TGAATTTTGTCTCTCTTGAGATAG
1 TTTCCCTTGAAACAAAATTTTGTCTCCCTTGAGACAG
86842 TTTCCCTTGAAACAAAATTTTGTCTCCCTTGAGACAG
1 TTTCCCTTGAAACAAAATTTTGTCTCCCTTGAGACAG
86879 TTTCTCC-TGAAACA
1 TTTC-CCTTGAAACA
86893 TAAACATTGA
Statistics
Matches: 45, Mismatches: 4, Indels: 3
0.87 0.08 0.06
Matches are distributed among these distances:
36 12 0.27
37 31 0.69
38 2 0.04
ACGTcount: A:0.25, C:0.22, G:0.14, T:0.39
Consensus pattern (37 bp):
TTTCCCTTGAAACAAAATTTTGTCTCCCTTGAGACAG
Found at i:86952 original size:204 final size:203
Alignment explanation
Indices: 86602--87060 Score: 675
Period size: 204 Copynumber: 2.2 Consensus size: 203
86592 CTTGAGACAG
*
86602 TTTCCCTTGAAATAAACTTTGTCTCTCTTGAGACAGTTTCCCTTGAAACAAAATTTTTTCTCCCT
1 TTTCCCTTGAAATAAACTTTGTCTCTCTTGAGACAGTTTCCCTTGAAACAAAATTTTGTCTCCCT
* * * *
86667 TGAGACAGTTTCTCTTGAAACATAAACATTGAAAACATTTTCCTTGAAATGAGTTTTGTCTCTCT
66 TGAGACAGTTTCTCCTGAAACATAAACATTGAAAACATTTCCCTTGAAATGAATTTCGTCTCTCT
* *
86732 TGAGATAGTTTCCCTTGAAACAAAATTTTTTCTCCCTTGAGACAGTTTCTCTTGAAACATAAACA
131 TGAGATAATTTCCCTTGAAAC-AAATTTTGTCTCCCTTGAGACAGTTTCTCTTGAAACATAAACA
86797 TTGGAAACA
195 TTGGAAACA
* * *
86806 TTTCCCTTGAAATGAATTTTGTCTCTCTTGAGATAGTTTCCCTTGAAACAAAATTTTGTCTCCCT
1 TTTCCCTTGAAATAAACTTTGTCTCTCTTGAGACAGTTTCCCTTGAAACAAAATTTTGTCTCCCT
*
86871 TGAGACAGTTTCTCCTGAAACATAAACATTGAAAATATTTCCCTTGAAATGAATTTCGTCTCTCT
66 TGAGACAGTTTCTCCTGAAACATAAACATTGAAAACATTTCCCTTGAAATGAATTTCGTCTCTCT
* * *
86936 TGAGATAATTTCCCTTGAAACAAATTTTGTCTCCCTTGAGATAGTTTCTCTTGAAACACAAAACC
131 TGAGATAATTTCCCTTGAAACAAATTTTGTCTCCCTTGAGACAGTTTCTCTTGAAACA-TAAACA
* ***
87001 TTTGAGATTG
195 TTGGA-AACA
* * * * * *
87011 TTTCCCTCGAAACAAATTTTGTCTCCCATGAGACAGTTTCTCTTGAAACA
1 TTTCCCTTGAAATAAACTTTGTCTCTCTTGAGACAGTTTCCCTTGAAACA
87061 CAAAATCTTT
Statistics
Matches: 228, Mismatches: 25, Indels: 3
0.89 0.10 0.01
Matches are distributed among these distances:
203 35 0.15
204 149 0.65
205 44 0.19
ACGTcount: A:0.29, C:0.21, G:0.13, T:0.37
Consensus pattern (203 bp):
TTTCCCTTGAAATAAACTTTGTCTCTCTTGAGACAGTTTCCCTTGAAACAAAATTTTGTCTCCCT
TGAGACAGTTTCTCCTGAAACATAAACATTGAAAACATTTCCCTTGAAATGAATTTCGTCTCTCT
TGAGATAATTTCCCTTGAAACAAATTTTGTCTCCCTTGAGACAGTTTCTCTTGAAACATAAACAT
TGGAAACA
Found at i:86954 original size:36 final size:36
Alignment explanation
Indices: 86907--86993 Score: 120
Period size: 36 Copynumber: 2.4 Consensus size: 36
86897 CATTGAAAAT
** *
86907 ATTTCCCTTGAAATGAATTTCGTCTCTCTTGAGATA
1 ATTTCCCTTGAAACAAATTTCGTCTCCCTTGAGATA
*
86943 ATTTCCCTTGAAACAAATTTTGTCTCCCTTGAGATA
1 ATTTCCCTTGAAACAAATTTCGTCTCCCTTGAGATA
* *
86979 GTTTCTCTTGAAACA
1 ATTTCCCTTGAAACA
86994 CAAAACCTTT
Statistics
Matches: 45, Mismatches: 6, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
36 45 1.00
ACGTcount: A:0.26, C:0.21, G:0.13, T:0.40
Consensus pattern (36 bp):
ATTTCCCTTGAAACAAATTTCGTCTCCCTTGAGATA
Found at i:87084 original size:67 final size:67
Alignment explanation
Indices: 86935--87109 Score: 228
Period size: 67 Copynumber: 2.6 Consensus size: 67
86925 TTCGTCTCTC
** * *
86935 TTGAGATAATTTCCCTTGAAACAAATTTTGTCTCCCTTGAGATAGTTTCTCTTGAAACACAAAAC
1 TTGAGATTGTTTCCCTTGAAACAAATTTTGTCTCCCATGAGACAGTTTCTCTTGAAACACAAAAC
87000 CT
66 CT
* *
87002 TTGAGATTGTTTCCCTCGAAACAAATTTTGTCTCCCATGAGACAGTTTCTCTTGAAACACAAAAT
1 TTGAGATTGTTTCCCTTGAAACAAATTTTGTCTCCCATGAGACAGTTTCTCTTGAAACACAAAAC
87067 CT
66 CT
* * *
87069 TTGA-ATT-TATCTCCCTTAAAACAAAATTTTGTTTCTCATGA
1 TTGAGATTGT-T-TCCCTTGAAAC-AAATTTTGTCTCCCATGA
87110 AACAACAGAT
Statistics
Matches: 95, Mismatches: 10, Indels: 5
0.86 0.09 0.05
Matches are distributed among these distances:
65 1 0.01
66 4 0.04
67 74 0.78
68 16 0.17
ACGTcount: A:0.31, C:0.21, G:0.11, T:0.37
Consensus pattern (67 bp):
TTGAGATTGTTTCCCTTGAAACAAATTTTGTCTCCCATGAGACAGTTTCTCTTGAAACACAAAAC
CT
Found at i:87307 original size:36 final size:36
Alignment explanation
Indices: 87227--87322 Score: 122
Period size: 36 Copynumber: 2.6 Consensus size: 36
87217 CATCTCCCCG
* * * *
87227 TGAGACAATTTCTTTTGGAACTAAGTTTTGTCTCTCT
1 TGAGACAGTTTCTCTTGAAAC-AAGTTTTGTCTATCT
87264 TGAGACAGTTTCTCTTGAAACAA-TTTTCGTCTATCT
1 TGAGACAGTTTCTCTTGAAACAAGTTTT-GTCTATCT
*
87300 TGAGACAGTTTCCCTTGAAACAA
1 TGAGACAGTTTCTCTTGAAACAA
87323 AATCTTTGAA
Statistics
Matches: 53, Mismatches: 5, Indels: 3
0.87 0.08 0.05
Matches are distributed among these distances:
35 4 0.08
36 31 0.58
37 18 0.34
ACGTcount: A:0.26, C:0.19, G:0.16, T:0.40
Consensus pattern (36 bp):
TGAGACAGTTTCTCTTGAAACAAGTTTTGTCTATCT
Found at i:87385 original size:65 final size:67
Alignment explanation
Indices: 87281--87438 Score: 196
Period size: 67 Copynumber: 2.4 Consensus size: 67
87271 GTTTCTCTTG
** * * **
87281 AAAC-AATTTTCGTCTATCTTGAGACAGTTTCCCTTG-AA-ACAAAATCTTTGAATTTATTTCCC
1 AAACAAATTTT-GTCTCCCTTGAGACAATTACCCTTGAAACACAAAATCTTCAAATTTATTTCCC
87343 CTA
65 CTA
*
87346 AAACAAATTTTGTCTCCCTTGAGACAATTACCCTTGAAACACAAAATCTTCAAATTTATTTCCCT
1 AAACAAATTTTGTCTCCCTTGAGACAATTACCCTTGAAACACAAAATCTTCAAATTTATTTCCCC
87411 TA
66 TA
* *
87413 AAACATAATTTTATTTCCCTTGAGAC
1 AAACA-AATTTTGTCTCCCTTGAGAC
87439 CGTTTCTCAT
Statistics
Matches: 80, Mismatches: 9, Indels: 5
0.85 0.10 0.05
Matches are distributed among these distances:
65 25 0.31
66 8 0.10
67 29 0.36
68 18 0.22
ACGTcount: A:0.34, C:0.22, G:0.08, T:0.37
Consensus pattern (67 bp):
AAACAAATTTTGTCTCCCTTGAGACAATTACCCTTGAAACACAAAATCTTCAAATTTATTTCCCC
TA
Found at i:87415 original size:67 final size:65
Alignment explanation
Indices: 87272--87438 Score: 192
Period size: 65 Copynumber: 2.5 Consensus size: 65
87262 CTTGAGACAG
* * ** * * **
87272 TTTCTCTTGAAAC-AATTTTCGTCTATCTTGAGACAGTTTCCCTTGAAACAAAATCTTTGAATTT
1 TTTCCCTTAAAACAAATTTT-GTCTCCCTTGAGACAATTACCCTTGAAACAAAATCTTCAAATTT
87336 A
65 A
*
87337 TTTCCCCTAAAACAAATTTTGTCTCCCTTGAGACAATTACCCTTGAAACACAAAATCTTCAAATT
1 TTTCCCTTAAAACAAATTTTGTCTCCCTTGAGACAATTACCCTTG-AA-ACAAAATCTTCAAATT
87402 TA
64 TA
* *
87404 TTTCCCTTAAAACATAATTTTATTTCCCTTGAGAC
1 TTTCCCTTAAAACA-AATTTTGTCTCCCTTGAGAC
87439 CGTTTCTCAT
Statistics
Matches: 86, Mismatches: 12, Indels: 5
0.83 0.12 0.05
Matches are distributed among these distances:
65 31 0.36
66 8 0.09
67 29 0.34
68 18 0.21
ACGTcount: A:0.32, C:0.22, G:0.08, T:0.38
Consensus pattern (65 bp):
TTTCCCTTAAAACAAATTTTGTCTCCCTTGAGACAATTACCCTTGAAACAAAATCTTCAAATTTA
Found at i:88298 original size:105 final size:105
Alignment explanation
Indices: 88059--88834 Score: 803
Period size: 105 Copynumber: 7.3 Consensus size: 105
88049 GCCATCTGCG
* * *
88059 ATTTCAACTCCACGACGGAGGATATCGTGGCACTCGAGACAACACAAGTTCAACTTCACAACGAA
1 ATTTCAACTTCACAACGAAGGATAT--TGG-ACTCGAGACAACACAAGTTCAACTTCACAACGAA
*
88124 GGGACGACTGGTTGTCAACAAACAACTTCTCAATTTCAGAGCCA
63 GGGACGGCTGGTTGTCAAC-AACAACTTCTCAATTTCAGAGCCA
* * * **
88168 ATTTCAACTTCACAACGAAGAATATTGGACTCCAGACAACGCAAGTTCAACTTCACGGCGAAGGG
1 ATTTCAACTTCACAACGAAGGATATTGGACTCGAGACAACACAAGTTCAACTTCACAACGAAGGG
* ** *
88233 ACCGCTGCCTGTCAACAACAGCTTCTCAATTTCAGAGCCA
66 ACGGCTGGTTGTCAACAACAACTTCTCAATTTCAGAGCCA
* * * *
88273 ATTTTAACTTCACAACGAAGGATATTGGACTCCAGACAACGCAAGTTCAACTTCACGACGAAGGG
1 ATTTCAACTTCACAACGAAGGATATTGGACTCGAGACAACACAAGTTCAACTTCACAACGAAGGG
* * *
88338 ACCGCTGCTTGTCAACAACAACTTCTTAATTTCAGAGCCA
66 ACGGCTGGTTGTCAACAACAACTTCTCAATTTCAGAGCCA
* * * * * *
88378 ATTTCAACTCCACGACGGAGGATATCGTGCTACCCGAGACAACACAAGTTCAACTTCATAACGAA
1 ATTTCAACTTCACAACGAAGGATAT--TG-GACTCGAGACAACACAAGTTCAACTTCACAACGAA
* * ** *
88443 GGGACGGCTGGTTGTCAACGAACAACTTTTCAGTTTCA-TTCGCG
63 GGGACGGCTGGTTGTCAAC-AACAACTTCTCAATTTCAGAGC-CA
* * *
88487 ATTTCAAC-TCAACGACGGAGGATATCGTGCCACTCGAGACAACACAAGTTCAACTTCACAACGA
1 ATTTCAACTTC-ACAACGAAGGATAT--TG-GACTCGAGACAACACAAGTTCAACTTCACAACGA
* *
88551 AGGGACGGCTGGTTGTCAACAA-ATATTTTTCAAATTTCAGAGCCA
62 AGGGACGGCTGGTTGTCAACAACA-ACTTCTC-AATTTCAGAGCCA
* * * * *
88596 ATTTCAACTTCGCAGCGAATGATATTGGACTCGAGACAACACAAGTTCAACTTCATAATGAAGGG
1 ATTTCAACTTCACAACGAAGGATATTGGACTCGAGACAACACAAGTTCAACTTCACAACGAAGGG
* * * *
88661 ACGGCTGATTGTCAACAA-GA-TT-TC--GTTCAGAGTCA
66 ACGGCTGGTTGTCAACAACAACTTCTCAATTTCAGAGCCA
* * * * * *
88696 ATTTCATCTTCACAGCGAAGGATATTAGACTCGAGACAGCACAAGCTCAACTTCACAGCGAAGGG
1 ATTTCAACTTCACAACGAAGGATATTGGACTCGAGACAACACAAGTTCAACTTCACAACGAAGGG
* ** * * * * *
88761 GCGGCTGACTGTCAACAAACAATTTCCCAGTTTTAGAACCA
66 ACGGCTGGTTGTCAAC-AACAACTTCTCAATTTCAGAGCCA
* *
88802 ATTTCAACTTCACAGCGGAGGATATTGGACTCG
1 ATTTCAACTTCACAACGAAGGATATTGGACTCG
88835 GAACAATATT
Statistics
Matches: 573, Mismatches: 78, Indels: 35
0.84 0.11 0.05
Matches are distributed among these distances:
100 79 0.14
101 2 0.00
102 1 0.00
103 4 0.01
104 3 0.01
105 144 0.25
106 134 0.23
107 8 0.01
108 56 0.10
109 139 0.24
110 3 0.01
ACGTcount: A:0.32, C:0.25, G:0.20, T:0.23
Consensus pattern (105 bp):
ATTTCAACTTCACAACGAAGGATATTGGACTCGAGACAACACAAGTTCAACTTCACAACGAAGGG
ACGGCTGGTTGTCAACAACAACTTCTCAATTTCAGAGCCA
Found at i:89357 original size:35 final size:35
Alignment explanation
Indices: 89294--89393 Score: 119
Period size: 35 Copynumber: 2.7 Consensus size: 35
89284 TTTCGTCCTA
*
89294 CTAGGATTCAAACTCTCAAAAATAGGATAGAATTCTG
1 CTAGGATTC-AACTC-CTAAAATAGGATAGAATTCTG
*
89331 CTAGGATTCAACTCCTAAAATAGGATAGAATTTTG
1 CTAGGATTCAACTCCTAAAATAGGATAGAATTCTG
** *
89366 CTATGTTTTAAACTCCTAAAGATAGGAT
1 CTA-GGATTCAACTCCTAAA-ATAGGAT
89394 CCACAAGCAC
Statistics
Matches: 56, Mismatches: 5, Indels: 4
0.86 0.08 0.06
Matches are distributed among these distances:
35 22 0.39
36 18 0.32
37 16 0.29
ACGTcount: A:0.38, C:0.15, G:0.16, T:0.31
Consensus pattern (35 bp):
CTAGGATTCAACTCCTAAAATAGGATAGAATTCTG
Found at i:89946 original size:16 final size:18
Alignment explanation
Indices: 89925--89959 Score: 56
Period size: 16 Copynumber: 2.1 Consensus size: 18
89915 TTTACTCATT
89925 TATTTAT-CTAT-TTTTA
1 TATTTATCCTATATTTTA
89941 TATTTATCCTATATTTTA
1 TATTTATCCTATATTTTA
89959 T
1 T
89960 GTTTTTATAT
Statistics
Matches: 17, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
16 7 0.41
17 4 0.24
18 6 0.35
ACGTcount: A:0.26, C:0.09, G:0.00, T:0.66
Consensus pattern (18 bp):
TATTTATCCTATATTTTA
Found at i:100909 original size:6 final size:6
Alignment explanation
Indices: 100898--100922 Score: 50
Period size: 6 Copynumber: 4.2 Consensus size: 6
100888 CAATTCGGAC
100898 GTGCAT GTGCAT GTGCAT GTGCAT G
1 GTGCAT GTGCAT GTGCAT GTGCAT G
100923 CAGGTCCTGG
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 19 1.00
ACGTcount: A:0.16, C:0.16, G:0.36, T:0.32
Consensus pattern (6 bp):
GTGCAT
Found at i:101253 original size:22 final size:22
Alignment explanation
Indices: 101221--101273 Score: 63
Period size: 21 Copynumber: 2.4 Consensus size: 22
101211 AAAAGATAAA
*
101221 AATAGATTTTTAATAAAAAATA-
1 AATA-ATTTTTTATAAAAAATAT
* *
101243 AATAATTTTTTTTAAAATATAT
1 AATAATTTTTTATAAAAAATAT
101265 AATAATTTT
1 AATAATTTT
101274 AAATTTTTAG
Statistics
Matches: 27, Mismatches: 3, Indels: 2
0.84 0.09 0.06
Matches are distributed among these distances:
21 14 0.52
22 13 0.48
ACGTcount: A:0.51, C:0.00, G:0.02, T:0.47
Consensus pattern (22 bp):
AATAATTTTTTATAAAAAATAT
Found at i:105474 original size:13 final size:13
Alignment explanation
Indices: 105456--105480 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
105446 ATGTATTTGA
105456 AATAAATAAAAAG
1 AATAAATAAAAAG
105469 AATAAATAAAAA
1 AATAAATAAAAA
105481 AACTATATAC
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:0.80, C:0.00, G:0.04, T:0.16
Consensus pattern (13 bp):
AATAAATAAAAAG
Found at i:108086 original size:55 final size:55
Alignment explanation
Indices: 107666--108094 Score: 580
Period size: 55 Copynumber: 7.9 Consensus size: 55
107656 CGGGTTCGCT
* * * * * * *
107666 CCCTCTTTCTTTAGAGAGTAT-AGAACTCGGACAATCTTTAATAATCGTGTCTGCT
1 CCCTATTTCTTCAGAGAGTATAAG-ACTCGAACAATCTTCAACAATCGCGTCTGCC
* *
107721 CCCTATTTCTTCAGAGAGTATAAGAC-C-CACAATCTTCATCAATCGCGTCTGCCC
1 CCCTATTTCTTCAGAGAGTATAAGACTCGAACAATCTTCAACAATCGCGTCTG-CC
* * *
107775 CCCTATTTCTTCAGAGGGTATAAGACTCGAGCAATCTTCAACAATCGTGTCTGCC
1 CCCTATTTCTTCAGAGAGTATAAGACTCGAACAATCTTCAACAATCGCGTCTGCC
* *
107830 CCCTATTTCTTCAGAGAGTATAAGAC-C-CACAATCTTCATCAATCGCGTCTGCC
1 CCCTATTTCTTCAGAGAGTATAAGACTCGAACAATCTTCAACAATCGCGTCTGCC
* * *
107883 CCCTATTTCTTCAGAGAGTATAAGACTCGAGCAATCTTCACCAATCGTGTCTGCC
1 CCCTATTTCTTCAGAGAGTATAAGACTCGAACAATCTTCAACAATCGCGTCTGCC
* **
107938 CCCTATTTCTTCAGAGAGTATAAGACTCGAACAATTTTCAATGATCGCGTCTGCC
1 CCCTATTTCTTCAGAGAGTATAAGACTCGAACAATCTTCAACAATCGCGTCTGCC
* * * *
107993 CCCTATTTCTTTAGGGAGTATAAGACTCGAACAATCTTCAACGATCGCATCTGCC
1 CCCTATTTCTTCAGAGAGTATAAGACTCGAACAATCTTCAACAATCGCGTCTGCC
*
108048 CCCTATTTCTTCAGAGAGTATAAGACTCGAACAATCTTCAACGATCG
1 CCCTATTTCTTCAGAGAGTATAAGACTCGAACAATCTTCAACAATCG
108095 TTGGGAAACC
Statistics
Matches: 333, Mismatches: 35, Indels: 12
0.88 0.09 0.03
Matches are distributed among these distances:
53 67 0.20
54 29 0.09
55 215 0.65
56 22 0.07
ACGTcount: A:0.27, C:0.28, G:0.16, T:0.30
Consensus pattern (55 bp):
CCCTATTTCTTCAGAGAGTATAAGACTCGAACAATCTTCAACAATCGCGTCTGCC
Found at i:109034 original size:8 final size:8
Alignment explanation
Indices: 109016--109069 Score: 56
Period size: 8 Copynumber: 6.5 Consensus size: 8
109006 GAACCCTTCT
109016 TTTTTTCCA
1 TTTTTT-CA
109025 TTTTTTCA
1 TTTTTTCA
109033 TTTTTT-A
1 TTTTTTCA
*
109040 TTTTTTTTA
1 -TTTTTTCA
*
109049 TTTTTTTTA
1 -TTTTTTCA
109058 TTTTTTCA
1 TTTTTTCA
109066 TTTT
1 TTTT
109070 CACTCATTTT
Statistics
Matches: 42, Mismatches: 1, Indels: 5
0.88 0.02 0.10
Matches are distributed among these distances:
7 1 0.02
8 25 0.60
9 16 0.38
ACGTcount: A:0.11, C:0.07, G:0.00, T:0.81
Consensus pattern (8 bp):
TTTTTTCA
Found at i:120691 original size:13 final size:13
Alignment explanation
Indices: 120673--120697 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
120663 TGTAATTTGA
120673 AATAAATAAAAAG
1 AATAAATAAAAAG
120686 AATAAATAAAAA
1 AATAAATAAAAA
120698 AAACTATATA
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:0.80, C:0.00, G:0.04, T:0.16
Consensus pattern (13 bp):
AATAAATAAAAAG
Found at i:130013 original size:70 final size:70
Alignment explanation
Indices: 129900--130032 Score: 239
Period size: 70 Copynumber: 1.9 Consensus size: 70
129890 AATAGCATAG
*
129900 AAGAGCAAAAATAGGAGAACAAAACAATCTCACATGGCTAAGAAACATAGAAGAGCATCCCAAAA
1 AAGAGCAAAAATAGGAGAACAAAACAATCCCACATGGCTAAGAAACATAGAAGAGCATCCCAAAA
129965 GTCTA
66 GTCTA
* *
129970 AAGAGTAAAAATAGGAGAACAAAACAATCCCACATGGCTAAGAAACATAGAAGAGCATTCCAA
1 AAGAGCAAAAATAGGAGAACAAAACAATCCCACATGGCTAAGAAACATAGAAGAGCATCCCAA
130033 CTGACTTCTA
Statistics
Matches: 60, Mismatches: 3, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
70 60 1.00
ACGTcount: A:0.52, C:0.18, G:0.17, T:0.13
Consensus pattern (70 bp):
AAGAGCAAAAATAGGAGAACAAAACAATCCCACATGGCTAAGAAACATAGAAGAGCATCCCAAAA
GTCTA
Found at i:134177 original size:2 final size:2
Alignment explanation
Indices: 134170--134199 Score: 60
Period size: 2 Copynumber: 15.0 Consensus size: 2
134160 ACTTTGCTTG
134170 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
134200 GTAGTGAAAT
Statistics
Matches: 28, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 28 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:141590 original size:10 final size:11
Alignment explanation
Indices: 141569--141598 Score: 53
Period size: 10 Copynumber: 2.8 Consensus size: 11
141559 ACTGAAATGA
141569 AATAATAATTT
1 AATAATAATTT
141580 AATAA-AATTT
1 AATAATAATTT
141590 AATAATAAT
1 AATAATAAT
141599 GATTTAATCA
Statistics
Matches: 18, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
10 10 0.56
11 8 0.44
ACGTcount: A:0.60, C:0.00, G:0.00, T:0.40
Consensus pattern (11 bp):
AATAATAATTT
Found at i:141981 original size:23 final size:23
Alignment explanation
Indices: 141953--141998 Score: 58
Period size: 23 Copynumber: 2.0 Consensus size: 23
141943 TACTAATAAC
*
141953 GATTT-ACTAATTATGAATTTAAT
1 GATTTAACTAATAATG-ATTTAAT
*
141976 GATTTAACTACTAATGATTTAAT
1 GATTTAACTAATAATGATTTAAT
141999 AATAATAATG
Statistics
Matches: 20, Mismatches: 2, Indels: 2
0.83 0.08 0.08
Matches are distributed among these distances:
23 12 0.60
24 8 0.40
ACGTcount: A:0.39, C:0.07, G:0.09, T:0.46
Consensus pattern (23 bp):
GATTTAACTAATAATGATTTAAT
Found at i:142111 original size:26 final size:25
Alignment explanation
Indices: 142079--142151 Score: 69
Period size: 26 Copynumber: 2.9 Consensus size: 25
142069 ATTATAAATT
142079 TAATGATTTAATATT-TAATGATTTAG
1 TAATGATTTAAT-TTATAATGA-TTAG
* *
142105 TAATGATATGATTTAGTAATGATTAG
1 TAATGATTTAATTTA-TAATGATTAG
* *
142131 TAATGA-TTAACTAATAATGAT
1 TAATGATTTAATTTATAATGAT
142152 ACTAATAATT
Statistics
Matches: 39, Mismatches: 6, Indels: 6
0.76 0.12 0.12
Matches are distributed among these distances:
24 7 0.18
25 6 0.15
26 20 0.51
27 6 0.15
ACGTcount: A:0.41, C:0.01, G:0.14, T:0.44
Consensus pattern (25 bp):
TAATGATTTAATTTATAATGATTAG
Found at i:142117 original size:16 final size:16
Alignment explanation
Indices: 142096--142127 Score: 64
Period size: 16 Copynumber: 2.0 Consensus size: 16
142086 TTAATATTTA
142096 ATGATTTAGTAATGAT
1 ATGATTTAGTAATGAT
142112 ATGATTTAGTAATGAT
1 ATGATTTAGTAATGAT
142128 TAGTAATGAT
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 16 1.00
ACGTcount: A:0.38, C:0.00, G:0.19, T:0.44
Consensus pattern (16 bp):
ATGATTTAGTAATGAT
Found at i:142240 original size:24 final size:24
Alignment explanation
Indices: 142213--142266 Score: 65
Period size: 24 Copynumber: 2.2 Consensus size: 24
142203 AATGATTTGA
*
142213 AATAATGAAATT-GTAATAATTACT
1 AATAATG-AATTAATAATAATTACT
* *
142237 AATAATGATTTAATAATTATTACT
1 AATAATGAATTAATAATAATTACT
142261 AATAAT
1 AATAAT
142267 TATTTAGTAG
Statistics
Matches: 26, Mismatches: 3, Indels: 2
0.84 0.10 0.06
Matches are distributed among these distances:
23 3 0.12
24 23 0.88
ACGTcount: A:0.50, C:0.04, G:0.06, T:0.41
Consensus pattern (24 bp):
AATAATGAATTAATAATAATTACT
Found at i:142271 original size:24 final size:24
Alignment explanation
Indices: 142226--142272 Score: 76
Period size: 24 Copynumber: 2.0 Consensus size: 24
142216 AATGAAATTG
142226 TAATAATTACTAATAATGATTTAA
1 TAATAATTACTAATAATGATTTAA
* *
142250 TAATTATTACTAATAATTATTTA
1 TAATAATTACTAATAATGATTTA
142273 GTAGTAAAAA
Statistics
Matches: 21, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
24 21 1.00
ACGTcount: A:0.47, C:0.04, G:0.02, T:0.47
Consensus pattern (24 bp):
TAATAATTACTAATAATGATTTAA
Found at i:142823 original size:7 final size:7
Alignment explanation
Indices: 142811--142883 Score: 130
Period size: 7 Copynumber: 10.6 Consensus size: 7
142801 AGTTCGGATT
142811 ACCCTAA
1 ACCCTAA
142818 ACCCTAA
1 ACCCTAA
142825 A-CCTAA
1 ACCCTAA
142831 ACCCTAA
1 ACCCTAA
142838 ACCCTAA
1 ACCCTAA
142845 ACCCTAA
1 ACCCTAA
142852 ACCCTAA
1 ACCCTAA
142859 ACCCTAA
1 ACCCTAA
*
142866 ACCATAA
1 ACCCTAA
142873 ACCCTAA
1 ACCCTAA
142880 ACCC
1 ACCC
142884 GAGAAACCAA
Statistics
Matches: 63, Mismatches: 2, Indels: 2
0.94 0.03 0.03
Matches are distributed among these distances:
6 6 0.10
7 57 0.90
ACGTcount: A:0.44, C:0.42, G:0.00, T:0.14
Consensus pattern (7 bp):
ACCCTAA
Found at i:147270 original size:56 final size:56
Alignment explanation
Indices: 147210--147323 Score: 228
Period size: 56 Copynumber: 2.0 Consensus size: 56
147200 TAAATTTTTT
147210 ATGACGCATATTTTTTGTCATTGTGATAATGTGGATAAATTGATGCCATTTTAGGC
1 ATGACGCATATTTTTTGTCATTGTGATAATGTGGATAAATTGATGCCATTTTAGGC
147266 ATGACGCATATTTTTTGTCATTGTGATAATGTGGATAAATTGATGCCATTTTAGGC
1 ATGACGCATATTTTTTGTCATTGTGATAATGTGGATAAATTGATGCCATTTTAGGC
147322 AT
1 AT
147324 TGAAATTTAG
Statistics
Matches: 58, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
56 58 1.00
ACGTcount: A:0.27, C:0.11, G:0.21, T:0.41
Consensus pattern (56 bp):
ATGACGCATATTTTTTGTCATTGTGATAATGTGGATAAATTGATGCCATTTTAGGC
Found at i:161520 original size:33 final size:33
Alignment explanation
Indices: 161478--161542 Score: 103
Period size: 33 Copynumber: 2.0 Consensus size: 33
161468 GTTTTCCGGT
161478 TCGGATCAATATCGGATCGATTGATTTTTTGGG
1 TCGGATCAATATCGGATCGATTGATTTTTTGGG
* * *
161511 TCGGGTCAATATTGGATCGGTTGATTTTTTGG
1 TCGGATCAATATCGGATCGATTGATTTTTTGG
161543 TTGAATTAAT
Statistics
Matches: 29, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
33 29 1.00
ACGTcount: A:0.18, C:0.11, G:0.29, T:0.42
Consensus pattern (33 bp):
TCGGATCAATATCGGATCGATTGATTTTTTGGG
Found at i:162355 original size:16 final size:16
Alignment explanation
Indices: 162342--162386 Score: 63
Period size: 16 Copynumber: 2.8 Consensus size: 16
162332 TTTCTTTCTA
162342 TTCGAGTTAATTTCAG
1 TTCGAGTTAATTTCAG
* *
162358 TTCGGGTTACTTTCAG
1 TTCGAGTTAATTTCAG
*
162374 TTTGAGTTAATTT
1 TTCGAGTTAATTT
162387 TAATTCGGGT
Statistics
Matches: 24, Mismatches: 5, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
16 24 1.00
ACGTcount: A:0.20, C:0.11, G:0.20, T:0.49
Consensus pattern (16 bp):
TTCGAGTTAATTTCAG
Found at i:162415 original size:32 final size:32
Alignment explanation
Indices: 162321--162419 Score: 101
Period size: 32 Copynumber: 3.1 Consensus size: 32
162311 TCGGTTCGGA
* *
162321 TTCAATTCGAGTTTCTTTCTA-TTCGAGTTAAT
1 TTCAATTCGGGTTACTTTC-AGTTCGAGTTAAT
* *
162353 TTCAGTTCGGGTTACTTTCAGTTTGAGTTAAT
1 TTCAATTCGGGTTACTTTCAGTTCGAGTTAAT
* * ** *
162385 TTTAATTCGGGTTGCTTTTGGTTCGGGTTAAT
1 TTCAATTCGGGTTACTTTCAGTTCGAGTTAAT
162417 TTC
1 TTC
162420 TGTTTCGGTT
Statistics
Matches: 54, Mismatches: 12, Indels: 2
0.79 0.18 0.03
Matches are distributed among these distances:
31 1 0.02
32 53 0.98
ACGTcount: A:0.17, C:0.13, G:0.20, T:0.49
Consensus pattern (32 bp):
TTCAATTCGGGTTACTTTCAGTTCGAGTTAAT
Done.