Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: VEPZ01009623.1 Hibiscus syriacus cultivar Beakdansim tig00117012_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: 3488723
ACGTcount: A:0.33, C:0.17, G:0.17, T:0.33
File 16 of 18
Found at i:2817767 original size:15 final size:14
Alignment explanation
Indices: 2817743--2817783 Score: 55
Period size: 15 Copynumber: 2.8 Consensus size: 14
2817733 ACCCACCTTA
*
2817743 TTTTTGTTTTTTCT
1 TTTTTCTTTTTTCT
2817757 CTTTTTCTTTTGTTCT
1 -TTTTTCTTTT-TTCT
2817773 TTTTTCTTTTT
1 TTTTTCTTTTT
2817784 CAATTTTTTT
Statistics
Matches: 24, Mismatches: 1, Indels: 3
0.86 0.04 0.11
Matches are distributed among these distances:
14 1 0.04
15 19 0.79
16 4 0.17
ACGTcount: A:0.00, C:0.12, G:0.05, T:0.83
Consensus pattern (14 bp):
TTTTTCTTTTTTCT
Found at i:2817767 original size:21 final size:21
Alignment explanation
Indices: 2817744--2817784 Score: 66
Period size: 21 Copynumber: 2.0 Consensus size: 21
2817734 CCCACCTTAT
2817744 TTTTGTT-TTTTCTCTTTTTC
1 TTTTGTTCTTTTCTCTTTTTC
*
2817764 TTTTGTTCTTTTTTCTTTTTC
1 TTTTGTTCTTTTCTCTTTTTC
2817785 AATTTTTTTC
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
20 7 0.37
21 12 0.63
ACGTcount: A:0.00, C:0.15, G:0.05, T:0.80
Consensus pattern (21 bp):
TTTTGTTCTTTTCTCTTTTTC
Found at i:2833506 original size:29 final size:29
Alignment explanation
Indices: 2833472--2833527 Score: 112
Period size: 29 Copynumber: 1.9 Consensus size: 29
2833462 CCTAAATTAA
2833472 TTTGATGTCATTGCTTACATCAATTTAGT
1 TTTGATGTCATTGCTTACATCAATTTAGT
2833501 TTTGATGTCATTGCTTACATCAATTTA
1 TTTGATGTCATTGCTTACATCAATTTA
2833528 TTATGTGAAA
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
29 27 1.00
ACGTcount: A:0.25, C:0.14, G:0.12, T:0.48
Consensus pattern (29 bp):
TTTGATGTCATTGCTTACATCAATTTAGT
Found at i:2833864 original size:26 final size:24
Alignment explanation
Indices: 2833803--2833869 Score: 116
Period size: 24 Copynumber: 2.7 Consensus size: 24
2833793 GCAGCACCCA
2833803 TCCTCTACATGTTGATGTAACACC
1 TCCTCTACATGTTGATGTAACACC
2833827 TCCTCTACATGTTGATGTAACACC
1 TCCTCTACATGTTGATGTAACACC
2833851 TCACCTCTACATGTTGATG
1 T--CCTCTACATGTTGATG
2833870 AGCTGGTACT
Statistics
Matches: 41, Mismatches: 0, Indels: 2
0.95 0.00 0.05
Matches are distributed among these distances:
24 25 0.61
26 16 0.39
ACGTcount: A:0.24, C:0.28, G:0.13, T:0.34
Consensus pattern (24 bp):
TCCTCTACATGTTGATGTAACACC
Found at i:2834483 original size:2 final size:2
Alignment explanation
Indices: 2834476--2834508 Score: 50
Period size: 2 Copynumber: 17.0 Consensus size: 2
2834466 GTTTGTACAA
*
2834476 AT AT AT AT AT AT AT AT AT AA AT AT AT AT -T AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
2834509 GTAATTTTTC
Statistics
Matches: 28, Mismatches: 2, Indels: 2
0.88 0.06 0.06
Matches are distributed among these distances:
1 1 0.04
2 27 0.96
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (2 bp):
AT
Found at i:2840294 original size:162 final size:162
Alignment explanation
Indices: 2840116--2840440 Score: 609
Period size: 162 Copynumber: 2.0 Consensus size: 162
2840106 GTATATCTAA
*
2840116 ATTTTTTGAAAATCTGAGAGACTTAATGATAA-TTTTAAAATTCTGAGAGAAATTTAATT-AAAC
1 ATTTTTTGAAAATCTGAGAGACTTAATGATAATTTTTAAAAATCTGAGAGAAATTTAATTAAAAC
2840179 ATTTAAAAAATAAAAGTTTAATCTAAAAATTTACGGGACCAAATTAAATATTTTAAAGAAAGATT
66 ATTTAAAAAATAAAAGTTTAATCT--AAATTTACGGGACCAAATTAAATATTTTAAAGAAAGATT
2840244 ATAAATTTTCAAATTTTGGGGGACCCTGGCCCTC
129 ATAAATTTTCAAATTTTGGGGGACCCTGGCCCTC
2840278 ATTTTTTGAAAATCTGAGAGACTTAATGATAATTTTTAAAAATCTGAGAGAAATTTAATTAAAAC
1 ATTTTTTGAAAATCTGAGAGACTTAATGATAATTTTTAAAAATCTGAGAGAAATTTAATTAAAAC
2840343 ATTTAAAAAATAAAAGTTTAATCTAAATTTACGGGACCAAATTAAATATTTTAAAGAAAGATTAT
66 ATTTAAAAAATAAAAGTTTAATCTAAATTTACGGGACCAAATTAAATATTTTAAAGAAAGATTAT
2840408 AAATTTTCAAATTTTGGGGGACCCTGGCCCTC
131 AAATTTTCAAATTTTGGGGGACCCTGGCCCTC
2840440 A
1 A
2840441 CATACCCCGT
Statistics
Matches: 160, Mismatches: 1, Indels: 4
0.97 0.01 0.02
Matches are distributed among these distances:
162 106 0.66
163 26 0.16
164 28 0.17
ACGTcount: A:0.43, C:0.10, G:0.13, T:0.34
Consensus pattern (162 bp):
ATTTTTTGAAAATCTGAGAGACTTAATGATAATTTTTAAAAATCTGAGAGAAATTTAATTAAAAC
ATTTAAAAAATAAAAGTTTAATCTAAATTTACGGGACCAAATTAAATATTTTAAAGAAAGATTAT
AAATTTTCAAATTTTGGGGGACCCTGGCCCTC
Found at i:2842063 original size:8 final size:8
Alignment explanation
Indices: 2842052--2842081 Score: 51
Period size: 8 Copynumber: 3.8 Consensus size: 8
2842042 TTTGGTGATT
*
2842052 AAAGTGGA
1 AAAGTTGA
2842060 AAAGTTGA
1 AAAGTTGA
2842068 AAAGTTGA
1 AAAGTTGA
2842076 AAAGTT
1 AAAGTT
2842082 CAATGATTTA
Statistics
Matches: 21, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
8 21 1.00
ACGTcount: A:0.50, C:0.00, G:0.27, T:0.23
Consensus pattern (8 bp):
AAAGTTGA
Found at i:2843772 original size:24 final size:24
Alignment explanation
Indices: 2843709--2843774 Score: 66
Period size: 24 Copynumber: 2.8 Consensus size: 24
2843699 AAATCTTATA
*
2843709 TGGCACTACGGTAC-AATTCTACG
1 TGGCACTACGGTGCAAATTCTACG
* *
2843732 CGGTC-CTTCGG-GACAAATTCTACG
1 TGG-CACTACGGTG-CAAATTCTACG
2843756 TGGCACTACGGTGCAAATT
1 TGGCACTACGGTGCAAATT
2843775 TATACGAGCT
Statistics
Matches: 33, Mismatches: 5, Indels: 9
0.70 0.11 0.19
Matches are distributed among these distances:
23 9 0.27
24 23 0.70
25 1 0.03
ACGTcount: A:0.24, C:0.26, G:0.24, T:0.26
Consensus pattern (24 bp):
TGGCACTACGGTGCAAATTCTACG
Found at i:2848086 original size:13 final size:13
Alignment explanation
Indices: 2848069--2848101 Score: 50
Period size: 13 Copynumber: 2.5 Consensus size: 13
2848059 ACAAAGAAAT
2848069 ATAATAATA-ATA
1 ATAATAATATATA
2848081 ACTAATAATATATA
1 A-TAATAATATATA
2848095 ATAATAA
1 ATAATAA
2848102 ATAAATATAG
Statistics
Matches: 19, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
12 1 0.05
13 14 0.74
14 4 0.21
ACGTcount: A:0.64, C:0.03, G:0.00, T:0.33
Consensus pattern (13 bp):
ATAATAATATATA
Found at i:2848105 original size:10 final size:10
Alignment explanation
Indices: 2848066--2848105 Score: 53
Period size: 10 Copynumber: 3.9 Consensus size: 10
2848056 ATAACAAAGA
2848066 AATATAATAAT
1 AATA-AATAAT
*
2848077 AATAACTAAT
1 AATAAATAAT
*
2848087 AATATATAAT
1 AATAAATAAT
2848097 AATAAATAA
1 AATAAATAA
2848106 ATATAGTAAT
Statistics
Matches: 25, Mismatches: 4, Indels: 1
0.83 0.13 0.03
Matches are distributed among these distances:
10 21 0.84
11 4 0.16
ACGTcount: A:0.65, C:0.03, G:0.00, T:0.33
Consensus pattern (10 bp):
AATAAATAAT
Found at i:2851081 original size:16 final size:16
Alignment explanation
Indices: 2851060--2851091 Score: 55
Period size: 16 Copynumber: 2.0 Consensus size: 16
2851050 ATGAGAAATT
2851060 ATCGAATAGGTTAAAC
1 ATCGAATAGGTTAAAC
*
2851076 ATCGAATGGGTTAAAC
1 ATCGAATAGGTTAAAC
2851092 GTTTCATGGT
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
16 15 1.00
ACGTcount: A:0.41, C:0.12, G:0.22, T:0.25
Consensus pattern (16 bp):
ATCGAATAGGTTAAAC
Found at i:2852412 original size:26 final size:27
Alignment explanation
Indices: 2852372--2852429 Score: 77
Period size: 26 Copynumber: 2.2 Consensus size: 27
2852362 TTATTTCAAA
2852372 ATTTA-AAAATATATTATAATTA-T-T
1 ATTTATAAAATATATTATAATTACTAT
*
2852396 ATTTATAAAATATTATTTTAATTACTAT
1 ATTTATAAAATA-TATTATAATTACTAT
2852424 ATTTAT
1 ATTTAT
2852430 TTATTTATAT
Statistics
Matches: 29, Mismatches: 1, Indels: 4
0.85 0.03 0.12
Matches are distributed among these distances:
24 5 0.17
25 6 0.21
26 10 0.34
27 1 0.03
28 7 0.24
ACGTcount: A:0.45, C:0.02, G:0.00, T:0.53
Consensus pattern (27 bp):
ATTTATAAAATATATTATAATTACTAT
Found at i:2852440 original size:28 final size:28
Alignment explanation
Indices: 2852409--2852494 Score: 95
Period size: 28 Copynumber: 2.9 Consensus size: 28
2852399 TATAAAATAT
2852409 TATTTTAATTACTATATT-TATTTATTT-A
1 TATTTTAATTA-T-TATTATATTTATTTAA
*
2852437 TATTTTAGTTATTTATTATATTTAATATTAA
1 TATTTTAATTA-TTATTATATTT-AT-TTAA
2852468 TATTTTTAATTATTATTATATTTATTT
1 TA-TTTTAATTATTATTATATTTATTT
2852495 GTTATTAATT
Statistics
Matches: 50, Mismatches: 3, Indels: 9
0.81 0.05 0.15
Matches are distributed among these distances:
27 4 0.08
28 16 0.32
29 4 0.08
30 4 0.08
31 14 0.28
32 8 0.16
ACGTcount: A:0.33, C:0.01, G:0.01, T:0.65
Consensus pattern (28 bp):
TATTTTAATTATTATTATATTTATTTAA
Found at i:2852484 original size:31 final size:31
Alignment explanation
Indices: 2852416--2852492 Score: 93
Period size: 31 Copynumber: 2.5 Consensus size: 31
2852406 TATTATTTTA
* * * *
2852416 ATTACTATATTTATTTATTTATATTTTAGTT
1 ATTATTATATTTATATATTAATATTTTAATT
2852447 ATTTATTATATTTA-ATATTAATATTTTTAATT
1 A-TTATTATATTTATATATTAATA-TTTTAATT
2852479 ATTATTATATTTAT
1 ATTATTATATTTAT
2852493 TTGTTATTAA
Statistics
Matches: 39, Mismatches: 4, Indels: 5
0.81 0.08 0.10
Matches are distributed among these distances:
31 20 0.51
32 19 0.49
ACGTcount: A:0.34, C:0.01, G:0.01, T:0.64
Consensus pattern (31 bp):
ATTATTATATTTATATATTAATATTTTAATT
Found at i:2852490 original size:18 final size:17
Alignment explanation
Indices: 2852434--2852490 Score: 66
Period size: 15 Copynumber: 3.5 Consensus size: 17
2852424 ATTTATTTAT
*
2852434 TTATATTTTAGTTATTTA
1 TTATATTTTAATTA-TTA
2852452 TTATA-TTTAA-TATTA
1 TTATATTTTAATTATTA
*
2852467 ATAT-TTTTAATTATTA
1 TTATATTTTAATTATTA
2852483 TTATATTT
1 TTATATTT
2852491 ATTTGTTATT
Statistics
Matches: 33, Mismatches: 3, Indels: 7
0.77 0.07 0.16
Matches are distributed among these distances:
15 11 0.33
16 10 0.30
17 7 0.21
18 5 0.15
ACGTcount: A:0.33, C:0.00, G:0.02, T:0.65
Consensus pattern (17 bp):
TTATATTTTAATTATTA
Found at i:2852491 original size:16 final size:16
Alignment explanation
Indices: 2852416--2852510 Score: 72
Period size: 16 Copynumber: 6.0 Consensus size: 16
2852406 TATTATTTTA
* *
2852416 ATTACTATATTTATTT
1 ATTATTATATTTAATT
*
2852432 A-T-TTATATTTTAGTT
1 ATTATTATA-TTTAATT
2852447 ATTTATTATATTTAA-T
1 A-TTATTATATTTAATT
* *
2852463 ATTAATATTTTTAATT
1 ATTATTATATTTAATT
*
2852479 ATTATTATATTTATTT
1 ATTATTATATTTAATT
*
2852495 GTTATTA-ATTTCAATT
1 ATTATTATATTT-AATT
2852511 TGAAAGGTCT
Statistics
Matches: 63, Mismatches: 10, Indels: 12
0.74 0.12 0.14
Matches are distributed among these distances:
14 4 0.06
15 23 0.37
16 26 0.41
17 5 0.08
18 5 0.08
ACGTcount: A:0.33, C:0.02, G:0.02, T:0.63
Consensus pattern (16 bp):
ATTATTATATTTAATT
Found at i:2855990 original size:21 final size:21
Alignment explanation
Indices: 2855964--2856026 Score: 108
Period size: 21 Copynumber: 3.0 Consensus size: 21
2855954 CCACGATAGG
2855964 GGGTATCGGTACCCCTTCATA
1 GGGTATCGGTACCCCTTCATA
2855985 GGGTATCGGTACCCCTTCATA
1 GGGTATCGGTACCCCTTCATA
* *
2856006 GGGTATCGATACTCCTTCATA
1 GGGTATCGGTACCCCTTCATA
2856027 AAATTCAAAT
Statistics
Matches: 40, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
21 40 1.00
ACGTcount: A:0.21, C:0.27, G:0.22, T:0.30
Consensus pattern (21 bp):
GGGTATCGGTACCCCTTCATA
Found at i:2856095 original size:18 final size:18
Alignment explanation
Indices: 2856057--2856110 Score: 81
Period size: 18 Copynumber: 2.9 Consensus size: 18
2856047 GTTCCAGCCA
*
2856057 GGGGGTATAGATACCCCTG
1 GGGGGTATAGATA-CCATG
*
2856076 GGGGGTATCGATACCATG
1 GGGGGTATAGATACCATG
2856094 GGGGGTATAGATACCAT
1 GGGGGTATAGATACCAT
2856111 CCGAGCAATC
Statistics
Matches: 32, Mismatches: 3, Indels: 1
0.89 0.08 0.03
Matches are distributed among these distances:
18 20 0.62
19 12 0.38
ACGTcount: A:0.24, C:0.17, G:0.37, T:0.22
Consensus pattern (18 bp):
GGGGGTATAGATACCATG
Found at i:2856432 original size:21 final size:21
Alignment explanation
Indices: 2856408--2856447 Score: 62
Period size: 21 Copynumber: 1.9 Consensus size: 21
2856398 ATGTTTAATG
2856408 AAAAAGATACCAATTGTTAAC
1 AAAAAGATACCAATTGTTAAC
* *
2856429 AAAATGATATCAATTGTTA
1 AAAAAGATACCAATTGTTA
2856448 CCAATTGGTG
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
21 17 1.00
ACGTcount: A:0.50, C:0.10, G:0.10, T:0.30
Consensus pattern (21 bp):
AAAAAGATACCAATTGTTAAC
Found at i:2856800 original size:20 final size:20
Alignment explanation
Indices: 2856771--2856808 Score: 58
Period size: 20 Copynumber: 1.9 Consensus size: 20
2856761 ACTTTATGCA
*
2856771 ATACCAATTGTTGAAATTTG
1 ATACCAATTGTTAAAATTTG
*
2856791 ATACCGATTGTTAAAATT
1 ATACCAATTGTTAAAATT
2856809 AAGAGCATAT
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
20 16 1.00
ACGTcount: A:0.37, C:0.11, G:0.13, T:0.39
Consensus pattern (20 bp):
ATACCAATTGTTAAAATTTG
Found at i:2857180 original size:26 final size:26
Alignment explanation
Indices: 2857151--2857232 Score: 75
Period size: 26 Copynumber: 3.3 Consensus size: 26
2857141 ATGCATGCAT
2857151 AAATCAAATGAGCAACCAAATATTCA
1 AAATCAAATGAGCAACCAAATATTCA
* *** *
2857177 AAATCAAA--A-C--TCATGCATGCA
1 AAATCAAATGAGCAACCAAATATTCA
2857198 TAAATCAAATGAGCAACCAAATATTCA
1 -AAATCAAATGAGCAACCAAATATTCA
2857225 AAATCAAA
1 AAATCAAA
2857233 AACATTAAGT
Statistics
Matches: 40, Mismatches: 10, Indels: 12
0.65 0.16 0.19
Matches are distributed among these distances:
21 6 0.15
22 8 0.20
23 1 0.03
24 2 0.05
25 1 0.03
26 16 0.40
27 6 0.15
ACGTcount: A:0.54, C:0.20, G:0.07, T:0.20
Consensus pattern (26 bp):
AAATCAAATGAGCAACCAAATATTCA
Found at i:2857199 original size:48 final size:48
Alignment explanation
Indices: 2857128--2857233 Score: 212
Period size: 48 Copynumber: 2.2 Consensus size: 48
2857118 ATAATCATTT
2857128 AAAATCAAAACTCATGCATGCATAAATCAAATGAGCAACCAAATATTC
1 AAAATCAAAACTCATGCATGCATAAATCAAATGAGCAACCAAATATTC
2857176 AAAATCAAAACTCATGCATGCATAAATCAAATGAGCAACCAAATATTC
1 AAAATCAAAACTCATGCATGCATAAATCAAATGAGCAACCAAATATTC
2857224 AAAATCAAAA
1 AAAATCAAAA
2857234 ACATTAAGTT
Statistics
Matches: 58, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
48 58 1.00
ACGTcount: A:0.53, C:0.20, G:0.08, T:0.20
Consensus pattern (48 bp):
AAAATCAAAACTCATGCATGCATAAATCAAATGAGCAACCAAATATTC
Found at i:2858153 original size:3 final size:3
Alignment explanation
Indices: 2858147--2858205 Score: 70
Period size: 3 Copynumber: 20.0 Consensus size: 3
2858137 TGCCTCCTCA
*
2858147 TTC TTC TTC TTC TTC TTC TTC TTC TTC TTC TTGG TT- TTC TTC -TC
1 TTC TTC TTC TTC TTC TTC TTC TTC TTC TTC TT-C TTC TTC TTC TTC
2858191 TTCC TT- TTC TTC TTC
1 TT-C TTC TTC TTC TTC
2858206 CTTCACCATT
Statistics
Matches: 50, Mismatches: 1, Indels: 10
0.82 0.02 0.16
Matches are distributed among these distances:
2 6 0.12
3 39 0.78
4 5 0.10
ACGTcount: A:0.00, C:0.31, G:0.03, T:0.66
Consensus pattern (3 bp):
TTC
Found at i:2859647 original size:18 final size:17
Alignment explanation
Indices: 2859592--2859648 Score: 71
Period size: 18 Copynumber: 3.3 Consensus size: 17
2859582 AACCGTTGCA
2859592 ACCA-GGGGGTATAGAT
1 ACCATGGGGGTATAGAT
* *
2859608 ACCCCTGGGGGTATCGAT
1 A-CCATGGGGGTATAGAT
2859626 ACCATGTGGGGTATAGAT
1 ACCATG-GGGGTATAGAT
2859644 ACCAT
1 ACCAT
2859649 CCGAGCAATC
Statistics
Matches: 34, Mismatches: 4, Indels: 4
0.81 0.10 0.10
Matches are distributed among these distances:
16 1 0.03
17 6 0.18
18 27 0.79
ACGTcount: A:0.26, C:0.19, G:0.32, T:0.23
Consensus pattern (17 bp):
ACCATGGGGGTATAGAT
Found at i:2861322 original size:3 final size:3
Alignment explanation
Indices: 2861314--2861348 Score: 70
Period size: 3 Copynumber: 11.7 Consensus size: 3
2861304 GGAGGGAACC
2861314 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AA
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AA
2861349 CAATTGTGGT
Statistics
Matches: 32, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 32 1.00
ACGTcount: A:0.69, C:0.00, G:0.00, T:0.31
Consensus pattern (3 bp):
AAT
Found at i:2867705 original size:12 final size:12
Alignment explanation
Indices: 2867685--2867718 Score: 50
Period size: 12 Copynumber: 2.8 Consensus size: 12
2867675 TTATTAGTGT
*
2867685 GTTTTGGCTTCC
1 GTTTCGGCTTCC
2867697 GTTTCGGCTTCC
1 GTTTCGGCTTCC
*
2867709 GTTTCAGCTT
1 GTTTCGGCTT
2867719 ATGCAGAGCT
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
12 20 1.00
ACGTcount: A:0.03, C:0.26, G:0.24, T:0.47
Consensus pattern (12 bp):
GTTTCGGCTTCC
Found at i:2868944 original size:20 final size:20
Alignment explanation
Indices: 2868904--2868958 Score: 58
Period size: 20 Copynumber: 2.8 Consensus size: 20
2868894 TTATTTTTTT
**
2868904 AAAATATTTAAAAAATCATA
1 AAAATATTTTTAAAATCATA
* *
2868924 ATTAAT-TTTTTAAAATTATA
1 A-AAATATTTTTAAAATCATA
2868944 AAAATATTTTTAAAA
1 AAAATATTTTTAAAA
2868959 ATTAATTTCT
Statistics
Matches: 28, Mismatches: 5, Indels: 4
0.76 0.14 0.11
Matches are distributed among these distances:
19 3 0.11
20 22 0.79
21 3 0.11
ACGTcount: A:0.56, C:0.02, G:0.00, T:0.42
Consensus pattern (20 bp):
AAAATATTTTTAAAATCATA
Found at i:2871718 original size:34 final size:36
Alignment explanation
Indices: 2871674--2871743 Score: 117
Period size: 36 Copynumber: 2.0 Consensus size: 36
2871664 TATGTGCAGG
2871674 GGGAACAGATTCCCCC-T-GGGGGTATCGATTCCCC
1 GGGAACAGATTCCCCCTTGGGGGGTATCGATTCCCC
*
2871708 GGGAATAGATTCCCCCTTGGGGGGTATCGATTCCCC
1 GGGAACAGATTCCCCCTTGGGGGGTATCGATTCCCC
2871744 CCTAAATGAA
Statistics
Matches: 33, Mismatches: 1, Indels: 2
0.92 0.03 0.06
Matches are distributed among these distances:
34 15 0.45
35 1 0.03
36 17 0.52
ACGTcount: A:0.17, C:0.30, G:0.30, T:0.23
Consensus pattern (36 bp):
GGGAACAGATTCCCCCTTGGGGGGTATCGATTCCCC
Found at i:2878468 original size:36 final size:36
Alignment explanation
Indices: 2878421--2878491 Score: 126
Period size: 36 Copynumber: 2.0 Consensus size: 36
2878411 TATGTGCAGG
2878421 GGGAACAGATTCCCCC-TGGGAGGGTATCGATTCCCC
1 GGGAACAGATTCCCCCTTGGG-GGGTATCGATTCCCC
2878457 GGGAACAGATTCCCCCTTGGGGGGTATCGATTCCC
1 GGGAACAGATTCCCCCTTGGGGGGTATCGATTCCC
2878492 TCTAAATGAA
Statistics
Matches: 34, Mismatches: 0, Indels: 2
0.94 0.00 0.06
Matches are distributed among these distances:
36 30 0.88
37 4 0.12
ACGTcount: A:0.18, C:0.30, G:0.31, T:0.21
Consensus pattern (36 bp):
GGGAACAGATTCCCCCTTGGGGGGTATCGATTCCCC
Found at i:2885130 original size:20 final size:20
Alignment explanation
Indices: 2885105--2885168 Score: 59
Period size: 20 Copynumber: 3.5 Consensus size: 20
2885095 AAGGGAAACA
2885105 GATTCCCCCTGGGGGGTATC
1 GATTCCCCCTGGGGGGTATC
*
2885125 GATT-CCCCT----GG-AAC
1 GATTCCCCCTGGGGGGTATC
*
2885139 AGATTTCCCCTGGGGGGTATC
1 -GATTCCCCCTGGGGGGTATC
2885160 GATTCCCCC
1 GATTCCCCC
2885169 CTAAATGAAA
Statistics
Matches: 34, Mismatches: 3, Indels: 14
0.67 0.06 0.27
Matches are distributed among these distances:
14 2 0.06
15 6 0.18
16 5 0.15
19 5 0.15
20 14 0.41
21 2 0.06
ACGTcount: A:0.14, C:0.33, G:0.28, T:0.25
Consensus pattern (20 bp):
GATTCCCCCTGGGGGGTATC
Found at i:2885149 original size:35 final size:35
Alignment explanation
Indices: 2885101--2885167 Score: 125
Period size: 35 Copynumber: 1.9 Consensus size: 35
2885091 GTGCAAGGGA
2885101 AACAGATTCCCCCTGGGGGGTATCGATTCCCCTGG
1 AACAGATTCCCCCTGGGGGGTATCGATTCCCCTGG
*
2885136 AACAGATTTCCCCTGGGGGGTATCGATTCCCC
1 AACAGATTCCCCCTGGGGGGTATCGATTCCCC
2885168 CCTAAATGAA
Statistics
Matches: 31, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
35 31 1.00
ACGTcount: A:0.18, C:0.31, G:0.27, T:0.24
Consensus pattern (35 bp):
AACAGATTCCCCCTGGGGGGTATCGATTCCCCTGG
Found at i:2891463 original size:83 final size:81
Alignment explanation
Indices: 2891323--2891486 Score: 292
Period size: 83 Copynumber: 2.0 Consensus size: 81
2891313 AATCCAACAT
*
2891323 TTCATTCAATGACAAAACACATACGAGTTCAGTACCATTTCATTCGTGAAAATGTGGAAGAAGAA
1 TTCATTCAATGACAAAACACATACGAGTTCAGTACCATTTCATTCGTGAAAAGGTGGAAGAAG-A
2891388 AACGGTAGATGTACAGAA
65 AAC-GTAGATGTACAGAA
*
2891406 TTCATTCAATGACAAAACACATACGAGTTCAGTACCATTTCATTCGTGAAAAGGTGGAAGAAGGA
1 TTCATTCAATGACAAAACACATACGAGTTCAGTACCATTTCATTCGTGAAAAGGTGGAAGAAGAA
2891471 ACGTAGATGTACAGAA
66 ACGTAGATGTACAGAA
2891487 GATCCATACT
Statistics
Matches: 79, Mismatches: 2, Indels: 2
0.95 0.02 0.02
Matches are distributed among these distances:
81 14 0.18
82 3 0.04
83 62 0.78
ACGTcount: A:0.40, C:0.16, G:0.20, T:0.24
Consensus pattern (81 bp):
TTCATTCAATGACAAAACACATACGAGTTCAGTACCATTTCATTCGTGAAAAGGTGGAAGAAGAA
ACGTAGATGTACAGAA
Found at i:2891543 original size:3 final size:3
Alignment explanation
Indices: 2891528--2891576 Score: 73
Period size: 3 Copynumber: 16.7 Consensus size: 3
2891518 GGTTAAAGAA
* *
2891528 TAT TAT TA- AAT TAT TAT TAG TAT TAT TAT TAT TAT TAT TAT TAT TAT
1 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT
2891575 TA
1 TA
2891577 AGTGTGTTTA
Statistics
Matches: 41, Mismatches: 4, Indels: 2
0.87 0.09 0.04
Matches are distributed among these distances:
2 1 0.02
3 40 0.98
ACGTcount: A:0.37, C:0.00, G:0.02, T:0.61
Consensus pattern (3 bp):
TAT
Found at i:2894034 original size:52 final size:52
Alignment explanation
Indices: 2893973--2894076 Score: 190
Period size: 52 Copynumber: 2.0 Consensus size: 52
2893963 TTGAAGTTTT
*
2893973 TAATTGCTTCATTTTATTATTGTCTTACTAACATTTTTATATTTGTTCTCAG
1 TAATTGCTTCATTTTATTATTGTCTTACTAACATCTTTATATTTGTTCTCAG
*
2894025 TAATTGCTTCATTTTATTATTGTCTTACTAACATCTTTATCTTTGTTCTCAG
1 TAATTGCTTCATTTTATTATTGTCTTACTAACATCTTTATATTTGTTCTCAG
2894077 ATTTGTCCAA
Statistics
Matches: 50, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
52 50 1.00
ACGTcount: A:0.22, C:0.15, G:0.08, T:0.55
Consensus pattern (52 bp):
TAATTGCTTCATTTTATTATTGTCTTACTAACATCTTTATATTTGTTCTCAG
Found at i:2904832 original size:15 final size:16
Alignment explanation
Indices: 2904809--2904892 Score: 68
Period size: 15 Copynumber: 5.1 Consensus size: 16
2904799 AAAAAGGAAC
2904809 AAATAAAAAGATGAAA
1 AAATAAAAAGATGAAA
2904825 AAATAAAAA-ATGAAA
1 AAATAAAAAGATGAAA
*
2904840 AAGA-AAAAAGA-AAAA
1 AA-ATAAAAAGATGAAA
2904855 AAATGAAAAAAAGAAATGAAA
1 AAAT---AAAAAG--ATGAAA
*
2904876 AAATGAAAAGA-GAAA
1 AAATAAAAAGATGAAA
2904891 AA
1 AA
2904893 GGAGGGTTTG
Statistics
Matches: 56, Mismatches: 3, Indels: 19
0.72 0.04 0.24
Matches are distributed among these distances:
14 1 0.02
15 24 0.43
16 12 0.21
18 11 0.20
20 1 0.02
21 7 0.12
ACGTcount: A:0.79, C:0.00, G:0.13, T:0.08
Consensus pattern (16 bp):
AAATAAAAAGATGAAA
Found at i:2904835 original size:23 final size:23
Alignment explanation
Indices: 2904829--2904892 Score: 80
Period size: 23 Copynumber: 2.8 Consensus size: 23
2904819 ATGAAAAAAT
2904829 AAAAAATGAAAAAGAAAAAAGAA
1 AAAAAATGAAAAAGAAAAAAGAA
*
2904852 AAAAAATGAAAAA-AAGAAATG--
1 AAAAAATGAAAAAGAA-AAAAGAA
2904873 AAAAAATGAAAAGAGAAAAA
1 AAAAAATGAAAA-AGAAAAA
2904893 GGAGGGTTTG
Statistics
Matches: 37, Mismatches: 1, Indels: 7
0.82 0.02 0.16
Matches are distributed among these distances:
21 12 0.32
22 6 0.16
23 19 0.51
ACGTcount: A:0.80, C:0.00, G:0.14, T:0.06
Consensus pattern (23 bp):
AAAAAATGAAAAAGAAAAAAGAA
Found at i:2904846 original size:13 final size:12
Alignment explanation
Indices: 2904824--2904878 Score: 60
Period size: 13 Copynumber: 4.5 Consensus size: 12
2904814 AAAAGATGAA
2904824 AAAATAAAAAATG
1 AAAA-AAAAAATG
2904837 AAAAAGAAAAA--
1 AAAAA-AAAAATG
*
2904848 AGAAAAAAAATG
1 AAAAAAAAAATG
2904860 AAAAAAAGAAATG
1 AAAAAAA-AAATG
2904873 AAAAAA
1 AAAAAA
2904879 TGAAAAGAGA
Statistics
Matches: 36, Mismatches: 2, Indels: 8
0.78 0.04 0.17
Matches are distributed among these distances:
10 5 0.14
11 4 0.11
12 7 0.19
13 20 0.56
ACGTcount: A:0.82, C:0.00, G:0.11, T:0.07
Consensus pattern (12 bp):
AAAAAAAAAATG
Found at i:2904848 original size:31 final size:30
Alignment explanation
Indices: 2904813--2904884 Score: 83
Period size: 31 Copynumber: 2.3 Consensus size: 30
2904803 AGGAACAAAT
* *
2904813 AAAAAGATGAAAAAAT-AAAAAATGAAAAAGA
1 AAAAAGA-AAAAAAATGAAAAAAAG-AAAAGA
*
2904844 AAAAAGAAAAAAAATGAAAAAAAGAAATGA
1 AAAAAGAAAAAAAATGAAAAAAAGAAAAGA
2904874 AAAAATGAAAA
1 AAAAA-GAAAA
2904885 GAGAAAAAGG
Statistics
Matches: 36, Mismatches: 3, Indels: 4
0.84 0.07 0.09
Matches are distributed among these distances:
30 17 0.47
31 19 0.53
ACGTcount: A:0.79, C:0.00, G:0.12, T:0.08
Consensus pattern (30 bp):
AAAAAGAAAAAAAATGAAAAAAAGAAAAGA
Found at i:2904855 original size:38 final size:38
Alignment explanation
Indices: 2904813--2904892 Score: 101
Period size: 38 Copynumber: 2.1 Consensus size: 38
2904803 AGGAACAAAT
*
2904813 AAAAAGATGAAAAAATAAAAAATG-AAAAA-GAAAAAAGA
1 AAAAAAATG-AAAAA-AAAAAATGAAAAAATGAAAAAAGA
* *
2904851 AAAAAAATGAAAAAAAGAAATGAAAAAATGAAAAGAGA
1 AAAAAAATGAAAAAAAAAAATGAAAAAATGAAAAAAGA
2904889 AAAA
1 AAAA
2904893 GGAGGGTTTG
Statistics
Matches: 37, Mismatches: 3, Indels: 4
0.84 0.07 0.09
Matches are distributed among these distances:
36 7 0.19
37 10 0.27
38 20 0.54
ACGTcount: A:0.79, C:0.00, G:0.14, T:0.07
Consensus pattern (38 bp):
AAAAAAATGAAAAAAAAAAATGAAAAAATGAAAAAAGA
Found at i:2904879 original size:8 final size:8
Alignment explanation
Indices: 2904798--2904884 Score: 64
Period size: 7 Copynumber: 11.5 Consensus size: 8
2904788 GCTTGAAGAA
*
2904798 AAAAAAGG
1 AAAAAATG
*
2904806 AACAAAT-
1 AAAAAATG
2904813 AAAAAGATG
1 AAAAA-ATG
2904822 AAAAAAT-
1 AAAAAATG
2904829 AAAAAATG
1 AAAAAATG
2904837 -AAAAA-G
1 AAAAAATG
2904843 AAAAAA-G
1 AAAAAATG
2904850 AAAAAAAATG
1 --AAAAAATG
2904860 -AAAAA--
1 AAAAAATG
*
2904865 AAGAAATG
1 AAAAAATG
2904873 AAAAAATG
1 AAAAAATG
2904881 AAAA
1 AAAA
2904885 GAGAAAAAGG
Statistics
Matches: 64, Mismatches: 5, Indels: 20
0.72 0.06 0.22
Matches are distributed among these distances:
6 5 0.08
7 27 0.42
8 20 0.31
9 11 0.17
10 1 0.02
ACGTcount: A:0.78, C:0.01, G:0.13, T:0.08
Consensus pattern (8 bp):
AAAAAATG
Found at i:2904883 original size:13 final size:13
Alignment explanation
Indices: 2904837--2904893 Score: 55
Period size: 13 Copynumber: 4.5 Consensus size: 13
2904827 ATAAAAAATG
2904837 AAAAAGAAA--AA
1 AAAAAGAAATGAA
*
2904848 AGAAAAAAAATGAA
1 A-AAAAGAAATGAA
2904862 AAAAAGAAATGAA
1 AAAAAGAAATGAA
* * *
2904875 AAAATGAAAAGAG
1 AAAAAGAAATGAA
2904888 AAAAAG
1 AAAAAG
2904894 GAGGGTTTGA
Statistics
Matches: 37, Mismatches: 6, Indels: 4
0.79 0.13 0.09
Matches are distributed among these distances:
11 1 0.03
12 7 0.19
13 26 0.70
14 3 0.08
ACGTcount: A:0.79, C:0.00, G:0.16, T:0.05
Consensus pattern (13 bp):
AAAAAGAAATGAA
Found at i:2906002 original size:136 final size:133
Alignment explanation
Indices: 2905741--2906088 Score: 481
Period size: 136 Copynumber: 2.6 Consensus size: 133
2905731 AGAAAGAGAT
* *
2905741 GGATCAACATTTCCAATGGAGAGTTCATAATGAGAAGAACTCATCCGACAGAGGGAG-AAGTTCA
1 GGATCAACATTTCC-ATGAAGAGTTCATAATGAGAAGAACTCATCCGATAGAGGGAGAAAGTTCA
* * * * *
2905805 TAATGAGAAGAGCCTATTCGACCTATCACTCGATTCATGGCGTTTCGAATCATTGACACCTCGCT
65 TAATGAGAAGAGCTTGTTCGACCTATCACTCGATTCACGGCATTTCGAATCAGTGACACCTCGCT
2905870 TGAG
130 TGAG
2905874 GGATCAACATTTCCAGTGAAGAGTTCATAATGAGAAGAACTCATCCGATAGAGGGAGAAAAAGTT
1 GGATCAACATTTCCA-TGAAGAGTTCATAATGAGAAGAACTCATCCGATAGAGGGAG--AAAGTT
* * *
2905939 CATAATGAGAAGAGCTTGTTCGACCTATCACTCGATTCACGTCATTTCGAATTAGTGATACCTCG
63 CATAATGAGAAGAGCTTGTTCGACCTATCACTCGATTCACGGCATTTCGAATCAGTGACACCTCG
2906004 CTTGAG
128 CTTGAG
** * * *
2906010 GGATTGACATTTTCA-GAAGAGTTCATAATGAGAAGAACTCGTCC--TA-AAGGAGAAAGTTCAT
1 GGATCAACATTTCCATGAAGAGTTCATAATGAGAAGAACTCATCCGATAGAGGGAGAAAGTTCAT
*
2906071 AATGAGAAGAACTTGTTC
66 AATGAGAAGAGCTTGTTC
2906089 CTTCAAGTCC
Statistics
Matches: 195, Mismatches: 16, Indels: 12
0.87 0.07 0.05
Matches are distributed among these distances:
129 26 0.13
131 5 0.03
132 3 0.02
133 53 0.27
134 28 0.14
136 80 0.41
ACGTcount: A:0.34, C:0.18, G:0.22, T:0.26
Consensus pattern (133 bp):
GGATCAACATTTCCATGAAGAGTTCATAATGAGAAGAACTCATCCGATAGAGGGAGAAAGTTCAT
AATGAGAAGAGCTTGTTCGACCTATCACTCGATTCACGGCATTTCGAATCAGTGACACCTCGCTT
GAG
Found at i:2906510 original size:331 final size:331
Alignment explanation
Indices: 2905893--2906532 Score: 1034
Period size: 331 Copynumber: 1.9 Consensus size: 331
2905883 TTTCCAGTGA
* *
2905893 AGAGTTCATAATGAGAAGAACTCATCCGATAGAGGGAGAAAAAGTTCATAATGAGAAGAGCTTGT
1 AGAGCTCATAATGAGAAGAACTCATCCGAAAGAGGGAGAAAAAGTTCATAATGAGAAGAGCTTGT
* * * * *
2905958 TCGACCTATCACTCGATTCACGTCATTTCGAATTAGTGATACCTCGCTTGAGGGATTGACATTTT
66 TCGACCTATCACTCGATTCACGACATTTCGAATCAGTGACACCTCGCTTGAGGGATTGAAATTTC
* *
2906023 CAGAAGAGTTCATAATGAGAAGAACTCGTCCTAAAGGAGAAAGTTCATAATGAGAAGAACTTGTT
131 CAAAAGAGTTCATAATGAGAAGAACTCGTCCTAAAGGAGAAAGTTCATAATGAAAAGAACTTGTT
* *
2906088 CCTTCAAGTCCATCACAGAAAGAGATGGATCAACATTTCCAATGGAGAGTTCATAATAAGAAGAA
196 CCTTCAAGTCCACCACAGAAAGAGATGGATCAACATTTCCAATGAAGAGTTCATAATAAGAAGAA
* *
2906153 CTCATCCAACGAGAGAGAATAAGTTCATAATGAGAAGAACTTGTCCAATTTCACATCAACATTTT
261 CTCATCCAACGAGAAAGAAGAAGTTCATAATGAGAAGAACTTGTCCAATTTCACATCAACATTTT
2906218 AAATGG
326 AAATGG
* *
2906224 AGAGCTCATAATGAGAAGAAGTCGTCCGAAAGAGGGAGAAAAAGTTCATAATGAGAAGAGCTTGT
1 AGAGCTCATAATGAGAAGAACTCATCCGAAAGAGGGAGAAAAAGTTCATAATGAGAAGAGCTTGT
*
2906289 TCGACCTATCACTCGATTCACGACATTTCGAATCAGTGACGCCTCG-TTAGAGGGATTGAAATTT
66 TCGACCTATCACTCGATTCACGACATTTCGAATCAGTGACACCTCGCTT-GAGGGATTGAAATTT
*
2906353 CCAAAAGAGTTCATAATGAGAAGAACTCGTCTTAAAGGAGAAAGTTCATAATGAAAAGAACTTGT
130 CCAAAAGAGTTCATAATGAGAAGAACTCGTCCTAAAGGAGAAAGTTCATAATGAAAAGAACTTGT
* * * *
2906418 TCCTTTCAAGTCCACCACAGAAATAGGT-GACTCAACATTTTCAGTGAAGAGTTCATAATAAGAA
195 TCC-TTCAAGTCCACCACAGAAAGAGATGGA-TCAACATTTCCAATGAAGAGTTCATAATAAGAA
*
2906482 GAACTCATCC-ACGAGAAAGAAGAAGTTCATAATGAGAAGAACTTGTTCAAT
258 GAACTCATCCAACGAGAAAGAAGAAGTTCATAATGAGAAGAACTTGTCCAAT
2906533 CCAACGACGA
Statistics
Matches: 284, Mismatches: 22, Indels: 6
0.91 0.07 0.02
Matches are distributed among these distances:
330 2 0.01
331 221 0.78
332 61 0.21
ACGTcount: A:0.38, C:0.17, G:0.21, T:0.25
Consensus pattern (331 bp):
AGAGCTCATAATGAGAAGAACTCATCCGAAAGAGGGAGAAAAAGTTCATAATGAGAAGAGCTTGT
TCGACCTATCACTCGATTCACGACATTTCGAATCAGTGACACCTCGCTTGAGGGATTGAAATTTC
CAAAAGAGTTCATAATGAGAAGAACTCGTCCTAAAGGAGAAAGTTCATAATGAAAAGAACTTGTT
CCTTCAAGTCCACCACAGAAAGAGATGGATCAACATTTCCAATGAAGAGTTCATAATAAGAAGAA
CTCATCCAACGAGAAAGAAGAAGTTCATAATGAGAAGAACTTGTCCAATTTCACATCAACATTTT
AAATGG
Found at i:2906675 original size:3 final size:3
Alignment explanation
Indices: 2906660--2906699 Score: 64
Period size: 3 Copynumber: 13.7 Consensus size: 3
2906650 GGTTAAAGAA
*
2906660 TAT TAT TA- AAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TA
1 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TA
2906700 AGTGTGTTTA
Statistics
Matches: 34, Mismatches: 2, Indels: 2
0.89 0.05 0.05
Matches are distributed among these distances:
2 1 0.03
3 33 0.97
ACGTcount: A:0.38, C:0.00, G:0.00, T:0.62
Consensus pattern (3 bp):
TAT
Found at i:2907419 original size:2 final size:2
Alignment explanation
Indices: 2907412--2907437 Score: 52
Period size: 2 Copynumber: 13.0 Consensus size: 2
2907402 AGGTTTTCGA
2907412 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
2907438 TGCTAACTAT
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 24 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:2920277 original size:25 final size:25
Alignment explanation
Indices: 2920230--2920285 Score: 60
Period size: 25 Copynumber: 2.3 Consensus size: 25
2920220 TGTAACATTA
* ** * *
2920230 ATTGTATTTAATATTATTTTTATTT
1 ATTGTATTTAAGAAAATTATTATAT
2920255 ATTGTATTTAAGAAAATTATTATAT
1 ATTGTATTTAAGAAAATTATTATAT
2920280 A-TGTAT
1 ATTGTAT
2920286 AGTTTGGTGT
Statistics
Matches: 26, Mismatches: 5, Indels: 1
0.81 0.16 0.03
Matches are distributed among these distances:
24 5 0.19
25 21 0.81
ACGTcount: A:0.36, C:0.00, G:0.07, T:0.57
Consensus pattern (25 bp):
ATTGTATTTAAGAAAATTATTATAT
Found at i:2933398 original size:31 final size:31
Alignment explanation
Indices: 2933362--2933431 Score: 88
Period size: 31 Copynumber: 2.3 Consensus size: 31
2933352 ATTTAGTCAA
* * *
2933362 TGACCAAATTATAAGA-TTTTGTAAAGTTTAG
1 TGACCAAAGTATAA-ACTTTGGAAAAGTTTAG
2933393 TGACCAAAGTATAAACTTTGGAAAAGTTTAG
1 TGACCAAAGTATAAACTTTGGAAAAGTTTAG
*
2933424 GGACCAAA
1 TGACCAAA
2933432 ATGGTAATTT
Statistics
Matches: 34, Mismatches: 4, Indels: 2
0.85 0.10 0.05
Matches are distributed among these distances:
30 1 0.03
31 33 0.97
ACGTcount: A:0.41, C:0.10, G:0.19, T:0.30
Consensus pattern (31 bp):
TGACCAAAGTATAAACTTTGGAAAAGTTTAG
Found at i:2936132 original size:22 final size:22
Alignment explanation
Indices: 2936104--2936156 Score: 70
Period size: 22 Copynumber: 2.4 Consensus size: 22
2936094 AGCATTTGGT
*
2936104 ACTGTTCACGGTAATGTTCATC
1 ACTGTTCACGGTAATGTACATC
* * *
2936126 ACTGTTCATGGTATTGTACATT
1 ACTGTTCACGGTAATGTACATC
2936148 ACTGTTCAC
1 ACTGTTCAC
2936157 AACACTGTTC
Statistics
Matches: 26, Mismatches: 5, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
22 26 1.00
ACGTcount: A:0.23, C:0.21, G:0.17, T:0.40
Consensus pattern (22 bp):
ACTGTTCACGGTAATGTACATC
Found at i:2937660 original size:43 final size:42
Alignment explanation
Indices: 2937603--2937876 Score: 192
Period size: 44 Copynumber: 6.4 Consensus size: 42
2937593 GCGTTTGTAC
* * * *
2937603 CCAAAAATGCCGCTATAGATCTGACCTTTTACGGCCTTTGTGT
1 CCAAAAACGACGCTATAGATCTGACCTTTTGCGGCATTTGT-T
* ** *
2937646 CCAAAAACGACGCTATAGATCTAACCTTTTATGACATTTGTAT
1 CCAAAAACGACGCTATAGATCTGACCTTTTGCGGCATTTGT-T
* * * * * ***
2937689 CAAAAAAACGTCGCTATATATCTAACCTTTTGTGATGTTTGTT
1 C-CAAAAACGACGCTATAGATCTGACCTTTTGCGGCATTTGTT
* * * *
2937732 CCAAAAAAGCCGCTATAGATTTGACATTTTGCGGCATTTGTT
1 CCAAAAACGACGCTATAGATCTGACCTTTTGCGGCATTTGTT
** *
2937774 CCAAAAAAC-ACCGCTATAGATCTTGACCTTTTGCGGTGTTTATAT
1 CC-AAAAACGA-CGCTATAGATC-TGACCTTTTGCGGCATTTGT-T
* * * * *
2937819 CCAAAAAC-ACCGCTATAGATATCAACCTTTTGTGACGTTTGTT
1 CCAAAAACGA-CGCTATAGATCT-GACCTTTTGCGGCATTTGTT
*
2937862 CCAAAAACGCCGCTA
1 CCAAAAACGACGCTA
2937877 ACATTAGCGA
Statistics
Matches: 186, Mismatches: 38, Indels: 14
0.78 0.16 0.06
Matches are distributed among these distances:
42 32 0.17
43 69 0.37
44 82 0.44
45 3 0.02
ACGTcount: A:0.30, C:0.22, G:0.15, T:0.32
Consensus pattern (42 bp):
CCAAAAACGACGCTATAGATCTGACCTTTTGCGGCATTTGTT
Found at i:2937789 original size:129 final size:129
Alignment explanation
Indices: 2937594--2937876 Score: 324
Period size: 129 Copynumber: 2.2 Consensus size: 129
2937584 TAATTAGAGG
* * * *
2937594 CGTTTGTACCCAAAAATGCCGCTATAGATCTGACCTTTTACGGCCTTTGTGTCCAAAAACGACGC
1 CGTTTGT-TCCAAAAAAGCCGCTATAGATCTGACATTTTACGGCATTTGTGTCCAAAAACGACGC
* *
2937659 TATAGATC-TAACCTTTTATGACATTTGTAT-CAAAAAAACGTCGCTAT-ATATCTAACCTTTTG
65 TATAGATCTTAACCTTTTACGACATTTATATCCAAAAAAAC--CGCTATAATATC-AACCTTTTG
2937721 TGA
127 TGA
* * *
2937724 TGTTTGTTCCAAAAAAGCCGCTATAGATTTGACATTTTGCGGCATTTGT-TCCAAAAAAC-ACCG
1 CGTTTGTTCCAAAAAAGCCGCTATAGATCTGACATTTTACGGCATTTGTGTCC-AAAAACGA-CG
* * *** *
2937787 CTATAGATCTTGACCTTTTGCGGTGTTTATATCCAAAAACACCGCTATAGATATCAACCTTTTGT
64 CTATAGATCTTAACCTTTTACGACATTTATATCCAAAAAAACCGCTATA-ATATCAACCTTTTGT
2937852 GA
128 GA
*
2937854 CGTTTGTTCCAAAAACGCCGCTA
1 CGTTTGTTCCAAAAAAGCCGCTA
2937877 ACATTAGCGA
Statistics
Matches: 130, Mismatches: 17, Indels: 12
0.82 0.11 0.08
Matches are distributed among these distances:
128 4 0.03
129 59 0.45
130 54 0.42
131 13 0.10
ACGTcount: A:0.29, C:0.22, G:0.16, T:0.33
Consensus pattern (129 bp):
CGTTTGTTCCAAAAAAGCCGCTATAGATCTGACATTTTACGGCATTTGTGTCCAAAAACGACGCT
ATAGATCTTAACCTTTTACGACATTTATATCCAAAAAAACCGCTATAATATCAACCTTTTGTGA
Found at i:2940239 original size:24 final size:24
Alignment explanation
Indices: 2940212--2940358 Score: 110
Period size: 24 Copynumber: 6.0 Consensus size: 24
2940202 TTTTAATTTT
2940212 AATATTAATTTTTTATATAAATTA
1 AATATTAATTTTTTATATAAATTA
2940236 AATATTAATTTTTTA-AT--ATT-
1 AATATTAATTTTTTATATAAATTA
* * *
2940256 -ATATTATATTTGATT-T-TAATTTT
1 AATATTA-ATTT-TTTATATAAATTA
*
2940279 AATATTAATTTTTTAAATAAATTA
1 AATATTAATTTTTTATATAAATTA
*
2940303 AATATTAATTTTTTAATATTATATTA
1 AATATTAATTTTTT-ATA-TAAATTA
2940329 TAGATATTTAATTTTATATCATATAAATTA
1 -A-ATA-TTAATTTT-T-T-ATATAAATTA
2940359 TTTTATATAT
Statistics
Matches: 97, Mismatches: 10, Indels: 26
0.73 0.08 0.20
Matches are distributed among these distances:
19 6 0.06
20 5 0.05
21 5 0.05
22 4 0.04
23 6 0.06
24 40 0.41
25 2 0.02
26 6 0.06
27 1 0.01
28 3 0.03
29 8 0.08
30 7 0.07
31 4 0.04
ACGTcount: A:0.42, C:0.01, G:0.01, T:0.56
Consensus pattern (24 bp):
AATATTAATTTTTTATATAAATTA
Found at i:2940261 original size:43 final size:43
Alignment explanation
Indices: 2940202--2940317 Score: 119
Period size: 43 Copynumber: 2.6 Consensus size: 43
2940192 TTATATTTGA
*
2940202 TTTTAATTTTAATATTAATTTTTTATATAAATTAAATATTAATT
1 TTTTAATATTAATATTAATTTTTTAT-TAAATTAAATATTAATT
* * *
2940246 TTTTAATATT-ATATTATATTTGATT-TTAATTTTAATATTAATT
1 TTTTAATATTAATATTA-ATTT-TTTATTAAATTAAATATTAATT
2940289 TTTTAAATAAATTAAATATTAATTTTTTA
1 TTTT-AAT--ATT-AATATTAATTTTTTA
2940318 ATATTATATT
Statistics
Matches: 59, Mismatches: 5, Indels: 13
0.77 0.06 0.17
Matches are distributed among these distances:
43 25 0.42
44 17 0.29
45 2 0.03
46 5 0.08
47 4 0.07
48 6 0.10
ACGTcount: A:0.40, C:0.00, G:0.01, T:0.59
Consensus pattern (43 bp):
TTTTAATATTAATATTAATTTTTTATTAAATTAAATATTAATT
Found at i:2940281 original size:67 final size:67
Alignment explanation
Indices: 2940180--2940330 Score: 286
Period size: 67 Copynumber: 2.3 Consensus size: 67
2940170 TTATATTTAA
*
2940180 TTTT-ATATTATATTATATTTGATTTTAATTTTAATATTAATTTTTTATATAAATTAAATATTAA
1 TTTTAATATTATATTATATTTGATTTTAATTTTAATATTAATTTTTTAAATAAATTAAATATTAA
2940244 TT
66 TT
2940246 TTTTAATATTATATTATATTTGATTTTAATTTTAATATTAATTTTTTAAATAAATTAAATATTAA
1 TTTTAATATTATATTATATTTGATTTTAATTTTAATATTAATTTTTTAAATAAATTAAATATTAA
2940311 TT
66 TT
2940313 TTTTAATATTATATTATA
1 TTTTAATATTATATTATA
2940331 GATATTTAAT
Statistics
Matches: 83, Mismatches: 1, Indels: 1
0.98 0.01 0.01
Matches are distributed among these distances:
66 4 0.05
67 79 0.95
ACGTcount: A:0.39, C:0.00, G:0.01, T:0.60
Consensus pattern (67 bp):
TTTTAATATTATATTATATTTGATTTTAATTTTAATATTAATTTTTTAAATAAATTAAATATTAA
TT
Found at i:2940404 original size:19 final size:20
Alignment explanation
Indices: 2940354--2940406 Score: 58
Period size: 19 Copynumber: 2.8 Consensus size: 20
2940344 ATATCATATA
*
2940354 AATTA-TTTTATATATTATT
1 AATTATTTTTATTTATTATT
*
2940373 AA-AATTTTATATTTATT-TT
1 AATTATTTT-TATTTATTATT
2940392 AATTATTTTTATTTA
1 AATTATTTTTATTTA
2940407 AGATTAAATA
Statistics
Matches: 28, Mismatches: 3, Indels: 6
0.76 0.08 0.16
Matches are distributed among these distances:
18 1 0.04
19 15 0.54
20 12 0.43
ACGTcount: A:0.36, C:0.00, G:0.00, T:0.64
Consensus pattern (20 bp):
AATTATTTTTATTTATTATT
Found at i:2940621 original size:18 final size:19
Alignment explanation
Indices: 2940587--2940622 Score: 56
Period size: 19 Copynumber: 1.9 Consensus size: 19
2940577 TAATCACAAT
2940587 TAAATAAAAAATAATTTTA
1 TAAATAAAAAATAATTTTA
*
2940606 TAAATTAAAAAT-ATTTT
1 TAAATAAAAAATAATTTT
2940623 CTTAAAATAT
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
18 5 0.31
19 11 0.69
ACGTcount: A:0.58, C:0.00, G:0.00, T:0.42
Consensus pattern (19 bp):
TAAATAAAAAATAATTTTA
Found at i:2940628 original size:19 final size:19
Alignment explanation
Indices: 2940586--2940628 Score: 52
Period size: 19 Copynumber: 2.3 Consensus size: 19
2940576 ATAATCACAA
2940586 TTAAATAAAAAATAATTTT
1 TTAAATAAAAAATAATTTT
* *
2940605 ATAAATTAAAAAT-ATTTT
1 TTAAATAAAAAATAATTTT
2940623 CTTAAA
1 -TTAAA
2940629 ATATCATATA
Statistics
Matches: 20, Mismatches: 3, Indels: 2
0.80 0.12 0.08
Matches are distributed among these distances:
18 5 0.25
19 15 0.75
ACGTcount: A:0.56, C:0.02, G:0.00, T:0.42
Consensus pattern (19 bp):
TTAAATAAAAAATAATTTT
Found at i:2940891 original size:31 final size:31
Alignment explanation
Indices: 2940849--2940908 Score: 93
Period size: 31 Copynumber: 1.9 Consensus size: 31
2940839 TAGTTGTATG
* * *
2940849 AATTATTTAAATTTCAGTATTGTAAAACTAA
1 AATTATATAAATCTCAGTATTGCAAAACTAA
2940880 AATTATATAAATCTCAGTATTGCAAAACT
1 AATTATATAAATCTCAGTATTGCAAAACT
2940909 CTTTTAAGTT
Statistics
Matches: 26, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
31 26 1.00
ACGTcount: A:0.45, C:0.10, G:0.07, T:0.38
Consensus pattern (31 bp):
AATTATATAAATCTCAGTATTGCAAAACTAA
Found at i:2951420 original size:21 final size:21
Alignment explanation
Indices: 2951381--2951421 Score: 57
Period size: 21 Copynumber: 2.0 Consensus size: 21
2951371 GGATAGAACC
*
2951381 AGGATTTTACGAAAAATTTGA
1 AGGATGTTACGAAAAATTTGA
2951402 AGGATGTTA-GAAAATATTTG
1 AGGATGTTACGAAAA-ATTTG
2951422 GAAATATTAT
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
20 5 0.28
21 13 0.72
ACGTcount: A:0.41, C:0.02, G:0.22, T:0.34
Consensus pattern (21 bp):
AGGATGTTACGAAAAATTTGA
Found at i:2952962 original size:41 final size:41
Alignment explanation
Indices: 2952905--2952984 Score: 106
Period size: 41 Copynumber: 2.0 Consensus size: 41
2952895 AGTGAGTACA
*
2952905 TATCAGTTCAAATTTGGTACATTCGTGTATCAATGTTCAGT
1 TATCAGTTCAAATTTGGTACATTCGTGTATCAAAGTTCAGT
** * **
2952946 TATCAGTTCAGCTTTGGTATATTTTTGTATCAAAGTTCA
1 TATCAGTTCAAATTTGGTACATTCGTGTATCAAAGTTCA
2952985 ACACCGTTGG
Statistics
Matches: 33, Mismatches: 6, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
41 33 1.00
ACGTcount: A:0.26, C:0.14, G:0.16, T:0.44
Consensus pattern (41 bp):
TATCAGTTCAAATTTGGTACATTCGTGTATCAAAGTTCAGT
Found at i:2957066 original size:20 final size:21
Alignment explanation
Indices: 2957038--2957091 Score: 65
Period size: 21 Copynumber: 2.6 Consensus size: 21
2957028 GACGCTTAAA
*
2957038 TCATTCGAGCCATTTG-TAAG
1 TCATTCGAGCCATATGATAAG
* * *
2957058 TCTTTCGAGCAAGATGATAAG
1 TCATTCGAGCCATATGATAAG
2957079 TCATTCGAGCCAT
1 TCATTCGAGCCAT
2957092 CCATGAGACA
Statistics
Matches: 26, Mismatches: 7, Indels: 1
0.76 0.21 0.03
Matches are distributed among these distances:
20 12 0.46
21 14 0.54
ACGTcount: A:0.28, C:0.20, G:0.20, T:0.31
Consensus pattern (21 bp):
TCATTCGAGCCATATGATAAG
Found at i:2957470 original size:233 final size:232
Alignment explanation
Indices: 2956978--2957847 Score: 1117
Period size: 233 Copynumber: 3.7 Consensus size: 232
2956968 TAAGAAAATG
* * *
2956978 ATTTCCAAAATTGGTAAGTCATTCGGGCCATCAGTAAGTCTTTCGAGCATGACGCTTAAATCATT
1 ATTTCCAAAATTGGTAAGTCCTTCGGGCCATCAGTAAGTCTTTCGAGCATGATGCTTAAATCCTT
* * * * *
2957043 CGAGC-CATTTGTAAGTCTTTCGAGCAAGATGATAAGTCATTCGAGCCATCCATGAGACATTCGA
66 CG-GCTCATCTGTAAGTCTTTCGAGCAAGATGATAAGTCATTCG-GCCATCCATAAGACCTTTGG
* * * * * *
2957107 GCAAGATGTTTTCAC--GTCTCTTGAAAAATTAGAAAATTTTCTCATTTAAATATGAAAATTGAA
129 GCAGGATGATTTCACATGTCTCTCGAAAAATGAGAAAAGTTTCTCATTTAAATCTGAAAATTGAA
** * * * *
2957170 AAATTTGAAAATTAAGAAAAGTTTCTTACATAGTAAACT
194 ATTTTTGAAAAGTCAGAAAAATTTCTTACCTAGTAAACT
* *
2957209 ATTTCCAAAATTGGTAAGTCCTTCGGGCCATCAATAAGTCTGTCGAGCATGATGCTTAAATCCTT
1 ATTTCCAAAATTGGTAAGTCCTTCGGGCCATCAGTAAGTCTTTCGAGCATGATGCTTAAATCCTT
* * * * *
2957274 CGGCTCATCTGTAAGTCTTTCGTGCAATATGATAAATCTTTCAGGTCATCCATAAGACCTTTGGG
66 CGGCTCATCTGTAAGTCTTTCGAGCAAGATGATAAGTCATTC-GGCCATCCATAAGACCTTTGGG
*
2957339 CAGGATGATTTCACATGTCTCTCAAAAAATGAGAAACA-TTTCTCATTTAAATCTGAAAATTGAA
130 CAGGATGATTTCACATGTCTCTCGAAAAATGAGAAA-AGTTTCTCATTTAAATCTGAAAATTGAA
*
2957403 ATTTTTGAAAAGTCAGAAAAATTGT-TTACCTAGTAAATT
194 ATTTTTGAAAAGTCAGAAAAATT-TCTTACCTAGTAAACT
* * * *
2957442 ATTTCCAAGATTGGTAAGTCCCTCGGGCCATTAGTAAGTCTTTCGAGCATGATGCTTAAATCTTT
1 ATTTCCAAAATTGGTAAGTCCTTCGGGCCATCAGTAAGTCTTTCGAGCATGATGCTTAAATCCTT
2957507 CAGG-TCATCTGTAAGTCTTTCGAGCAAGATGATAAGTCATTCGGGCCATCCATAAGACCTTTGG
66 C-GGCTCATCTGTAAGTCTTTCGAGCAAGATGATAAGTCATTC-GGCCATCCATAAGACCTTTGG
* * * * * *
2957571 ACAGGATGTTTTCACATGTCTCTTGAAAAATAAGAAAAGTTTCTCATTTAAAACTAAAAATTGAA
129 GCAGGATGATTTCACATGTCTCTCGAAAAATGAGAAAAGTTTCTCATTTAAATCTGAAAATTGAA
2957636 ATTTTTGAAAAG-CAAGAAAAATTTCTTACCTAGTAAACT
194 ATTTTTGAAAAGTC-AGAAAAATTTCTTACCTAGTAAACT
* ** * *
2957675 ATTTTCAAAATTGGTAAGTCCTTCAAGCCATTAGTAAGTCTCTCGAGCATGATGCTTAAATCCTT
1 ATTTCCAAAATTGGTAAGTCCTTCGGGCCATCAGTAAGTCTTTCGAGCATGATGCTTAAATCCTT
* * * ** * * * *
2957740 CGGGTTATTTGTAAGTCAATCGAGAAAGATGATAAGTCTTTCGGGCTATCCATGAGACCTTTGGG
66 CGGCTCATCTGTAAGTCTTTCGAGCAAGATGATAAGTCATTC-GGCCATCCATAAGACCTTTGGG
2957805 CAGGAT-ATTTTCACATGTCTCTCGAAAAATGAGAAAAGTTTCT
130 CAGGATGA-TTTCACATGTCTCTCGAAAAATGAGAAAAGTTTCT
2957848 TACCTAATAA
Statistics
Matches: 560, Mismatches: 67, Indels: 22
0.86 0.10 0.03
Matches are distributed among these distances:
230 2 0.00
231 122 0.22
232 6 0.01
233 426 0.76
234 4 0.01
ACGTcount: A:0.33, C:0.17, G:0.17, T:0.33
Consensus pattern (232 bp):
ATTTCCAAAATTGGTAAGTCCTTCGGGCCATCAGTAAGTCTTTCGAGCATGATGCTTAAATCCTT
CGGCTCATCTGTAAGTCTTTCGAGCAAGATGATAAGTCATTCGGCCATCCATAAGACCTTTGGGC
AGGATGATTTCACATGTCTCTCGAAAAATGAGAAAAGTTTCTCATTTAAATCTGAAAATTGAAAT
TTTTGAAAAGTCAGAAAAATTTCTTACCTAGTAAACT
Found at i:2957972 original size:187 final size:186
Alignment explanation
Indices: 2957650--2958034 Score: 529
Period size: 187 Copynumber: 2.1 Consensus size: 186
2957640 TTGAAAAGCA
* * * *
2957650 AGAAAAATTTCTTACCTAGTAAACTATTTTCAAAATTGGTAAGTCCTTCAAGCCATTAGTAAGTC
1 AGAAAAGTTTCTTACCTAATAAACTATTTTCAAAATTGGTAAGTCCCTCAAGCCATCAGTAAGTC
* * * * *
2957715 TCTCGAGCATGATGCTTAAATCCTTCGGGTTATTTGTAAGTCAATCGAGAAAGATGATAAGTCTT
66 TCTCGAGCATGATGCTTAAATCCTTCAGGTCATCTGTAAGTCAATCGACAAAGATGATAAGTCCT
* * ** *
2957780 TCGGGCTATCCATGAGACCTTTGGGCAGGATATTTTCACATGTCTCTCGAAAAATG
131 TCGGGCCATCCATAAGACCTTCAGGCAGGATATTTTCACATGTCTCTCAAAAAATG
** *
2957836 AGAAAAGTTTCTTACCTAATAAACTA-TTTCAAAGATTGGTAAGTCCCTCGGGGCCATCATTAAG
1 AGAAAAGTTTCTTACCTAATAAACTATTTTCAAA-ATTGGTAAGTCCCTC-AAGCCATCAGTAAG
* * ** * *
2957900 TCTTTCGAGCATGATGTTTAAATCCTTCAGGTCATCTGTAAGTCTTTCGACCAAGATGATCAGTC
64 TCTCTCGAGCATGATGCTTAAATCCTTCAGGTCATCTGTAAGTCAATCGACAAAGATGATAAGTC
*
2957965 CTTCGGGCCATCCATAAGACCTTCAGGCAGGATGTTTTCACATGTCTCTCAAAAAATG
129 CTTCGGGCCATCCATAAGACCTTCAGGCAGGATATTTTCACATGTCTCTCAAAAAATG
2958023 AGAAAAGTTTCT
1 AGAAAAGTTTCT
2958035 CATTTAAAAC
Statistics
Matches: 173, Mismatches: 24, Indels: 3
0.87 0.12 0.01
Matches are distributed among these distances:
185 7 0.04
186 38 0.22
187 128 0.74
ACGTcount: A:0.30, C:0.19, G:0.18, T:0.32
Consensus pattern (186 bp):
AGAAAAGTTTCTTACCTAATAAACTATTTTCAAAATTGGTAAGTCCCTCAAGCCATCAGTAAGTC
TCTCGAGCATGATGCTTAAATCCTTCAGGTCATCTGTAAGTCAATCGACAAAGATGATAAGTCCT
TCGGGCCATCCATAAGACCTTCAGGCAGGATATTTTCACATGTCTCTCAAAAAATG
Found at i:2958147 original size:232 final size:229
Alignment explanation
Indices: 2957836--2958281 Score: 565
Period size: 232 Copynumber: 1.9 Consensus size: 229
2957826 TCGAAAAATG
* ** *
2957836 AGAAAAGTTTCTTACCTAATAAACTATTTCAAAGATTGGTAAGTCCCTCGGGGCCATCATTAAGT
1 AGAAAAGTTTCTTACCTAATAAACTATTTCAAAGATTAGTAAGTCCCTCGAAGCCATCAGTAAGT
** * * * * *
2957901 CTTTCGAGCATGATGTTTAAATCCTTCAGGTCATCTGTAAGTCTTTCGACCAAGATGATCAGTCC
66 CTTTCGAGCATGATGAGTAAATCATTCAGGCCATCTATAAGCCTTTCGACCAAGATGATAAGTCC
* * * * *
2957966 TTCGGGCCATCCATAAGACCTTCAGGCAGGATGTTTTCACATGTCTCTCAAAAAATGAGAAAAGT
131 TTCGAGCCATCCACAAGACCTTC--G--GG-CGTTTTCACACGTCTCTCAAAAAATAAGAAAAGT
2958031 TTCTCATTTAAAACTGAAAGTTGAAATTTTTGAAAAGTA
191 TTCTCATTTAAAACTGAAAGTTGAAATTTTTGAAAAGTA
* *
2958070 AGAAAAGTTTCTTACC-AAGTAAACTATTTCCAA-ATTAGTAAGTCCCT-TAAGCCATCAGTAAG
1 AGAAAAGTTTCTTACCTAA-TAAACTATTTCAAAGATTAGTAAGTCCCTCGAAGCCATCAGTAAG
** * *
2958132 TCTTTCGAGCATGATGAGTAAATCATTTGGGCCATCTATAAGCCTTTCGAGCATGATGATAAGTC
65 TCTTTCGAGCATGATGAGTAAATCATTCAGGCCATCTATAAGCCTTTCGACCAAGATGATAAGTC
* * * *
2958197 CTTCGAGCCATCCACAAGACTTTCGGGCGTTTTCACACGTTTTTCGAAAAATAAGAAAAGTTTCT
130 CTTCGAGCCATCCACAAGACCTTCGGGCGTTTTCACACGTCTCTCAAAAAATAAGAAAAGTTTCT
* *
2958262 CTTTTAAATCTGAAAGTTGA
195 CATTTAAAACTGAAAGTTGA
2958282 TTTTTTTTAA
Statistics
Matches: 183, Mismatches: 28, Indels: 9
0.83 0.13 0.04
Matches are distributed among these distances:
227 50 0.27
228 2 0.01
230 1 0.01
232 86 0.47
233 15 0.08
234 29 0.16
ACGTcount: A:0.32, C:0.19, G:0.17, T:0.32
Consensus pattern (229 bp):
AGAAAAGTTTCTTACCTAATAAACTATTTCAAAGATTAGTAAGTCCCTCGAAGCCATCAGTAAGT
CTTTCGAGCATGATGAGTAAATCATTCAGGCCATCTATAAGCCTTTCGACCAAGATGATAAGTCC
TTCGAGCCATCCACAAGACCTTCGGGCGTTTTCACACGTCTCTCAAAAAATAAGAAAAGTTTCTC
ATTTAAAACTGAAAGTTGAAATTTTTGAAAAGTA
Found at i:2958220 original size:41 final size:42
Alignment explanation
Indices: 2958133--2958221 Score: 108
Period size: 41 Copynumber: 2.1 Consensus size: 42
2958123 ATCAGTAAGT
* * * * *
2958133 CTTTCGAGCATGATGAGTAAATCATTTGGGCCATCTATAAGC
1 CTTTCGAGCATGATGAGTAAATCATTCGAGCCATCCACAAGA
* *
2958175 CTTTCGAGCATGATGA-TAAGTCCTTCGAGCCATCCACAAGA
1 CTTTCGAGCATGATGAGTAAATCATTCGAGCCATCCACAAGA
2958216 CTTTCG
1 CTTTCG
2958222 GGCGTTTTCA
Statistics
Matches: 40, Mismatches: 7, Indels: 1
0.83 0.15 0.02
Matches are distributed among these distances:
41 24 0.60
42 16 0.40
ACGTcount: A:0.27, C:0.24, G:0.20, T:0.29
Consensus pattern (42 bp):
CTTTCGAGCATGATGAGTAAATCATTCGAGCCATCCACAAGA
Found at i:2959072 original size:134 final size:134
Alignment explanation
Indices: 2958596--2959084 Score: 563
Period size: 134 Copynumber: 3.7 Consensus size: 134
2958586 GCAAATCGAA
* *
2958596 CTCGATTCAATCTTCCCTGAAGAATAGTGGAATTAATCAACGTCCCCAGATCTGATTTTCCCTCA
1 CTCGATTCAATCTTCCCTGAAGAACAGTGGAATTAATCAACGTCCTCAGATCTGATTTTCCCTCA
* * *
2958661 AGAAGAAGCGAAACAGATCCCTCCCTTTCAAGATTTGATATTCCCTAAGTAACAGTGGAACAAGT
66 AGAAGAAGCGGAACAGATCCCTCTCTTTCAAGATTTGATATTCCCTGAGTAACAGTGGAACAAGT
*
2958726 CTGC
131 CTGT
* * * *
2958730 CTCGTTTAAATCTTCCCTGAAGAACAGTGGAATTAATCAACGTCCACA-ATCTAATTTTCCCTCA
1 CTCGATTCAATCTTCCCTGAAGAACAGTGGAATTAATCAACGTCCTCAGATCTGATTTTCCCTCA
* * * * * *
2958794 AGAAGAGGCAGAACAAATCCCTCTCTTTCAATATTTGATCTTCCCTGAGTAACACTGGAACAAGT
66 AGAAGAAGCGGAACAGATCCCTCTCTTTCAAGATTTGATATTCCCTGAGTAACAGTGGAACAAGT
*
2958859 AT-T
131 CTGT
* * * * *
2958862 CCTCGATTCAATCTTCCCTGAAGAACACTGGAATAAATCAACAT-TTCTAGATCTGATTTTTCCT
1 -CTCGATTCAATCTTCCCTGAAGAACAGTGGAATTAATCAACGTCCTC-AGATCTGATTTTCCCT
* * * * * * *
2958926 CAGGAAGCAGTGGAACATATCCCTCTCTTTCCAGATTTTATTTTCCCTGAGTAACAGTGGAACAA
64 CAAGAAGAAGCGGAACAGATCCCTCTCTTTCAAGATTTGATATTCCCTGAGTAACAGTGGAACAA
2958991 GTCTGT
129 GTCTGT
* * * * * * * *
2958997 CTCGATTCAATCTTCCCTGAAGTATAGTGGAATGAGTCAACGTTTCTCA-ATCTGATCTACCCTG
1 CTCGATTCAATCTTCCCTGAAGAACAGTGGAATTAATCAACG-TCCTCAGATCTGATTTTCCCTC
* * *
2959061 AAGAAAAAGTGGAGCAGATCCCTC
65 AAGAAGAAGCGGAACAGATCCCTC
2959085 ATCAGATTTC
Statistics
Matches: 296, Mismatches: 53, Indels: 12
0.82 0.15 0.03
Matches are distributed among these distances:
132 1 0.00
133 111 0.38
134 179 0.60
135 3 0.01
136 2 0.01
ACGTcount: A:0.30, C:0.24, G:0.16, T:0.29
Consensus pattern (134 bp):
CTCGATTCAATCTTCCCTGAAGAACAGTGGAATTAATCAACGTCCTCAGATCTGATTTTCCCTCA
AGAAGAAGCGGAACAGATCCCTCTCTTTCAAGATTTGATATTCCCTGAGTAACAGTGGAACAAGT
CTGT
Found at i:2961759 original size:18 final size:18
Alignment explanation
Indices: 2961723--2961757 Score: 54
Period size: 17 Copynumber: 2.0 Consensus size: 18
2961713 AAGTTTGTTG
*
2961723 TTTTAATTAAAATTAAAA
1 TTTTAATTAAAATAAAAA
2961741 TTTT-ATTAAAATAAAAA
1 TTTTAATTAAAATAAAAA
2961758 ATACGTTTTG
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
17 12 0.75
18 4 0.25
ACGTcount: A:0.57, C:0.00, G:0.00, T:0.43
Consensus pattern (18 bp):
TTTTAATTAAAATAAAAA
Found at i:2962007 original size:56 final size:56
Alignment explanation
Indices: 2961921--2962034 Score: 228
Period size: 56 Copynumber: 2.0 Consensus size: 56
2961911 ATATGAGTAT
2961921 TATAACTCAGTTGTCGGTAATAGTTTAAATAGTTGTCATTAATGTGTTTGTTTAAC
1 TATAACTCAGTTGTCGGTAATAGTTTAAATAGTTGTCATTAATGTGTTTGTTTAAC
2961977 TATAACTCAGTTGTCGGTAATAGTTTAAATAGTTGTCATTAATGTGTTTGTTTAAC
1 TATAACTCAGTTGTCGGTAATAGTTTAAATAGTTGTCATTAATGTGTTTGTTTAAC
2962033 TA
1 TA
2962035 GAATTCTACT
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:0.29, C:0.09, G:0.18, T:0.45
Consensus pattern (56 bp):
TATAACTCAGTTGTCGGTAATAGTTTAAATAGTTGTCATTAATGTGTTTGTTTAAC
Found at i:2962031 original size:27 final size:27
Alignment explanation
Indices: 2961943--2962031 Score: 67
Period size: 27 Copynumber: 3.2 Consensus size: 27
2961933 GTCGGTAATA
2961943 GTTTAAATAGTTGTCATTAATGTGTTT
1 GTTTAAATAGTTGTCATTAATGTGTTT
* ** * *
2961970 GTTTAACTA-TAACTCAGT--TGTCGGTAATA
1 GTTTAAATAGT-TGTCATTAATGT--GT--TT
2961999 GTTTAAATAGTTGTCATTAATGTGTTT
1 GTTTAAATAGTTGTCATTAATGTGTTT
2962026 GTTTAA
1 GTTTAA
2962032 CTAGAATTCT
Statistics
Matches: 44, Mismatches: 10, Indels: 16
0.63 0.14 0.23
Matches are distributed among these distances:
25 3 0.07
26 1 0.02
27 21 0.48
29 15 0.34
30 1 0.02
31 3 0.07
ACGTcount: A:0.28, C:0.07, G:0.18, T:0.47
Consensus pattern (27 bp):
GTTTAAATAGTTGTCATTAATGTGTTT
Found at i:2962075 original size:82 final size:82
Alignment explanation
Indices: 2961977--2962133 Score: 278
Period size: 82 Copynumber: 1.9 Consensus size: 82
2961967 TTTGTTTAAC
*
2961977 TATAACTCAGTTGTCGGTAATAGTTTAAATAGTTGTCATTAATGTGTTTGTTTAACTAGAATTCT
1 TATAACTCAGTTGTCGGTAATAGTTTAAATAGTTGTCATTAATGTGCTTGTTTAACTAGAATTCT
2962042 ACTTTAAATATGAGTAT
66 ACTTTAAATATGAGTAT
* * *
2962059 TATAACTCAGTTGTCGGTAATATTTTAAATAGTTGTCATTAATGTGCTTGTTTAGCTAGACTTCT
1 TATAACTCAGTTGTCGGTAATAGTTTAAATAGTTGTCATTAATGTGCTTGTTTAACTAGAATTCT
2962124 ACTTTAAATA
66 ACTTTAAATA
2962134 ATGTAATATT
Statistics
Matches: 71, Mismatches: 4, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
82 71 1.00
ACGTcount: A:0.31, C:0.10, G:0.15, T:0.44
Consensus pattern (82 bp):
TATAACTCAGTTGTCGGTAATAGTTTAAATAGTTGTCATTAATGTGCTTGTTTAACTAGAATTCT
ACTTTAAATATGAGTAT
Found at i:2962682 original size:73 final size:73
Alignment explanation
Indices: 2962599--2962746 Score: 278
Period size: 73 Copynumber: 2.0 Consensus size: 73
2962589 CAATCCGTTT
*
2962599 TAAGTGAAATTTATAAATCTTTAAAATGACATTATACAACCTTTTTGGAAATAAATATAAATATG
1 TAAGTGAAATTTATAAATCTTTAAAATGACATTATACAACCTTTTTGAAAATAAATATAAATATG
2962664 TATAAAGA
66 TATAAAGA
*
2962672 TAAGTGAAATTTATAAATCTTTAAAATGACATTATACAACCTTTTTGAAAATTAATATAAATATG
1 TAAGTGAAATTTATAAATCTTTAAAATGACATTATACAACCTTTTTGAAAATAAATATAAATATG
2962737 TATAAAGA
66 TATAAAGA
2962745 TA
1 TA
2962747 TTTAAATTAG
Statistics
Matches: 73, Mismatches: 2, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
73 73 1.00
ACGTcount: A:0.48, C:0.07, G:0.09, T:0.36
Consensus pattern (73 bp):
TAAGTGAAATTTATAAATCTTTAAAATGACATTATACAACCTTTTTGAAAATAAATATAAATATG
TATAAAGA
Found at i:2965400 original size:34 final size:34
Alignment explanation
Indices: 2965360--2965427 Score: 118
Period size: 34 Copynumber: 2.0 Consensus size: 34
2965350 AACAATTCTA
*
2965360 CTACCCAATAATTTGGTAATCAAAGTTAATTATT
1 CTACCCAATAATTTAGTAATCAAAGTTAATTATT
*
2965394 CTACCCAATAATTTAGTGATCAAAGTTAATTATT
1 CTACCCAATAATTTAGTAATCAAAGTTAATTATT
2965428 TTAGGAACAT
Statistics
Matches: 32, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
34 32 1.00
ACGTcount: A:0.38, C:0.15, G:0.09, T:0.38
Consensus pattern (34 bp):
CTACCCAATAATTTAGTAATCAAAGTTAATTATT
Found at i:2969655 original size:3 final size:3
Alignment explanation
Indices: 2969632--2969730 Score: 81
Period size: 3 Copynumber: 32.0 Consensus size: 3
2969622 AATTTTTTAT
* * * * * *
2969632 TAA TAA TAT TAG TAA TAAA TAA TAA TAT TAG TAA TTA TAA TTA TAA
1 TAA TAA TAA TAA TAA T-AA TAA TAA TAA TAA TAA TAA TAA TAA TAA
* * * *
2969678 TTA TAA TATT TAA TAA TAA TAA TAA TAAA TAA TAA TAT TTA TAA TAA
1 TAA TAA TA-A TAA TAA TAA TAA TAA T-AA TAA TAA TAA TAA TAA TAA
2969725 TAA TAA
1 TAA TAA
2969731 ATAAATTAAT
Statistics
Matches: 75, Mismatches: 18, Indels: 6
0.76 0.18 0.06
Matches are distributed among these distances:
3 67 0.89
4 8 0.11
ACGTcount: A:0.57, C:0.00, G:0.02, T:0.41
Consensus pattern (3 bp):
TAA
Found at i:2969656 original size:19 final size:18
Alignment explanation
Indices: 2969632--2969730 Score: 94
Period size: 19 Copynumber: 5.3 Consensus size: 18
2969622 AATTTTTTAT
2969632 TAATAATATTAGTAATAAA
1 TAATAATATTA-TAATAAA
*
2969651 TAATAATATTAGTAAT-TA
1 TAATAATATTA-TAATAAA
* **
2969669 TAATTATAATTATAATATT
1 TAATAAT-ATTATAATAAA
*
2969688 TAATAATAATAATAATAAA
1 TAATAAT-ATTATAATAAA
2969707 TAATAATATTTATAAT-AA
1 TAATAATA-TTATAATAAA
2969725 TAATAA
1 TAATAA
2969731 ATAAATTAAT
Statistics
Matches: 69, Mismatches: 8, Indels: 7
0.82 0.10 0.08
Matches are distributed among these distances:
18 20 0.29
19 49 0.71
ACGTcount: A:0.57, C:0.00, G:0.02, T:0.41
Consensus pattern (18 bp):
TAATAATATTATAATAAA
Found at i:2969740 original size:15 final size:14
Alignment explanation
Indices: 2969692--2969741 Score: 57
Period size: 15 Copynumber: 3.5 Consensus size: 14
2969682 AATATTTAAT
2969692 AATAATAAT-AATA
1 AATAATAATAAATA
**
2969705 AATAATAATATTTA
1 AATAATAATAAATA
2969719 TAATAATAATAAATA
1 -AATAATAATAAATA
2969734 AATTAATA
1 AA-TAATA
2969742 TGGGTAAAAA
Statistics
Matches: 30, Mismatches: 4, Indels: 4
0.79 0.11 0.11
Matches are distributed among these distances:
13 9 0.30
14 4 0.13
15 17 0.57
ACGTcount: A:0.64, C:0.00, G:0.00, T:0.36
Consensus pattern (14 bp):
AATAATAATAAATA
Found at i:2969741 original size:56 final size:56
Alignment explanation
Indices: 2969631--2969742 Score: 147
Period size: 56 Copynumber: 2.0 Consensus size: 56
2969621 TAATTTTTTA
* * * * *
2969631 TTAATAATATTAGTAATAAATAATAATATTAGTAATTATAATTATAATTATAATAT
1 TTAATAATAATAATAATAAATAATAATATTAGTAATAATAATAATAAATATAATAT
2969687 TTAATAATAATAATAATAAATAATAATATTTA-TAATAATAATAAATAAAT-TAATAT
1 TTAATAATAATAATAATAAATAATAATA-TTAGTAATAATAAT-AATAAATATAATAT
2969743 GGGTAAAAAA
Statistics
Matches: 49, Mismatches: 5, Indels: 4
0.84 0.09 0.07
Matches are distributed among these distances:
56 41 0.84
57 8 0.16
ACGTcount: A:0.56, C:0.00, G:0.02, T:0.42
Consensus pattern (56 bp):
TTAATAATAATAATAATAAATAATAATATTAGTAATAATAATAATAAATATAATAT
Found at i:2970461 original size:113 final size:113
Alignment explanation
Indices: 2969989--2970848 Score: 1325
Period size: 113 Copynumber: 7.8 Consensus size: 113
2969979 AAGCCTGATG
*
2969989 AGTTCTTCTCATTATGAACTTCTTCATCCTTCTTTC-GATGAG-TCTT-TCATTATGAACTCTT-
1 AGTTCTTCTCATTATGAACTTCTTCTTCCTTC-TTCAGATGAGTTCTTCTCATTATGAACT-TTC
* * * *
2970050 TCTGG-CAGGCTGATCCATCAATTGATGAATTCATGTAAAAGGTTGAACA
64 TCTGGAAAAGCTGATCCATCAAGTGATGAATTCATGCAAAAGGTTGAACA
2970099 AGTTCTTCTCATTATGAACTTCTTCTTCC-T-TTCAGATGAGTTCTTCTCATTATGAACTTTCTC
1 AGTTCTTCTCATTATGAACTTCTTCTTCCTTCTTCAGATGAGTTCTTCTCATTATGAACTTTCTC
2970162 TGGAAAAGCTGATCCATCAAGTGATGAATTCATGCAAAAGGTTGAACA
66 TGGAAAAGCTGATCCATCAAGTGATGAATTCATGCAAAAGGTTGAACA
* * *
2970210 AATTCTTCTCATTATGAACTTCTTCTT-CTTCTTCAGATGAATTCTTCTCTTTATGAACTTTCTC
1 AGTTCTTCTCATTATGAACTTCTTCTTCCTTCTTCAGATGAGTTCTTCTCATTATGAACTTTCTC
* *
2970274 TGGAAAAGCTGATCCATCAAGTGATGGATTTGA-GCAAAAGGTTGAACA
66 TGGAAAAGCTGATCCATCAAGTGAT-GAATTCATGCAAAAGGTTGAACA
*
2970322 AGTTCTTCTCATTATGAACTTCTTCTTCCTTCTTCAGATGAGTTCTTCTCTTTATGAACTTTCTC
1 AGTTCTTCTCATTATGAACTTCTTCTTCCTTCTTCAGATGAGTTCTTCTCATTATGAACTTTCTC
* *
2970387 TGG-AAAGCTGATCCATCAAGTGATGGATTTGA-GCAAAAGGTTGAACA
66 TGGAAAAGCTGATCCATCAAGTGAT-GAATTCATGCAAAAGGTTGAACA
*
2970434 AGCTCTTCTCATTATGAACTT-TT-TT-CTTCTTCAGATGAGTTCTTCTCATTATGAACTTTCTC
1 AGTTCTTCTCATTATGAACTTCTTCTTCCTTCTTCAGATGAGTTCTTCTCATTATGAACTTTCTC
* *
2970496 TGGAAAAG-TGATCCATCAAGTGATGGATTTGA-GCAAAAGGTTGAACA
66 TGGAAAAGCTGATCCATCAAGTGAT-GAATTCATGCAAAAGGTTGAACA
*
2970543 AGCTCTT-TCATTATGAAC-T-TT-TTCCTTCTTCAGATGAG---TTCTCATTATGAACTTTCTC
1 AGTTCTTCTCATTATGAACTTCTTCTTCCTTCTTCAGATGAGTTCTTCTCATTATGAACTTTCTC
*
2970601 TGGAAAAGCTGATCCATCAAGTGATGAATTCATGTAAAAGGTTGAACA
66 TGGAAAAGCTGATCCATCAAGTGATGAATTCATGCAAAAGGTTGAACA
*
2970649 AGTTCTTCTCATTATGAACTTCTTCTTCCTTCTTCAGATGAGTTCTTCTCATTATGAACTTTCTA
1 AGTTCTTCTCATTATGAACTTCTTCTTCCTTCTTCAGATGAGTTCTTCTCATTATGAACTTTCTC
*
2970714 TGGAAAAGCTGATCCATCAAGTGATGAATTCATGTAAAAGGTTGAACA
66 TGGAAAAGCTGATCCATCAAGTGATGAATTCATGCAAAAGGTTGAACA
*
2970762 AGTTCTTCTCATTATGAACTTCTTCTTCCTTCTTCAGATGAGTTCTTCTCATTATGAACTTTTTC
1 AGTTCTTCTCATTATGAACTTCTTCTTCCTTCTTCAGATGAGTTCTTCTCATTATGAACTTTCTC
2970827 TGGAAAAGCTGATCCATCAAGT
66 TGGAAAAGCTGATCCATCAAGT
2970849 AATGGATTTA
Statistics
Matches: 709, Mismatches: 21, Indels: 37
0.92 0.03 0.05
Matches are distributed among these distances:
105 33 0.05
106 36 0.05
107 19 0.03
108 32 0.05
109 94 0.13
110 69 0.10
111 69 0.10
112 161 0.23
113 196 0.28
ACGTcount: A:0.27, C:0.19, G:0.16, T:0.38
Consensus pattern (113 bp):
AGTTCTTCTCATTATGAACTTCTTCTTCCTTCTTCAGATGAGTTCTTCTCATTATGAACTTTCTC
TGGAAAAGCTGATCCATCAAGTGATGAATTCATGCAAAAGGTTGAACA
Found at i:2970775 original size:440 final size:443
Alignment explanation
Indices: 2969992--2970857 Score: 1360
Period size: 440 Copynumber: 2.0 Consensus size: 443
2969982 CCTGATGAGT
*
2969992 TCTTCTCATTATGAACTTCTTCATCCTTCTTTCGATGAGTCTTTCATTATGAACTCTTTCTGGCA
1 TCTTCTCATTATGAACTTCTT-ATCCTTCTTTCGATGAGTCTTTCATTATGAACTCTTTCTGGAA
* * * *
2970057 GGCTGATCCATCAATTGATGAATTCATGTAAAAGGTTGAACAAGTTCTTCTCATTATGAACTTCT
65 AGCTGATCCATCAAGTGATGAATTCATGCAAAAGGTTGAACAAGCTCTTCTCATTATGAACTTCT
2970122 TCTTCCTTTCAGATGAGTTCTTCTCATTATGAACTTTCTCTGGAAAAGCTGATCCATCAAGTGAT
130 TCTTCCTTTCAGATGAG-T-TTCTCATTATGAACTTTCTCTGGAAAAGCTGATCCATCAAGTGAT
2970187 GAATTCATGCAAAAGGTTGAACAAATTCTTCTCATTATGAACTTCTTCTTCTTCTTCAGATGAAT
193 GAATTCATGCAAAAGGTTGAACAAATTCTTCTCATTATGAACTTCTTCTTCTTCTTCAGATGAAT
* * * *
2970252 TCTTCTCTTTATGAACTTTCTCTGGAAAAGCTGATCCATCAAGTGATGGATTTGAGCAAAAGGTT
258 TCTTCTCATTATGAACTTTCTATGGAAAAGCTGATCCATCAAGTGATGGAATTCAGCAAAAGGTT
*
2970317 GAACAAGTTCTTCTCATTATGAACTTCTTCTTCCTTCTTCAGATGAGTTCTTCTCTTTATGAACT
323 GAACAAGTTCTTCTCATTATGAACTTCTTCTTCCTTCTTCAGATGAGTTCTTCTCATTATGAACT
*
2970382 TTCTCTGG-AAAGCTGATCCATCAAGTGATGGATTTGAGCAAAAGGTTGAACAAGC
388 TTCTCTGGAAAAGCTGATCCATCAAGTAATGGATTTGAGCAAAAGGTTGAACAAGC
*
2970437 TCTTCTCATTATGAACTT-TT-TTCTTC-TTCAGATGAGTTCTTCTCATTATGAACT-TTCTCTG
1 TCTTCTCATTATGAACTTCTTATCCTTCTTTC-GATGAG-TCTT-TCATTATGAACTCTT-TCTG
* *
2970498 GAAAAG-TGATCCATCAAGTGATGGATTTGA-GCAAAAGGTTGAACAAGCTCTT-TCATTATGAA
62 G-AAAGCTGATCCATCAAGTGAT-GAATTCATGCAAAAGGTTGAACAAGCTCTTCTCATTATGAA
*
2970560 CTTTTTCCTT-C-TTCAGATGAG-TTCTCATTATGAACTTTCTCTGGAAAAGCTGATCCATCAAG
125 CTTCTT-CTTCCTTTCAGATGAGTTTCTCATTATGAACTTTCTCTGGAAAAGCTGATCCATCAAG
* *
2970622 TGATGAATTCATGTAAAAGGTTGAACAAGTTCTTCTCATTATGAACTTCTTCTTCCTTCTTCAGA
189 TGATGAATTCATGCAAAAGGTTGAACAAATTCTTCTCATTATGAACTTCTTCTT-CTTCTTCAGA
* *
2970687 TGAGTTCTTCTCATTATGAACTTTCTATGGAAAAGCTGATCCATCAAGTGAT-GAATTCATGTAA
253 TGAATTCTTCTCATTATGAACTTTCTATGGAAAAGCTGATCCATCAAGTGATGGAATTCA-GCAA
2970751 AAGGTTGAACAAGTTCTTCTCATTATGAACTTCTTCTTCCTTCTTCAGATGAGTTCTTCTCATTA
317 AAGGTTGAACAAGTTCTTCTCATTATGAACTTCTTCTTCCTTCTTCAGATGAGTTCTTCTCATTA
*
2970816 TGAACTTTTTCTGGAAAAGCTGATCCATCAAGTAATGGATTT
382 TGAACTTTCTCTGGAAAAGCTGATCCATCAAGTAATGGATTT
2970858 AAATCTTTGC
Statistics
Matches: 391, Mismatches: 20, Indels: 24
0.90 0.05 0.06
Matches are distributed among these distances:
439 98 0.25
440 139 0.36
441 29 0.07
442 21 0.05
443 22 0.06
444 57 0.15
445 25 0.06
ACGTcount: A:0.27, C:0.19, G:0.16, T:0.38
Consensus pattern (443 bp):
TCTTCTCATTATGAACTTCTTATCCTTCTTTCGATGAGTCTTTCATTATGAACTCTTTCTGGAAA
GCTGATCCATCAAGTGATGAATTCATGCAAAAGGTTGAACAAGCTCTTCTCATTATGAACTTCTT
CTTCCTTTCAGATGAGTTTCTCATTATGAACTTTCTCTGGAAAAGCTGATCCATCAAGTGATGAA
TTCATGCAAAAGGTTGAACAAATTCTTCTCATTATGAACTTCTTCTTCTTCTTCAGATGAATTCT
TCTCATTATGAACTTTCTATGGAAAAGCTGATCCATCAAGTGATGGAATTCAGCAAAAGGTTGAA
CAAGTTCTTCTCATTATGAACTTCTTCTTCCTTCTTCAGATGAGTTCTTCTCATTATGAACTTTC
TCTGGAAAAGCTGATCCATCAAGTAATGGATTTGAGCAAAAGGTTGAACAAGC
Found at i:2971771 original size:83 final size:83
Alignment explanation
Indices: 2971584--2971809 Score: 366
Period size: 83 Copynumber: 2.7 Consensus size: 83
2971574 GTAGTTCCTA
*
2971584 CCAAACCAGATCAGATAACTCAAAGATCACTTCCAGAAGATGCTATGAGCAAA-T-ATCTTCTAA
1 CCAAACCAGATCAGATAACTCAAAGAACACTTCCAGAAGATGCTATGAGCAAATTCATCTTCTAA
* *
2971647 ATTCAATGATTGGTTCTG
66 ATCCAATGATTGATTCTG
* *
2971665 CCAAACCAGATCAGATAACTCAAAGAACACTTCCAGAAGATGCTATGAACAAATTCATCTTTTAA
1 CCAAACCAGATCAGATAACTCAAAGAACACTTCCAGAAGATGCTATGAGCAAATTCATCTTCTAA
2971730 ATCCAATGATTGATTCTG
66 ATCCAATGATTGATTCTG
* * *
2971748 CCAAACCAGATCAGATAATTCAAAGAACACTTCCAAAAGATGCTATGAGCACATTCATCTTC
1 CCAAACCAGATCAGATAACTCAAAGAACACTTCCAGAAGATGCTATGAGCAAATTCATCTTC
2971810 CAGTTAAGGT
Statistics
Matches: 133, Mismatches: 10, Indels: 2
0.92 0.07 0.01
Matches are distributed among these distances:
81 51 0.38
82 1 0.01
83 81 0.61
ACGTcount: A:0.39, C:0.23, G:0.13, T:0.26
Consensus pattern (83 bp):
CCAAACCAGATCAGATAACTCAAAGAACACTTCCAGAAGATGCTATGAGCAAATTCATCTTCTAA
ATCCAATGATTGATTCTG
Found at i:2972495 original size:19 final size:17
Alignment explanation
Indices: 2972467--2972512 Score: 58
Period size: 16 Copynumber: 2.6 Consensus size: 17
2972457 TTCATATAAG
*
2972467 AATAACTTGAAATTTCGAA
1 AATAAATTGAAATTTC--A
2972486 AATAAATTG-AATTTCA
1 AATAAATTGAAATTTCA
2972502 AATAAATTGAA
1 AATAAATTGAA
2972513 CTTGAAATAG
Statistics
Matches: 25, Mismatches: 1, Indels: 4
0.83 0.03 0.13
Matches are distributed among these distances:
16 10 0.40
17 1 0.04
18 6 0.24
19 8 0.32
ACGTcount: A:0.52, C:0.07, G:0.09, T:0.33
Consensus pattern (17 bp):
AATAAATTGAAATTTCA
Found at i:2972520 original size:16 final size:16
Alignment explanation
Indices: 2972485--2972521 Score: 56
Period size: 16 Copynumber: 2.3 Consensus size: 16
2972475 GAAATTTCGA
*
2972485 AAATAAATTGAATTTC
1 AAATAAATTGAACTTC
*
2972501 AAATAAATTGAACTTG
1 AAATAAATTGAACTTC
2972517 AAATA
1 AAATA
2972522 GATAGAATTG
Statistics
Matches: 19, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
16 19 1.00
ACGTcount: A:0.54, C:0.05, G:0.08, T:0.32
Consensus pattern (16 bp):
AAATAAATTGAACTTC
Found at i:2972856 original size:10 final size:10
Alignment explanation
Indices: 2972841--2972873 Score: 50
Period size: 10 Copynumber: 3.3 Consensus size: 10
2972831 CTTGACCCCC
2972841 TTTTTTTTCT
1 TTTTTTTTCT
2972851 TTTTTTTTCT
1 TTTTTTTTCT
2972861 TTTTCTTTT-T
1 TTTT-TTTTCT
2972871 TTT
1 TTT
2972874 CACTTTTTTC
Statistics
Matches: 22, Mismatches: 0, Indels: 2
0.92 0.00 0.08
Matches are distributed among these distances:
10 18 0.82
11 4 0.18
ACGTcount: A:0.00, C:0.09, G:0.00, T:0.91
Consensus pattern (10 bp):
TTTTTTTTCT
Found at i:2985711 original size:3 final size:3
Alignment explanation
Indices: 2985688--2985792 Score: 111
Period size: 3 Copynumber: 34.0 Consensus size: 3
2985678 AATTTTTTAT
* * * * * *
2985688 TAA TAA TAT TAG TAA TAAA TAA TAA TAT TAG TAA TTA TAA TTA TAA
1 TAA TAA TAA TAA TAA T-AA TAA TAA TAA TAA TAA TAA TAA TAA TAA
* *
2985734 TAA TAA TAA TTAA TAA TAA TAA TAA TAA TAA TAA TAA TAT TTA TAA
1 TAA TAA TAA -TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA
2985780 TAA TAA TACA TAA
1 TAA TAA TA-A TAA
2985793 ATTAATATGG
Statistics
Matches: 85, Mismatches: 14, Indels: 6
0.81 0.13 0.06
Matches are distributed among these distances:
3 76 0.89
4 9 0.11
ACGTcount: A:0.58, C:0.01, G:0.02, T:0.39
Consensus pattern (3 bp):
TAA
Found at i:2993231 original size:13 final size:13
Alignment explanation
Indices: 2993213--2993245 Score: 66
Period size: 13 Copynumber: 2.5 Consensus size: 13
2993203 AGTTGAACAA
2993213 TCTTCATATGCAG
1 TCTTCATATGCAG
2993226 TCTTCATATGCAG
1 TCTTCATATGCAG
2993239 TCTTCAT
1 TCTTCAT
2993246 TTACTAAATG
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 20 1.00
ACGTcount: A:0.21, C:0.24, G:0.12, T:0.42
Consensus pattern (13 bp):
TCTTCATATGCAG
Found at i:2994922 original size:3 final size:3
Alignment explanation
Indices: 2994914--2994941 Score: 56
Period size: 3 Copynumber: 9.3 Consensus size: 3
2994904 TGTCACATAC
2994914 ATT ATT ATT ATT ATT ATT ATT ATT ATT A
1 ATT ATT ATT ATT ATT ATT ATT ATT ATT A
2994942 AATAATAATT
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 25 1.00
ACGTcount: A:0.36, C:0.00, G:0.00, T:0.64
Consensus pattern (3 bp):
ATT
Found at i:2995225 original size:18 final size:18
Alignment explanation
Indices: 2995185--2995227 Score: 59
Period size: 18 Copynumber: 2.4 Consensus size: 18
2995175 TGATTTTCAG
2995185 CGCCGCCTTCAACCACTC
1 CGCCGCCTTCAACCACTC
* **
2995203 TGCCGCCTTCAACTGCTC
1 CGCCGCCTTCAACCACTC
2995221 CGCCGCC
1 CGCCGCC
2995228 ATGTTTCCCA
Statistics
Matches: 21, Mismatches: 4, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
18 21 1.00
ACGTcount: A:0.12, C:0.53, G:0.16, T:0.19
Consensus pattern (18 bp):
CGCCGCCTTCAACCACTC
Found at i:2997251 original size:12 final size:12
Alignment explanation
Indices: 2997234--2997258 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
2997224 CAATTCATTT
2997234 TTTTATTTTTTA
1 TTTTATTTTTTA
2997246 TTTTATTTTTTA
1 TTTTATTTTTTA
2997258 T
1 T
2997259 ATCCTTATAT
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:0.16, C:0.00, G:0.00, T:0.84
Consensus pattern (12 bp):
TTTTATTTTTTA
Found at i:3001248 original size:18 final size:19
Alignment explanation
Indices: 3001205--3001248 Score: 74
Period size: 18 Copynumber: 2.4 Consensus size: 19
3001195 AAGAAGATAT
3001205 CATTGCT-TCTGTCTCTAC
1 CATTGCTCTCTGTCTCTAC
3001223 CATTGCTCT-TGTCTCTAC
1 CATTGCTCTCTGTCTCTAC
3001241 CATTGCTC
1 CATTGCTC
3001249 CATATATCGA
Statistics
Matches: 25, Mismatches: 0, Indels: 2
0.93 0.00 0.07
Matches are distributed among these distances:
18 24 0.96
19 1 0.04
ACGTcount: A:0.11, C:0.34, G:0.11, T:0.43
Consensus pattern (19 bp):
CATTGCTCTCTGTCTCTAC
Found at i:3002097 original size:18 final size:18
Alignment explanation
Indices: 3002074--3002121 Score: 87
Period size: 18 Copynumber: 2.7 Consensus size: 18
3002064 CAGGGGAAGT
3002074 TGAGGGTTGTGATAATGA
1 TGAGGGTTGTGATAATGA
3002092 TGAGGGTTGTGATAATGA
1 TGAGGGTTGTGATAATGA
*
3002110 TGAGGGATGTGA
1 TGAGGGTTGTGA
3002122 CTTACATTTT
Statistics
Matches: 29, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
18 29 1.00
ACGTcount: A:0.27, C:0.00, G:0.42, T:0.31
Consensus pattern (18 bp):
TGAGGGTTGTGATAATGA
Found at i:3002449 original size:100 final size:100
Alignment explanation
Indices: 3002276--3002475 Score: 400
Period size: 100 Copynumber: 2.0 Consensus size: 100
3002266 ACAGAATTTG
3002276 ATTAATTTGCTTCAAGAATATAATGATGTATTTGCTTGGTCATATAAAGACATGACAGGTTTGGA
1 ATTAATTTGCTTCAAGAATATAATGATGTATTTGCTTGGTCATATAAAGACATGACAGGTTTGGA
3002341 TACAGAGATGGTAGTACACAAGTTACCAATAAAGC
66 TACAGAGATGGTAGTACACAAGTTACCAATAAAGC
3002376 ATTAATTTGCTTCAAGAATATAATGATGTATTTGCTTGGTCATATAAAGACATGACAGGTTTGGA
1 ATTAATTTGCTTCAAGAATATAATGATGTATTTGCTTGGTCATATAAAGACATGACAGGTTTGGA
3002441 TACAGAGATGGTAGTACACAAGTTACCAATAAAGC
66 TACAGAGATGGTAGTACACAAGTTACCAATAAAGC
3002476 CAGAATATAA
Statistics
Matches: 100, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
100 100 1.00
ACGTcount: A:0.37, C:0.12, G:0.20, T:0.31
Consensus pattern (100 bp):
ATTAATTTGCTTCAAGAATATAATGATGTATTTGCTTGGTCATATAAAGACATGACAGGTTTGGA
TACAGAGATGGTAGTACACAAGTTACCAATAAAGC
Found at i:3005862 original size:160 final size:159
Alignment explanation
Indices: 3005652--3005968 Score: 577
Period size: 160 Copynumber: 2.0 Consensus size: 159
3005642 TTCCATGTAA
3005652 TATTTAAAAACTCTTACATTTATAAATAAAAAGAGACTTTCTTGTTAACTCTCATTTTTGCAAGC
1 TATTTAAAAACTCTTACATTTATAAATAAAAAGAGACTTTCTTGTTAACTCTCATTTTTGCAAGC
3005717 ATTTTGCTTTGAAAA-TTAAAATATAGTATTTTAACTTGAAGTACATAAAATCATGG-GTATTAT
66 ATTTTGCTTTGAAAATTTAAAATAT-GTATTTTAACTTGAAGTACATAAAATCATGGTGTATTAT
3005780 TGTACAAAAAG-TTTTTTAAATGCAGGTGT
130 TGTACAAAAAGTTTTTTTAAATGCAGGTGT
3005809 TATTTAAAAACTCTTACATTTGTATAAATAAAAAGAGACTTTTCTTGTTAACTCTCATTTTTGCA
1 TATTTAAAAACTCTTACA-TT-TATAAATAAAAAGAGAC-TTTCTTGTTAACTCTCATTTTTGCA
3005874 AGCATTTTGCTTTGAAAATTTAAAATATGTATTTTAACTTGAAGTACATAAAATCATGGTGTATT
63 AGCATTTTGCTTTGAAAATTTAAAATATGTATTTTAACTTGAAGTACATAAAATCATGGTGTATT
3005939 ATTGTACAAAAAGTTTTTTTAAATGCAGGT
128 ATTGTACAAAAAGTTTTTTTAAATGCAGGT
3005969 TTTCTAAAAT
Statistics
Matches: 154, Mismatches: 0, Indels: 7
0.96 0.00 0.04
Matches are distributed among these distances:
157 18 0.12
158 2 0.01
159 17 0.11
160 74 0.48
161 27 0.18
162 16 0.10
ACGTcount: A:0.37, C:0.10, G:0.12, T:0.41
Consensus pattern (159 bp):
TATTTAAAAACTCTTACATTTATAAATAAAAAGAGACTTTCTTGTTAACTCTCATTTTTGCAAGC
ATTTTGCTTTGAAAATTTAAAATATGTATTTTAACTTGAAGTACATAAAATCATGGTGTATTATT
GTACAAAAAGTTTTTTTAAATGCAGGTGT
Found at i:3006607 original size:137 final size:137
Alignment explanation
Indices: 3006350--3006867 Score: 689
Period size: 137 Copynumber: 3.8 Consensus size: 137
3006340 GATATTTTAG
*
3006350 GCAACATCATCCTTAGATAACCAGACGTCCTCATCACGAAGGAACCGTGTTATCTCAAATATCTT
1 GCAACATCATCCTTAGATAACCAGACGTCCTCATCACGAAGGAACCATGTTATCTCAAATATCTT
* * * * **
3006415 TAAAGATGGCCAGACGTCCTCATCACGAAGGAACAATGTCATCTATTGATCAGAACTCCTCATCA
66 TAAAGATGACCAAATGTCCTCATCACGAAGGAACAATGTCATCCATCAATCAGAACTCCTCATCA
*
3006480 CGAAGAA
131 CGAAGGA
*
3006487 GCAACATCATCCTTAGATAACCAGACGTCCTCATTACGAAGGAACCATGTTATCTCAAATATCTT
1 GCAACATCATCCTTAGATAACCAGACGTCCTCATCACGAAGGAACCATGTTATCTCAAATATCTT
** * *
3006552 TAAAGATGGTCAAATGTCCTCATCACAAAGGAACAATGTCATCCATCAATTAGAACTCCTCATCA
66 TAAAGATGACCAAATGTCCTCATCACGAAGGAACAATGTCATCCATCAATCAGAACTCCTCATCA
3006617 CGAAGGA
131 CGAAGGA
* * * * * * **
3006624 GCAACAACTTTCTTAGATAGCCAGATGTCCTCATCATGAAGGAACTGTGTTATCTCAAATATCTT
1 GCAACATCATCCTTAGATAACCAGACGTCCTCATCACGAAGGAACCATGTTATCTCAAATATCTT
* * * *
3006689 TAAAGATGACCAGATGTCCTCATCACGAAGG-ACAATATCATCCACCAATCAGAACTTCTCATCA
66 TAAAGATGACCAAATGTCCTCATCACGAAGGAACAATGTCATCCATCAATCAGAACTCCTCATCA
*
3006753 CAAAGGA
131 CGAAGGA
* * * * * **
3006760 GTC-GCTTCATCCTTAGATAACCAGACATCCTCATCATGAAGGAACCATGTTATCACTATTTATC
1 G-CAACATCATCCTTAGATAACCAGACGTCCTCATCACGAAGGAACCATGTTATCTC-AAATATC
* *
3006824 TCTAAAAATGACCAAATGTCCTCATCACGAAGGAACAATGTCAT
64 TTTAAAGATGACCAAATGTCCTCATCACGAAGGAACAATGTCAT
3006868 ACACCAGTTT
Statistics
Matches: 332, Mismatches: 46, Indels: 5
0.87 0.12 0.01
Matches are distributed among these distances:
136 78 0.23
137 245 0.74
138 9 0.03
ACGTcount: A:0.35, C:0.25, G:0.14, T:0.25
Consensus pattern (137 bp):
GCAACATCATCCTTAGATAACCAGACGTCCTCATCACGAAGGAACCATGTTATCTCAAATATCTT
TAAAGATGACCAAATGTCCTCATCACGAAGGAACAATGTCATCCATCAATCAGAACTCCTCATCA
CGAAGGA
Found at i:3007031 original size:3 final size:3
Alignment explanation
Indices: 3007023--3007050 Score: 56
Period size: 3 Copynumber: 9.3 Consensus size: 3
3007013 TGTCACATAC
3007023 ATT ATT ATT ATT ATT ATT ATT ATT ATT A
1 ATT ATT ATT ATT ATT ATT ATT ATT ATT A
3007051 AATAATAATT
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 25 1.00
ACGTcount: A:0.36, C:0.00, G:0.00, T:0.64
Consensus pattern (3 bp):
ATT
Found at i:3011059 original size:2 final size:2
Alignment explanation
Indices: 3011052--3011093 Score: 84
Period size: 2 Copynumber: 21.0 Consensus size: 2
3011042 TGTTACATTA
3011052 AT AT AT 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 AT AT AT
3011094 GAAAAATTGG
Statistics
Matches: 40, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 40 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:3012702 original size:22 final size:22
Alignment explanation
Indices: 3012677--3012719 Score: 59
Period size: 22 Copynumber: 2.0 Consensus size: 22
3012667 TTAGTTTGAT
* *
3012677 TTTATTTTTATAGATTTTTTTC
1 TTTAATTTTAAAGATTTTTTTC
*
3012699 TTTAATTTTAAATATTTTTTT
1 TTTAATTTTAAAGATTTTTTT
3012720 ATGAATCTAA
Statistics
Matches: 18, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
22 18 1.00
ACGTcount: A:0.23, C:0.02, G:0.02, T:0.72
Consensus pattern (22 bp):
TTTAATTTTAAAGATTTTTTTC
Found at i:3014925 original size:13 final size:13
Alignment explanation
Indices: 3014907--3014931 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
3014897 ATATTATACA
3014907 TAATATATACATT
1 TAATATATACATT
3014920 TAATATATACAT
1 TAATATATACAT
3014932 CAACACTTAT
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:0.48, C:0.08, G:0.00, T:0.44
Consensus pattern (13 bp):
TAATATATACATT
Found at i:3016877 original size:63 final size:63
Alignment explanation
Indices: 3016778--3016903 Score: 252
Period size: 63 Copynumber: 2.0 Consensus size: 63
3016768 TTACTTTTAT
3016778 TTTGTGATCATTCACTTGGATTTCTTCGTTGCAAAATGTAAATAATATAGCTTCAGAGATATG
1 TTTGTGATCATTCACTTGGATTTCTTCGTTGCAAAATGTAAATAATATAGCTTCAGAGATATG
3016841 TTTGTGATCATTCACTTGGATTTCTTCGTTGCAAAATGTAAATAATATAGCTTCAGAGATATG
1 TTTGTGATCATTCACTTGGATTTCTTCGTTGCAAAATGTAAATAATATAGCTTCAGAGATATG
3016904 ATGAATTTAT
Statistics
Matches: 63, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
63 63 1.00
ACGTcount: A:0.30, C:0.13, G:0.17, T:0.40
Consensus pattern (63 bp):
TTTGTGATCATTCACTTGGATTTCTTCGTTGCAAAATGTAAATAATATAGCTTCAGAGATATG
Found at i:3037864 original size:23 final size:23
Alignment explanation
Indices: 3037838--3037885 Score: 71
Period size: 23 Copynumber: 2.1 Consensus size: 23
3037828 AATATTTTTA
3037838 TATTGAATC-ATTCAATACTATTT
1 TATTGAATCAATT-AATACTATTT
*
3037861 TATTGAATCAATTAATATTATTT
1 TATTGAATCAATTAATACTATTT
3037884 TA
1 TA
3037886 CTAATTATTT
Statistics
Matches: 23, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
23 20 0.87
24 3 0.13
ACGTcount: A:0.38, C:0.08, G:0.04, T:0.50
Consensus pattern (23 bp):
TATTGAATCAATTAATACTATTT
Found at i:3042675 original size:188 final size:188
Alignment explanation
Indices: 3042325--3042677 Score: 412
Period size: 189 Copynumber: 1.9 Consensus size: 188
3042315 ACCAAATTTG
* * ** * *
3042325 CGCAATTAGTAACATTTTAGGCTTTTCACTTGTTTTGTTGTTGTGACTATTTTCTTTGACTCATT
1 CGCAATTAGTAACATTTTAGGCTTTTCAATTATTTTGTTACTATGACTATTTTCTTTAACTCATT
* ** * *
3042390 TGCTAAACTTTTTTTACATTGTTGGGTCCAAACCAGATTTTTTAAAGAAACTTATAACATCCAAT
66 AGCTAAACTTCGTTAACATTGTTAGGTCCAAACCAGATTTTTTAAAGAAACTTATAACATCCAAT
** *
3042455 ATAGCAACCTAATCTATCTGCGACCGATAACATTCTTGGGTGCAATCAAAATTTTTAC
131 ATAGCAACCTAATCTATAAGCGACCAATAACATTCTTGGGTGCAATCAAAATTTTTAC
* *
3042513 CGCAATT-GATAACATTTTCGGCTTTTCAATGTATTTTGTTACTATGACTATTTTCTTTAAGTCA
1 CGCAATTAG-TAACATTTTAGGCTTTTCAAT-TATTTTGTTACTATGACTATTTTCTTTAACTCA
* * * *
3042577 TTAGCTAAACTTCGTTAATATT-TTAGGTCCAAACCGGATTTTTTTAAA-AAGCTTTTAACATTC
64 TTAGCTAAACTTCGTTAACATTGTTAGGTCCAAACCAGA-TTTTTTAAAGAAACTTATAACA-TC
* *
3042640 CAA-ATTA-CAAACCTACTTTATAAGCGA-CAATAACATTC
127 CAATA-TAGC-AACCTAATCTATAAGCGACCAATAACATTC
3042678 CTAGAAGCAA
Statistics
Matches: 137, Mismatches: 22, Indels: 12
0.80 0.13 0.07
Matches are distributed among these distances:
187 1 0.01
188 62 0.45
189 74 0.54
ACGTcount: A:0.30, C:0.18, G:0.12, T:0.40
Consensus pattern (188 bp):
CGCAATTAGTAACATTTTAGGCTTTTCAATTATTTTGTTACTATGACTATTTTCTTTAACTCATT
AGCTAAACTTCGTTAACATTGTTAGGTCCAAACCAGATTTTTTAAAGAAACTTATAACATCCAAT
ATAGCAACCTAATCTATAAGCGACCAATAACATTCTTGGGTGCAATCAAAATTTTTAC
Found at i:3042989 original size:3 final size:3
Alignment explanation
Indices: 3042909--3042973 Score: 103
Period size: 3 Copynumber: 21.0 Consensus size: 3
3042899 AGTTTTTGTC
*
3042909 TAT TTT TAT TAT TAAT TAT ATAT TAT TAT TAT TAT TAT TAT TAT TAT
1 TAT TAT TAT TAT T-AT TAT -TAT TAT TAT TAT TAT TAT TAT TAT TAT
3042956 TAT TAT TAT TAT TAT TAT
1 TAT TAT TAT TAT TAT TAT
3042974 CTTACAAATT
Statistics
Matches: 58, Mismatches: 2, Indels: 4
0.91 0.03 0.06
Matches are distributed among these distances:
3 52 0.90
4 6 0.10
ACGTcount: A:0.34, C:0.00, G:0.00, T:0.66
Consensus pattern (3 bp):
TAT
Found at i:3043003 original size:15 final size:13
Alignment explanation
Indices: 3042915--3043018 Score: 90
Period size: 12 Copynumber: 7.8 Consensus size: 13
3042905 TGTCTATTTT
3042915 TATTATTAATTATA
1 TATTATT-ATTATA
3042929 TATTATTATTAT-
1 TATTATTATTATA
3042941 TATTATTATTAT-
1 TATTATTATTATA
3042953 TATTATTATTAT-
1 TATTATTATTATA
*
3042965 TATTATTATCTTACA
1 TATTATTA--TTATA
*
3042980 AATTTATTATATAATA
1 TA-TTATTAT-T-ATA
3042996 TATTATTA-TATTA
1 TATTATTATTA-TA
*
3043009 TATTAATATT
1 TATTATTATT
3043019 TACAAAACCG
Statistics
Matches: 77, Mismatches: 5, Indels: 16
0.79 0.05 0.16
Matches are distributed among these distances:
12 33 0.43
13 15 0.19
14 12 0.16
15 8 0.10
16 9 0.12
ACGTcount: A:0.38, C:0.02, G:0.00, T:0.60
Consensus pattern (13 bp):
TATTATTATTATA
Found at i:3044026 original size:19 final size:22
Alignment explanation
Indices: 3043985--3044026 Score: 54
Period size: 22 Copynumber: 2.0 Consensus size: 22
3043975 TATCTCGAAA
*
3043985 TCAGGTTCTTACATATTTCAAT
1 TCAGGTTCTCACATATTTCAAT
3044007 TCAGGTT-TCACAT-TTT-AAT
1 TCAGGTTCTCACATATTTCAAT
3044026 T
1 T
3044027 ATTTTTATTT
Statistics
Matches: 19, Mismatches: 1, Indels: 3
0.83 0.04 0.13
Matches are distributed among these distances:
19 4 0.21
20 3 0.16
21 5 0.26
22 7 0.37
ACGTcount: A:0.26, C:0.17, G:0.10, T:0.48
Consensus pattern (22 bp):
TCAGGTTCTCACATATTTCAAT
Found at i:3053808 original size:10 final size:9
Alignment explanation
Indices: 3053753--3053833 Score: 57
Period size: 10 Copynumber: 9.1 Consensus size: 9
3053743 TATTATTAAT
3053753 TATATATTA
1 TATATATTA
3053762 T-TAGTATTA
1 TATA-TATTA
*
3053771 TTATCATCTTA
1 -TAT-ATATTA
*
3053782 CATAT-TTA
1 TATATATTA
3053790 T-TATA-TA
1 TATATATTA
3053797 -ATATATTA
1 TATATATTA
3053805 TA-ATATTA
1 TATATATTA
3053813 TATTATATTA
1 TA-TATATTA
3053823 TATATTATTA
1 TATA-TATTA
3053833 T
1 T
3053834 TTACAAATAT
Statistics
Matches: 58, Mismatches: 3, Indels: 21
0.71 0.04 0.26
Matches are distributed among these distances:
7 9 0.16
8 15 0.26
9 11 0.19
10 17 0.29
11 5 0.09
12 1 0.02
ACGTcount: A:0.40, C:0.04, G:0.01, T:0.56
Consensus pattern (9 bp):
TATATATTA
Found at i:3053818 original size:25 final size:24
Alignment explanation
Indices: 3053783--3053830 Score: 78
Period size: 25 Copynumber: 2.0 Consensus size: 24
3053773 ATCATCTTAC
3053783 ATATTTATTATATAATATATTATA
1 ATATTTATTATATAATATATTATA
*
3053807 ATATTATATTATATTATATATTAT
1 ATATT-TATTATATAATATATTAT
3053831 TATTTACAAA
Statistics
Matches: 22, Mismatches: 1, Indels: 1
0.92 0.04 0.04
Matches are distributed among these distances:
24 5 0.23
25 17 0.77
ACGTcount: A:0.44, C:0.00, G:0.00, T:0.56
Consensus pattern (24 bp):
ATATTTATTATATAATATATTATA
Found at i:3053831 original size:20 final size:20
Alignment explanation
Indices: 3053743--3053833 Score: 66
Period size: 20 Copynumber: 4.5 Consensus size: 20
3053733 TGTCTGTTTT
3053743 TATTATTA-ATTATA-TAT-
1 TATTATTATATTATATTATA
* *
3053760 TATTAGTATTATTATCATCTTACA
1 TATTATTA-TATTAT-A--TTATA
3053784 TATTTATTATATAATATATTATA
1 TA-TTATTATAT--TATATTATA
3053807 -A-TATTATATTATATTATA
1 TATTATTATATTATATTATA
3053825 TATTATTAT
1 TATTATTAT
3053834 TTACAAATAT
Statistics
Matches: 58, Mismatches: 4, Indels: 21
0.70 0.05 0.25
Matches are distributed among these distances:
17 7 0.12
18 9 0.16
19 6 0.10
20 15 0.26
22 1 0.02
23 6 0.10
24 5 0.09
25 6 0.10
26 3 0.05
ACGTcount: A:0.40, C:0.03, G:0.01, T:0.56
Consensus pattern (20 bp):
TATTATTATATTATATTATA
Found at i:3057410 original size:18 final size:19
Alignment explanation
Indices: 3057379--3057414 Score: 56
Period size: 18 Copynumber: 1.9 Consensus size: 19
3057369 TTAGATAAAA
*
3057379 AAATATTAATTATTTTTTT
1 AAATATTAAATATTTTTTT
3057398 AAAT-TTAAATATTTTTT
1 AAATATTAAATATTTTTT
3057415 CACCTTAAAC
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
18 12 0.75
19 4 0.25
ACGTcount: A:0.39, C:0.00, G:0.00, T:0.61
Consensus pattern (19 bp):
AAATATTAAATATTTTTTT
Found at i:3057994 original size:2 final size:2
Alignment explanation
Indices: 3057987--3058017 Score: 55
Period size: 2 Copynumber: 16.0 Consensus size: 2
3057977 ATCATGTAAG
3057987 AT AT AT AT AT AT AT AT AT AT AT AT AT A- AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
3058018 TATTTCACAT
Statistics
Matches: 28, Mismatches: 0, Indels: 2
0.93 0.00 0.07
Matches are distributed among these distances:
1 1 0.04
2 27 0.96
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (2 bp):
AT
Found at i:3060204 original size:38 final size:38
Alignment explanation
Indices: 3060162--3060236 Score: 114
Period size: 38 Copynumber: 2.0 Consensus size: 38
3060152 ATATTATCTA
*
3060162 ATCCTAACATTGAATACTAAGTTCTCTAACTAAGTCTC
1 ATCCTAACATTGAATACTAAGCTCTCTAACTAAGTCTC
** *
3060200 ATCCTAACATTGGGTATTAAGCTCTCTAACTAAGTCT
1 ATCCTAACATTGAATACTAAGCTCTCTAACTAAGTCT
3060237 TTAATGCCTA
Statistics
Matches: 33, Mismatches: 4, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
38 33 1.00
ACGTcount: A:0.32, C:0.23, G:0.11, T:0.35
Consensus pattern (38 bp):
ATCCTAACATTGAATACTAAGCTCTCTAACTAAGTCTC
Found at i:3065063 original size:42 final size:42
Alignment explanation
Indices: 3064927--3065068 Score: 126
Period size: 45 Copynumber: 3.2 Consensus size: 42
3064917 TGTGTTGCCA
* * *
3064927 AAAATAAAAATGAAAGGATTAGTTCCTTCTTATTACTT-GGTTGCG
1 AAAATTAAAATAAAAGGATTAGTT--TT-TTATTA-TTAGGTTGCT
* **
3064972 GAAATTAAAATAAAAGGATTAGTTCTTTTTTATTATTAGACTG-T
1 AAAATTAAAATAAAAGGATTAG---TTTTTTATTATTAGGTTGCT
* *
3065016 AAAAATTAAAATCAAATGATTAGTTTTTTATTATTAGGTTGCT
1 -AAAATTAAAATAAAAGGATTAGTTTTTTATTATTAGGTTGCT
3065059 AAAATTAAAA
1 AAAATTAAAA
3065069 GGATTAAATC
Statistics
Matches: 80, Mismatches: 11, Indels: 15
0.75 0.10 0.14
Matches are distributed among these distances:
42 26 0.32
43 1 0.01
44 2 0.03
45 47 0.59
46 2 0.03
48 2 0.03
ACGTcount: A:0.41, C:0.06, G:0.13, T:0.39
Consensus pattern (42 bp):
AAAATTAAAATAAAAGGATTAGTTTTTTATTATTAGGTTGCT
Found at i:3065441 original size:39 final size:39
Alignment explanation
Indices: 3065359--3065489 Score: 167
Period size: 39 Copynumber: 3.4 Consensus size: 39
3065349 TTAGATTTCA
* * *
3065359 TTGAATTTATTTT-TATGTTTTAT-AAATGAAATAAACGG
1 TTGAATTTATTTTCT-TGTTTTGTAAAATAAAATAAATGG
3065397 TTGAATTTATTTTCTTGTTTTGTAAAATAAAATAAATGG
1 TTGAATTTATTTTCTTGTTTTGTAAAATAAAATAAATGG
* * **
3065436 TTGAATTTATTTTCTTATTTTGTAAAAGAAAATAAATCA
1 TTGAATTTATTTTCTTGTTTTGTAAAATAAAATAAATGG
*
3065475 TTAAATTTATTTTCT
1 TTGAATTTATTTTCT
3065490 AAGAATCTCA
Statistics
Matches: 83, Mismatches: 8, Indels: 3
0.88 0.09 0.03
Matches are distributed among these distances:
38 20 0.24
39 63 0.76
ACGTcount: A:0.37, C:0.04, G:0.10, T:0.50
Consensus pattern (39 bp):
TTGAATTTATTTTCTTGTTTTGTAAAATAAAATAAATGG
Found at i:3065565 original size:39 final size:37
Alignment explanation
Indices: 3065522--3065643 Score: 95
Period size: 39 Copynumber: 3.2 Consensus size: 37
3065512 ATATATAATA
3065522 AAATAAAACGTAGAATTTAATTTT-TTATTTTGTAAAATG
1 AAATAAAACGTAG-ATTT-ATTTTATTATTTTGTAAAA-G
** ** *
3065561 AAATAAATTGTTAGATTTATTTTCCTATGTTGTAAAAG
1 AAATAAAACG-TAGATTTATTTTATTATTTTGTAAAAG
* * *
3065599 AAAATAAGACATTGGATTTATTTTATT-TTTTGTAAAAGG
1 -AAATAAAAC-GTAGATTTATTTTATTATTTTGTAAAA-G
3065638 AAATAA
1 AAATAA
3065644 CTCGATGGAC
Statistics
Matches: 66, Mismatches: 12, Indels: 11
0.74 0.13 0.12
Matches are distributed among these distances:
38 21 0.32
39 42 0.64
40 3 0.05
ACGTcount: A:0.42, C:0.03, G:0.12, T:0.43
Consensus pattern (37 bp):
AAATAAAACGTAGATTTATTTTATTATTTTGTAAAAG
Found at i:3065716 original size:40 final size:39
Alignment explanation
Indices: 3065671--3065813 Score: 117
Period size: 40 Copynumber: 3.5 Consensus size: 39
3065661 CCGTTTTCGA
*
3065671 AAATAAATCATTAGATTTTATTTTCCTATTTTACAAAAAG
1 AAATAAATAATT-GATTTTATTTTCCTATTTTACAAAAAG
* * *****
3065711 AAATAAATAATTGATTTT-TTTAATGGACTTATTTTCCGTTTTCG
1 AAATAAATAATTGATTTTATTT--T---CCTATTTTAC-AAAAAG
*
3065755 AAAATAAATCATTAGATTTTATTTTCCTATTTTACAAAAAG
1 -AAATAAATAATT-GATTTTATTTTCCTATTTTACAAAAAG
3065796 AAATAAATAATTGATTTT
1 AAATAAATAATTGATTTT
3065814 TTTAATATTA
Statistics
Matches: 77, Mismatches: 17, Indels: 19
0.68 0.15 0.17
Matches are distributed among these distances:
38 3 0.04
39 12 0.16
40 23 0.30
41 1 0.01
42 8 0.10
43 8 0.10
44 1 0.01
45 12 0.16
46 6 0.08
47 3 0.04
ACGTcount: A:0.40, C:0.08, G:0.07, T:0.45
Consensus pattern (39 bp):
AAATAAATAATTGATTTTATTTTCCTATTTTACAAAAAG
Found at i:3065774 original size:85 final size:85
Alignment explanation
Indices: 3065648--3065819 Score: 344
Period size: 85 Copynumber: 2.0 Consensus size: 85
3065638 AAATAACTCG
3065648 ATGGACTTATTTTCCGTTTTCGAAAATAAATCATTAGATTTTATTTTCCTATTTTACAAAAAGAA
1 ATGGACTTATTTTCCGTTTTCGAAAATAAATCATTAGATTTTATTTTCCTATTTTACAAAAAGAA
3065713 ATAAATAATTGATTTTTTTA
66 ATAAATAATTGATTTTTTTA
3065733 ATGGACTTATTTTCCGTTTTCGAAAATAAATCATTAGATTTTATTTTCCTATTTTACAAAAAGAA
1 ATGGACTTATTTTCCGTTTTCGAAAATAAATCATTAGATTTTATTTTCCTATTTTACAAAAAGAA
3065798 ATAAATAATTGATTTTTTTA
66 ATAAATAATTGATTTTTTTA
3065818 AT
1 AT
3065820 ATTACACGAT
Statistics
Matches: 87, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
85 87 1.00
ACGTcount: A:0.37, C:0.09, G:0.08, T:0.46
Consensus pattern (85 bp):
ATGGACTTATTTTCCGTTTTCGAAAATAAATCATTAGATTTTATTTTCCTATTTTACAAAAAGAA
ATAAATAATTGATTTTTTTA
Found at i:3067387 original size:19 final size:20
Alignment explanation
Indices: 3067350--3067387 Score: 51
Period size: 19 Copynumber: 1.9 Consensus size: 20
3067340 ATGAGTAGAA
*
3067350 ATGAGTTTAAGAATGTGTAT
1 ATGAGTTTAAGAATATGTAT
*
3067370 ATGAG-TTATGAATATGTA
1 ATGAGTTTAAGAATATGTA
3067388 AAGGGATCAA
Statistics
Matches: 16, Mismatches: 2, Indels: 1
0.84 0.11 0.05
Matches are distributed among these distances:
19 11 0.69
20 5 0.31
ACGTcount: A:0.37, C:0.00, G:0.24, T:0.39
Consensus pattern (20 bp):
ATGAGTTTAAGAATATGTAT
Found at i:3075176 original size:18 final size:18
Alignment explanation
Indices: 3075153--3075205 Score: 97
Period size: 18 Copynumber: 2.9 Consensus size: 18
3075143 AGGGATTATC
3075153 AGTGGTCCTTCGGGACAT
1 AGTGGTCCTTCGGGACAT
3075171 AGTGGTCCTTCGGGACAT
1 AGTGGTCCTTCGGGACAT
*
3075189 AGTGGTCCTTTGGGACA
1 AGTGGTCCTTCGGGACA
3075206 AATATTCAGT
Statistics
Matches: 34, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
18 34 1.00
ACGTcount: A:0.17, C:0.21, G:0.34, T:0.28
Consensus pattern (18 bp):
AGTGGTCCTTCGGGACAT
Found at i:3084974 original size:20 final size:23
Alignment explanation
Indices: 3084934--3084976 Score: 65
Period size: 20 Copynumber: 2.0 Consensus size: 23
3084924 CACCGAAAAA
3084934 CTAAGGGAGAAAAATAATATTTT
1 CTAAGGGAGAAAAATAATATTTT
3084957 CTAA-GGAG-AAAA-AATATTTT
1 CTAAGGGAGAAAAATAATATTTT
3084977 TCAAGTGAAG
Statistics
Matches: 20, Mismatches: 0, Indels: 3
0.87 0.00 0.13
Matches are distributed among these distances:
20 8 0.40
21 4 0.20
22 4 0.20
23 4 0.20
ACGTcount: A:0.49, C:0.05, G:0.16, T:0.30
Consensus pattern (23 bp):
CTAAGGGAGAAAAATAATATTTT
Found at i:3085218 original size:83 final size:81
Alignment explanation
Indices: 3085053--3085294 Score: 332
Period size: 83 Copynumber: 3.0 Consensus size: 81
3085043 GAAATTTCTA
*
3085053 GAGAGTTTTACTCCT-ACTAAAACTCTTTTAATATCT-AA--AAATATATAATAATATCTTTTAA
1 GAGAGTTTTACT-CTAACAAAAACTCTTTTAATATCTAAATTAAATATATAATAATATCTTTTAA
*
3085114 ATTTAAAATATTAAATCT
65 ATTT-AAATATTAAACCT
* * *
3085132 GAGAGTTTTACTCTAACCAAAACTCTTTTAATATCTAAATTTAAACATATTATAATATCTTTTAA
1 GAGAGTTTTACTCTAACAAAAACTCTTTTAATATCTAAA-TTAAATATATAATAATATCTTTTAA
3085197 ATTTATAATATTAAACCT
65 ATTTA-AATATTAAACCT
* *
3085215 GAGAGTTTTACTCCAACAAAAACTCTTTTAATATCTAAATATAAATAGATAATAATAT-TATTTA
1 GAGAGTTTTACTCTAACAAAAACTCTTTTAATATCTAAAT-TAAATATATAATAATATCT-TTTA
3085279 AATTTAAATATTAAAC
64 AATTTAAATATTAAAC
3085295 ATATATTTCC
Statistics
Matches: 146, Mismatches: 9, Indels: 13
0.87 0.05 0.08
Matches are distributed among these distances:
78 2 0.01
79 32 0.22
80 2 0.01
82 13 0.09
83 97 0.66
ACGTcount: A:0.44, C:0.12, G:0.04, T:0.40
Consensus pattern (81 bp):
GAGAGTTTTACTCTAACAAAAACTCTTTTAATATCTAAATTAAATATATAATAATATCTTTTAAA
TTTAAATATTAAACCT
Found at i:3090748 original size:83 final size:82
Alignment explanation
Indices: 3090584--3090907 Score: 401
Period size: 83 Copynumber: 4.0 Consensus size: 82
3090574 GGAATTTTGA
* * *
3090584 GAGAGTTTTACTCCAACTAAAACTCTTTTAATATCTAAA---AATA-A-ATAATAACATTTTTAA
1 GAGAGTTTTACTCCAACCAAAACTCTTTTAATATCTAAATTTAA-ACAGATTATAATATTTTTAA
*
3090644 ATTTAAAATATTAAA-TCT
65 ATTTATAATATTAAACT-T
* * * *
3090662 GAGAGTTTTGCTCTAACCAAAATTCTTTTAATATCTAAATTTAAACATATTATAATATCTTTTAA
1 GAGAGTTTTACTCCAACCAAAACTCTTTTAATATCTAAATTTAAACAGATTATAATAT-TTTTAA
3090727 ATTTATAATATTAAACTT
65 ATTTATAATATTAAACTT
*
3090745 GAGAGTTTTACTCCAACCAAAACTCTTTTAATATCTAAATTTAAACAGATTATAATATCTTGTAA
1 GAGAGTTTTACTCCAACCAAAACTCTTTTAATATCTAAATTTAAACAGATTATAATAT-TTTTAA
** *
3090810 ATTTATAATATTGGACCT
65 ATTTATAATATTAAACTT
* * * * *
3090828 GAGAGTTTTACTCCAACCAATACTCTTTAAATACCTAAATTTAAATAGATAATAATATTGTTTAA
1 GAGAGTTTTACTCCAACCAAAACTCTTTTAATATCTAAATTTAAACAGATTATAATATT-TTTAA
3090893 ATTTA-AATATTAAAC
65 ATTTATAATATTAAAC
3090908 ATATATTTCA
Statistics
Matches: 215, Mismatches: 23, Indels: 12
0.86 0.09 0.05
Matches are distributed among these distances:
78 35 0.16
80 1 0.00
81 3 0.01
82 17 0.08
83 158 0.73
84 1 0.00
ACGTcount: A:0.42, C:0.12, G:0.06, T:0.40
Consensus pattern (82 bp):
GAGAGTTTTACTCCAACCAAAACTCTTTTAATATCTAAATTTAAACAGATTATAATATTTTTAAA
TTTATAATATTAAACTT
Found at i:3092427 original size:24 final size:25
Alignment explanation
Indices: 3092400--3092455 Score: 105
Period size: 25 Copynumber: 2.3 Consensus size: 25
3092390 TTGAGTATTT
3092400 TTTATTTTAAA-TTTTATATAATAA
1 TTTATTTTAAATTTTTATATAATAA
3092424 TTTATTTTAAATTTTTATATAATAA
1 TTTATTTTAAATTTTTATATAATAA
3092449 TTTATTT
1 TTTATTT
3092456 AGTAATTATA
Statistics
Matches: 31, Mismatches: 0, Indels: 1
0.97 0.00 0.03
Matches are distributed among these distances:
24 11 0.35
25 20 0.65
ACGTcount: A:0.38, C:0.00, G:0.00, T:0.62
Consensus pattern (25 bp):
TTTATTTTAAATTTTTATATAATAA
Found at i:3093071 original size:33 final size:33
Alignment explanation
Indices: 3093026--3093105 Score: 153
Period size: 33 Copynumber: 2.5 Consensus size: 33
3093016 ATTGATTGTG
3093026 AAGGAG-ATGATCATCCGTTTTGTGTTAACCTT
1 AAGGAGAATGATCATCCGTTTTGTGTTAACCTT
3093058 AAGGAGAATGATCATCCGTTTTGTGTTAACCTT
1 AAGGAGAATGATCATCCGTTTTGTGTTAACCTT
3093091 AAGGAGAATGATCAT
1 AAGGAGAATGATCAT
3093106 AAAAGCGGAC
Statistics
Matches: 47, Mismatches: 0, Indels: 1
0.98 0.00 0.02
Matches are distributed among these distances:
32 6 0.13
33 41 0.87
ACGTcount: A:0.30, C:0.14, G:0.23, T:0.34
Consensus pattern (33 bp):
AAGGAGAATGATCATCCGTTTTGTGTTAACCTT
Found at i:3095373 original size:75 final size:75
Alignment explanation
Indices: 3095214--3095356 Score: 207
Period size: 75 Copynumber: 1.9 Consensus size: 75
3095204 ATTTTAAATA
* *
3095214 TTATATTTTATCTTTGTTTTAGGTATTTTAGTTTAAATAGGTTTAGTATTTTAATTAAGTTTTAG
1 TTATATTTTATCTTTGTTTTAGGTATTTTAGTTTAAATAGGTTTAGTATTTTAATTAAGATTTAA
**
3095279 GATATTATTT
66 GATATTATGC
* * *
3095289 TTATATTTTATCTTTGTTTTAGGTATTTTAG-TTAAATAGTTTTAAGTGTTTTAATTAGGATTTA
1 TTATATTTTATCTTTGTTTTAGGTATTTTAGTTTAAATAGGTTT-AGTATTTTAATTAAGATTTA
3095353 AGAT
65 AGAT
3095357 GATTTAGCTT
Statistics
Matches: 62, Mismatches: 5, Indels: 2
0.90 0.07 0.03
Matches are distributed among these distances:
74 11 0.18
75 51 0.82
ACGTcount: A:0.27, C:0.01, G:0.14, T:0.57
Consensus pattern (75 bp):
TTATATTTTATCTTTGTTTTAGGTATTTTAGTTTAAATAGGTTTAGTATTTTAATTAAGATTTAA
GATATTATGC
Done.