Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: A05
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: 100714657
ACGTcount: A:0.32, C:0.16, G:0.16, T:0.32
Warning! 3970000 characters in sequence are not A, C, G, or T
File 266 of 318
Found at i:85181054 original size:75 final size:76
Alignment explanation
Indices: 85180930--85181083 Score: 220
Period size: 75 Copynumber: 2.0 Consensus size: 76
85180920 AACTTTTAAT
* * *
85180930 ACACCAGCACAAAGCCTGCTAGGCACAAAGCCTGAATAACATCGGCACTATGCCTACTAGGCACA
1 ACACCAGCACAAAGCCTGCTAGGCACAAAGCCTGAATAACACCGACACTAAGCCTACTAGGCACA
85180995 AAGCCTGAA-A
66 AAGCCTGAATA
** * ** *
85181005 ACACCAGCATTAAGTCTGCTAGGCACAAAGCCTGAATAACACCGACACTAAGCCTGTTAGGTACA
1 ACACCAGCACAAAGCCTGCTAGGCACAAAGCCTGAATAACACCGACACTAAGCCTACTAGGCACA
85181070 AAGCCTGAATA
66 AAGCCTGAATA
85181081 ACA
1 ACA
85181084 ATTTAATTCA
Statistics
Matches: 69, Mismatches: 9, Indels: 1
0.87 0.11 0.01
Matches are distributed among these distances:
75 65 0.94
76 4 0.06
ACGTcount: A:0.38, C:0.29, G:0.18, T:0.16
Consensus pattern (76 bp):
ACACCAGCACAAAGCCTGCTAGGCACAAAGCCTGAATAACACCGACACTAAGCCTACTAGGCACA
AAGCCTGAATA
Found at i:85183196 original size:13 final size:13
Alignment explanation
Indices: 85183178--85183217 Score: 71
Period size: 13 Copynumber: 3.0 Consensus size: 13
85183168 AAAAACTCTG
85183178 TAAATATTTCAAT
1 TAAATATTTCAAT
85183191 TAAATATTTCAAT
1 TAAATATTTCAAT
85183204 TAAATATTTACAAT
1 TAAATATTT-CAAT
85183218 ATCGATTTAT
Statistics
Matches: 26, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
13 22 0.85
14 4 0.15
ACGTcount: A:0.47, C:0.07, G:0.00, T:0.45
Consensus pattern (13 bp):
TAAATATTTCAAT
Found at i:85184514 original size:15 final size:16
Alignment explanation
Indices: 85184485--85184514 Score: 53
Period size: 16 Copynumber: 1.9 Consensus size: 16
85184475 TAAACATGCT
85184485 TTAACACATTATCAAA
1 TTAACACATTATCAAA
85184501 TTAACACA-TATCAA
1 TTAACACATTATCAA
85184515 CAAGGCATCA
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
15 6 0.43
16 8 0.57
ACGTcount: A:0.50, C:0.20, G:0.00, T:0.30
Consensus pattern (16 bp):
TTAACACATTATCAAA
Found at i:85185662 original size:24 final size:24
Alignment explanation
Indices: 85185590--85185665 Score: 98
Period size: 25 Copynumber: 3.1 Consensus size: 24
85185580 GTATGCTCAT
*
85185590 ACGAGTTGTGAATCGGTATGCTCTC
1 ACGAGTTGT-AATCGGTAAGCTCTC
* *
85185615 ACGAGCTGTACATCAGTAAGCTCTC
1 ACGAGTTGTA-ATCGGTAAGCTCTC
*
85185640 ATGAGTTGTAATCGGTAAGCTCTC
1 ACGAGTTGTAATCGGTAAGCTCTC
85185664 AC
1 AC
85185666 AAGCTGCAAT
Statistics
Matches: 43, Mismatches: 7, Indels: 3
0.81 0.13 0.06
Matches are distributed among these distances:
24 15 0.35
25 28 0.65
ACGTcount: A:0.25, C:0.22, G:0.24, T:0.29
Consensus pattern (24 bp):
ACGAGTTGTAATCGGTAAGCTCTC
Found at i:85185676 original size:24 final size:24
Alignment explanation
Indices: 85185590--85185677 Score: 95
Period size: 25 Copynumber: 3.6 Consensus size: 24
85185580 GTATGCTCAT
* *
85185590 ACGAGTTGTGAATCGGTATGCTCTC
1 ACGAGCTGT-AATCGGTAAGCTCTC
*
85185615 ACGAGCTGTACATCAGTAAGCTCTC
1 ACGAGCTGTA-ATCGGTAAGCTCTC
* *
85185640 ATGAGTTGTAATCGGTAAGCTCTC
1 ACGAGCTGTAATCGGTAAGCTCTC
* *
85185664 ACAAGCTGCAATCG
1 ACGAGCTGTAATCG
85185678 ATAATCCCTA
Statistics
Matches: 52, Mismatches: 10, Indels: 3
0.80 0.15 0.05
Matches are distributed among these distances:
24 24 0.46
25 28 0.54
ACGTcount: A:0.26, C:0.23, G:0.24, T:0.27
Consensus pattern (24 bp):
ACGAGCTGTAATCGGTAAGCTCTC
Found at i:85187026 original size:9 final size:9
Alignment explanation
Indices: 85187013--85187071 Score: 75
Period size: 9 Copynumber: 6.6 Consensus size: 9
85187003 ATAAGTATAA
*
85187013 AATTAACCA
1 AATTAACCG
85187022 AATTAACCG
1 AATTAACCG
85187031 AATT-ACCTG
1 AATTAACC-G
*
85187040 AATTACCCG
1 AATTAACCG
85187049 AATTAACCG
1 AATTAACCG
*
85187058 AATTAACTG
1 AATTAACCG
85187067 AATTA
1 AATTA
85187072 TTTGTATAAA
Statistics
Matches: 44, Mismatches: 4, Indels: 4
0.85 0.08 0.08
Matches are distributed among these distances:
8 3 0.07
9 39 0.89
10 2 0.05
ACGTcount: A:0.44, C:0.20, G:0.08, T:0.27
Consensus pattern (9 bp):
AATTAACCG
Found at i:85187043 original size:27 final size:27
Alignment explanation
Indices: 85187013--85187071 Score: 91
Period size: 27 Copynumber: 2.2 Consensus size: 27
85187003 ATAAGTATAA
*
85187013 AATTAACCAAATTAACCGAATTACCTG
1 AATTAACCAAATTAACCGAATTAACTG
* *
85187040 AATTACCCGAATTAACCGAATTAACTG
1 AATTAACCAAATTAACCGAATTAACTG
85187067 AATTA
1 AATTA
85187072 TTTGTATAAA
Statistics
Matches: 29, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
27 29 1.00
ACGTcount: A:0.44, C:0.20, G:0.08, T:0.27
Consensus pattern (27 bp):
AATTAACCAAATTAACCGAATTAACTG
Found at i:85187102 original size:6 final size:6
Alignment explanation
Indices: 85187091--85187117 Score: 54
Period size: 6 Copynumber: 4.5 Consensus size: 6
85187081 AATTGTATGT
85187091 TTTTTA TTTTTA TTTTTA TTTTTA TTT
1 TTTTTA TTTTTA TTTTTA TTTTTA TTT
85187118 ATTAAATTAC
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 21 1.00
ACGTcount: A:0.15, C:0.00, G:0.00, T:0.85
Consensus pattern (6 bp):
TTTTTA
Found at i:85187433 original size:18 final size:19
Alignment explanation
Indices: 85187412--85187447 Score: 56
Period size: 19 Copynumber: 1.9 Consensus size: 19
85187402 CTGGATTCAA
85187412 TCGG-TTAACCGAATTTTT
1 TCGGTTTAACCGAATTTTT
*
85187430 TCGGTTTTACCGAATTTT
1 TCGGTTTAACCGAATTTT
85187448 GCACTCCCCT
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
18 4 0.25
19 12 0.75
ACGTcount: A:0.19, C:0.17, G:0.17, T:0.47
Consensus pattern (19 bp):
TCGGTTTAACCGAATTTTT
Found at i:85192181 original size:12 final size:12
Alignment explanation
Indices: 85192155--85192202 Score: 51
Period size: 12 Copynumber: 4.0 Consensus size: 12
85192145 TAAAATAGTT
*
85192155 TAAAAATAAAAA
1 TAAAAATAATAA
*
85192167 TAAAAATAATGA
1 TAAAAATAATAA
* *
85192179 TAATAATATTAA
1 TAAAAATAATAA
*
85192191 TATAAATAATAA
1 TAAAAATAATAA
85192203 ATAATCTATA
Statistics
Matches: 28, Mismatches: 8, Indels: 0
0.78 0.22 0.00
Matches are distributed among these distances:
12 28 1.00
ACGTcount: A:0.69, C:0.00, G:0.02, T:0.29
Consensus pattern (12 bp):
TAAAAATAATAA
Found at i:85192304 original size:3 final size:3
Alignment explanation
Indices: 85192296--85192332 Score: 74
Period size: 3 Copynumber: 12.3 Consensus size: 3
85192286 AAAAGAAATT
85192296 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA T
1 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA T
85192333 GGTAATTAAT
Statistics
Matches: 34, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 34 1.00
ACGTcount: A:0.65, C:0.00, G:0.00, T:0.35
Consensus pattern (3 bp):
TAA
Found at i:85194137 original size:89 final size:88
Alignment explanation
Indices: 85193871--85194150 Score: 244
Period size: 89 Copynumber: 3.1 Consensus size: 88
85193861 TGAAATTTCA
* **
85193871 AGGAGATAAGAATTGGTAATTTCAACCTGCTCCGCTGTAACTTCAAGGAGATAAGGTTTGTGTAT
1 AGGAGATAAGAATTGGTAATTTCAACCTGCTCCACTGTAACTTCAAGGAGATAAGGTTTGTG-GC
** *
85193936 TTTTATCCTGCTCTACTGCAAACTTC
65 TTCAAT-CTGCTCCACTGC-AACTTC
* * * ** * * *
85193962 AGAGAGATAAGGATTATGG--CTTT-GATTTGCTCCAATGTAATTTCAGGGAGA-AGAGGTTTGT
1 AG-GAGATAA-GAAT-TGGTAATTTCAACCTGCTCCACTGTAACTTCAAGGAGATA-AGGTTTGT
* * * * *
85194023 AGCTTCGATCTACTCCGCTGGAACTTC
62 GGCTTCAATCTGCTCCACTGCAACTTC
* * * *
85194050 AAGGAGATAAGAATTGGTAATTTCAACCTGCTCCACTGCAACTTCAAAGAGATAAGGCTGGTGGC
1 -AGGAGATAAGAATTGGTAATTTCAACCTGCTCCACTGTAACTTCAAGGAGATAAGGTTTGTGGC
85194115 TTCAATCTGCTCCACTGCAACTTC
65 TTCAATCTGCTCCACTGCAACTTC
85194139 AGGAAGATAAGA
1 AGG-AGATAAGA
85194151 TCTGCCATAA
Statistics
Matches: 144, Mismatches: 35, Indels: 22
0.72 0.17 0.11
Matches are distributed among these distances:
86 3 0.02
87 3 0.02
88 19 0.13
89 66 0.46
90 6 0.04
91 31 0.22
92 10 0.07
93 3 0.02
94 3 0.02
ACGTcount: A:0.29, C:0.19, G:0.23, T:0.30
Consensus pattern (88 bp):
AGGAGATAAGAATTGGTAATTTCAACCTGCTCCACTGTAACTTCAAGGAGATAAGGTTTGTGGCT
TCAATCTGCTCCACTGCAACTTC
Found at i:85194140 original size:133 final size:135
Alignment explanation
Indices: 85193900--85194141 Score: 317
Period size: 133 Copynumber: 1.8 Consensus size: 135
85193890 TTTCAACCTG
* ** * * * * *
85193900 CTCCGCTGTAACTTCAAGGAGATAAGGTTTGTGTATTTTTATCCTGCTCTACTGCAAACTTCAGA
1 CTCCGCTGGAACTTCAAGGAGATAAGAATTGTGTAATTTCAACCTGCTCCACTGCAAACTTCAAA
* ** * * *
85193965 GAGATAAGGATTATGGCTTTGATTTGCTCCAATGTAATTTCAGGGAGAAGAGGTTTGTAGCTTCG
66 GAGATAAGGATGATGGCTTCAATCTGCTCCAATGCAACTTCAGGGAGAAGAGGTTTGTAGCTTCG
85194030 ATCTA
131 ATCTA
85194035 CTCCGCTGGAACTTCAAGGAGATAAGAATTG-GTAATTTCAACCTGCTCCACTGC-AACTTCAAA
1 CTCCGCTGGAACTTCAAGGAGATAAGAATTGTGTAATTTCAACCTGCTCCACTGCAAACTTCAAA
* * *
85194098 GAGATAAGGCTGGTGGCTTCAATCTGCTCCACTGCAACTTCAGG
66 GAGATAAGGATGATGGCTTCAATCTGCTCCAATGCAACTTCAGG
85194142 AAGATAAGAT
Statistics
Matches: 90, Mismatches: 17, Indels: 2
0.83 0.16 0.02
Matches are distributed among these distances:
133 43 0.48
134 19 0.21
135 28 0.31
ACGTcount: A:0.27, C:0.20, G:0.22, T:0.31
Consensus pattern (135 bp):
CTCCGCTGGAACTTCAAGGAGATAAGAATTGTGTAATTTCAACCTGCTCCACTGCAAACTTCAAA
GAGATAAGGATGATGGCTTCAATCTGCTCCAATGCAACTTCAGGGAGAAGAGGTTTGTAGCTTCG
ATCTA
Found at i:85194147 original size:44 final size:44
Alignment explanation
Indices: 85194071--85194292 Score: 151
Period size: 44 Copynumber: 4.8 Consensus size: 44
85194061 AATTGGTAAT
* * *
85194071 TTCAACCTGCTCCACTGCAACTTCA-AAGAGATAAGGCTGGTGGC
1 TTCAATCTGCTCCACTGCAACTTTAGGA-AGATAAGGCTGGTGGC
* * **
85194115 TTCAATCTGCTCCACTGCAACTTCAGGAAGATAAGATCTGCCATAATTTGTAAC
1 TTCAATCTGCTCCACTGCAACTTTAGGAAGATAAG----G-C-----TGGTGGC
* * ** ** *
85194169 TTCAATTTGTTCCACTGCAACTTTAGGGAA-ATAAGATTCACTGTC
1 TTCAATCTGCTCCACTGCAACTTTA-GGAAGATAAGGCT-GGTGGC
* * *
85194214 TTCAGTCTGCTCCGCTGCAACTTTAGGGAGATAAGGCTGGTGGC
1 TTCAATCTGCTCCACTGCAACTTTAGGAAGATAAGGCTGGTGGC
*
85194258 TTAAATCTGCTCCACTGCAACTTTAGGAAGATAAG
1 TTCAATCTGCTCCACTGCAACTTTAGGAAGATAAG
85194293 ATTCGCCGTT
Statistics
Matches: 136, Mismatches: 28, Indels: 28
0.71 0.15 0.15
Matches are distributed among these distances:
44 69 0.51
45 30 0.22
48 1 0.01
49 1 0.01
54 31 0.23
55 4 0.03
ACGTcount: A:0.28, C:0.23, G:0.20, T:0.29
Consensus pattern (44 bp):
TTCAATCTGCTCCACTGCAACTTTAGGAAGATAAGGCTGGTGGC
Found at i:85194377 original size:44 final size:45
Alignment explanation
Indices: 85194167--85194383 Score: 172
Period size: 44 Copynumber: 4.9 Consensus size: 45
85194157 ATAATTTGTA
* * *
85194167 ACTTCAATTTGTTCCACTGCAACTTTAGGGAAATAAGAT-TCACTG
1 ACTTCAATCTGCTCCACTGCAACTTTAGGGAGATAAGATCTCAC-G
* * * * ***
85194212 TCTTCAGTCTGCTCCGCTGCAACTTTAGGGAGATAAG-GCTGGTG
1 ACTTCAATCTGCTCCACTGCAACTTTAGGGAGATAAGATCTCACG
* * * *
85194256 GCTTAAATCTGCTCCACTGCAACTTTAGGAAGATAAGAT-TCGCCG
1 ACTTCAATCTGCTCCACTGCAACTTTAGGGAGATAAGATCTC-ACG
** * * * * * *
85194301 TTTTCTATCTACTCCACTACAACTTCAAGGAGATAAGATCT-ACA
1 ACTTCAATCTGCTCCACTGCAACTTTAGGGAGATAAGATCTCACG
* *
85194345 ACTTCAATCTGCTCCACTGCTACTTTAGGGAGATGAGAT
1 ACTTCAATCTGCTCCACTGCAACTTTAGGGAGATAAGAT
85194384 TTGTGGATTC
Statistics
Matches: 129, Mismatches: 39, Indels: 9
0.73 0.22 0.05
Matches are distributed among these distances:
44 65 0.50
45 63 0.49
46 1 0.01
ACGTcount: A:0.28, C:0.23, G:0.19, T:0.30
Consensus pattern (45 bp):
ACTTCAATCTGCTCCACTGCAACTTTAGGGAGATAAGATCTCACG
Found at i:85194785 original size:46 final size:46
Alignment explanation
Indices: 85194735--85194823 Score: 151
Period size: 46 Copynumber: 1.9 Consensus size: 46
85194725 ATTTGTGGTT
* *
85194735 TCTTCCATCCATCCCACTACAACTCGGGGGTATAGGATTTGTACCA
1 TCTTCAATCCATCCCACTACAACTCAGGGGTATAGGATTTGTACCA
*
85194781 TCTTCAATCCATCCCACTACAGCTCAGGGGTATAGGATTTGTA
1 TCTTCAATCCATCCCACTACAACTCAGGGGTATAGGATTTGTA
85194824 TCTTTCTACT
Statistics
Matches: 40, Mismatches: 3, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
46 40 1.00
ACGTcount: A:0.25, C:0.28, G:0.18, T:0.29
Consensus pattern (46 bp):
TCTTCAATCCATCCCACTACAACTCAGGGGTATAGGATTTGTACCA
Found at i:85194921 original size:81 final size:81
Alignment explanation
Indices: 85194761--85194921 Score: 198
Period size: 81 Copynumber: 2.0 Consensus size: 81
85194751 CTACAACTCG
* * * *
85194761 GGGGTATAGGATTTGTACCATCTTCAATCCATCCCACTACAGCTCAGGGGTATAGGATTTGTATC
1 GGGGTATAGGATCTATACCATCTTCAATCCATCCCACTACAACTCAGGGGTATAGGATTTGTAGC
**
85194826 TTTCTACTGTAATTTA
66 TTTCTACAATAATTTA
* * * * *
85194842 GGGGTATAGGATCTATATCTTCTTCAATCCATCCCACTGCAACTTAGGGGTATAGGGTTTGTAGC
1 GGGGTATAGGATCTATACCATCTTCAATCCATCCCACTACAACTCAGGGGTATAGGATTTGTAGC
*
85194907 -TTCTTCAATCAATTT
66 TTTCTACAAT-AATTT
85194922 GATCTACTAC
Statistics
Matches: 67, Mismatches: 12, Indels: 2
0.83 0.15 0.02
Matches are distributed among these distances:
80 6 0.09
81 61 0.91
ACGTcount: A:0.24, C:0.20, G:0.20, T:0.36
Consensus pattern (81 bp):
GGGGTATAGGATCTATACCATCTTCAATCCATCCCACTACAACTCAGGGGTATAGGATTTGTAGC
TTTCTACAATAATTTA
Found at i:85206995 original size:8 final size:8
Alignment explanation
Indices: 85206982--85207011 Score: 51
Period size: 8 Copynumber: 3.8 Consensus size: 8
85206972 AGATCGGCAC
85206982 AAGCCGAA
1 AAGCCGAA
85206990 AAGCCGAA
1 AAGCCGAA
*
85206998 ATGCCGAA
1 AAGCCGAA
85207006 AAGCCG
1 AAGCCG
85207012 GTATTTTGAG
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
8 20 1.00
ACGTcount: A:0.43, C:0.27, G:0.27, T:0.03
Consensus pattern (8 bp):
AAGCCGAA
Found at i:85207437 original size:27 final size:27
Alignment explanation
Indices: 85207407--85207514 Score: 103
Period size: 27 Copynumber: 4.0 Consensus size: 27
85207397 AGCGTCCTGA
*
85207407 TGGCTATGCCACAAATATCTGATCTGG
1 TGGCTCTGCCACAAATATCTGATCTGG
*
85207434 TGGCTCTGCCACATATATCT-ATTCTGG
1 TGGCTCTGCCACAAATATCTGA-TCTGG
* * *
85207461 TGGCTCTGCTACGATTATCTGTATCTGG
1 TGGCTCTGCCACAAATATCTG-ATCTGG
* * * *
85207489 TGACTCTGTCAC-ATTATCTGTTCTGG
1 TGGCTCTGCCACAAATATCTGATCTGG
85207515 CAGCCATGCT
Statistics
Matches: 68, Mismatches: 10, Indels: 7
0.80 0.12 0.08
Matches are distributed among these distances:
26 6 0.09
27 47 0.69
28 14 0.21
29 1 0.01
ACGTcount: A:0.19, C:0.23, G:0.21, T:0.37
Consensus pattern (27 bp):
TGGCTCTGCCACAAATATCTGATCTGG
Found at i:85217518 original size:20 final size:20
Alignment explanation
Indices: 85217493--85217534 Score: 84
Period size: 20 Copynumber: 2.1 Consensus size: 20
85217483 AATAGAACAT
85217493 ATTAGTAAACCAATGAATAA
1 ATTAGTAAACCAATGAATAA
85217513 ATTAGTAAACCAATGAATAA
1 ATTAGTAAACCAATGAATAA
85217533 AT
1 AT
85217535 AAATAATAGG
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
20 22 1.00
ACGTcount: A:0.55, C:0.10, G:0.10, T:0.26
Consensus pattern (20 bp):
ATTAGTAAACCAATGAATAA
Found at i:85217773 original size:3 final size:3
Alignment explanation
Indices: 85217765--85217835 Score: 97
Period size: 3 Copynumber: 23.7 Consensus size: 3
85217755 GAGGGAAAAT
* * *
85217765 ATA ATA ATA ATA ACA ATA ATA ATA AGA GTA ATA ATA ATA ATA ATA ATA
1 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA
* *
85217813 ATA ATA ACA ATA GTA ATA ATA AT
1 ATA ATA ATA ATA ATA ATA ATA AT
85217836 GTTAATTAAT
Statistics
Matches: 58, Mismatches: 10, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
3 58 1.00
ACGTcount: A:0.63, C:0.03, G:0.04, T:0.30
Consensus pattern (3 bp):
ATA
Found at i:85218831 original size:14 final size:14
Alignment explanation
Indices: 85218804--85218834 Score: 53
Period size: 15 Copynumber: 2.1 Consensus size: 14
85218794 TTTTTTACAA
85218804 TTTTGTTTGTTTTT
1 TTTTGTTTGTTTTT
85218818 TTTTGCTTTGTTTTT
1 TTTTG-TTTGTTTTT
85218833 TT
1 TT
85218835 CTTCTCTATG
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
14 5 0.31
15 11 0.69
ACGTcount: A:0.00, C:0.03, G:0.13, T:0.84
Consensus pattern (14 bp):
TTTTGTTTGTTTTT
Found at i:85222980 original size:13 final size:13
Alignment explanation
Indices: 85222962--85222987 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
85222952 GGGATTTGCT
85222962 TTAACTAAACTAA
1 TTAACTAAACTAA
85222975 TTAACTAAACTAA
1 TTAACTAAACTAA
85222988 GAATGCACAG
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.54, C:0.15, G:0.00, T:0.31
Consensus pattern (13 bp):
TTAACTAAACTAA
Found at i:85226492 original size:16 final size:17
Alignment explanation
Indices: 85226473--85226510 Score: 60
Period size: 16 Copynumber: 2.3 Consensus size: 17
85226463 ATTAGATTAA
*
85226473 TTAATTAAAATT-TTAT
1 TTAATTAAAATTATGAT
85226489 TTAATTAAAATTATGAT
1 TTAATTAAAATTATGAT
85226506 TTAAT
1 TTAAT
85226511 AACTTAAACC
Statistics
Matches: 20, Mismatches: 1, Indels: 1
0.91 0.05 0.05
Matches are distributed among these distances:
16 12 0.60
17 8 0.40
ACGTcount: A:0.45, C:0.00, G:0.03, T:0.53
Consensus pattern (17 bp):
TTAATTAAAATTATGAT
Found at i:85238773 original size:40 final size:40
Alignment explanation
Indices: 85238714--85238850 Score: 204
Period size: 40 Copynumber: 3.5 Consensus size: 40
85238704 AAACCAAGTA
* * * * *
85238714 CCTTCGGGATTTTG-CCGGATATAGTTACTCGCTCAACTG
1 CCTTCGGGACTTAGCCCGGATATAGTAACTCGCACAAATG
* *
85238753 CCTTCGAGACTTAGCCCGGATATAGTAACTCACACAAATG
1 CCTTCGGGACTTAGCCCGGATATAGTAACTCGCACAAATG
85238793 CCTTCGGGACTTAGCCCGGATATAGTAACTCGCACAAATG
1 CCTTCGGGACTTAGCCCGGATATAGTAACTCGCACAAATG
85238833 CCTTCGGGACTTAGCCCG
1 CCTTCGGGACTTAGCCCG
85238851 ATTATCATCC
Statistics
Matches: 88, Mismatches: 9, Indels: 1
0.90 0.09 0.01
Matches are distributed among these distances:
39 11 0.12
40 77 0.88
ACGTcount: A:0.24, C:0.28, G:0.22, T:0.26
Consensus pattern (40 bp):
CCTTCGGGACTTAGCCCGGATATAGTAACTCGCACAAATG
Found at i:85246577 original size:37 final size:38
Alignment explanation
Indices: 85246520--85246655 Score: 147
Period size: 38 Copynumber: 3.6 Consensus size: 38
85246510 CATTCCCAAA
* *
85246520 CCAAGTACCTTC-GGATTTAG-CGGATATAGCT-ACTCG
1 CCAAATACCTTCGGGACTTAGCCGGATATAG-TAACTCG
* *
85246556 CTCAACTACCTTC-GGACTTAGCCCGATATAGTAACTCG
1 C-CAAATACCTTCGGGACTTAGCCGGATATAGTAACTCG
*
85246594 -CAAATGCCTTCGGGACTTAGCCCGGATATAGTAACTCG
1 CCAAATACCTTCGGGACTTAG-CCGGATATAGTAACTCG
*
85246632 CACAAATGCCTTCGGGACTTAGCC
1 C-CAAATACCTTCGGGACTTAGCC
85246656 CGGTTATCAT
Statistics
Matches: 87, Mismatches: 6, Indels: 11
0.84 0.06 0.11
Matches are distributed among these distances:
36 10 0.11
37 26 0.30
38 29 0.33
39 2 0.02
40 20 0.23
ACGTcount: A:0.26, C:0.29, G:0.21, T:0.25
Consensus pattern (38 bp):
CCAAATACCTTCGGGACTTAGCCGGATATAGTAACTCG
Found at i:85246593 original size:38 final size:38
Alignment explanation
Indices: 85246520--85246657 Score: 151
Period size: 37 Copynumber: 3.7 Consensus size: 38
85246510 CATTCCCAAA
* * *
85246520 CCAAGTACCTTC-GGATTTAG-CGGATATAGCT-ACTCG
1 CCAAATACCTTCGGGACTTAGCCCGATATAG-TAACTCG
*
85246556 CTCAACTACCTTC-GGACTTAGCCCGATATAGTAACTCG
1 C-CAAATACCTTCGGGACTTAGCCCGATATAGTAACTCG
*
85246594 -CAAATGCCTTCGGGACTTAGCCCGGATATAGTAACTCG
1 CCAAATACCTTCGGGACTTAGCCC-GATATAGTAACTCG
*
85246632 CACAAATGCCTTCGGGACTTAGCCCG
1 C-CAAATACCTTCGGGACTTAGCCCG
85246658 GTTATCATCC
Statistics
Matches: 90, Mismatches: 5, Indels: 11
0.85 0.05 0.10
Matches are distributed among these distances:
36 10 0.11
37 29 0.32
38 27 0.30
39 1 0.01
40 23 0.26
ACGTcount: A:0.25, C:0.29, G:0.21, T:0.25
Consensus pattern (38 bp):
CCAAATACCTTCGGGACTTAGCCCGATATAGTAACTCG
Found at i:85246649 original size:40 final size:39
Alignment explanation
Indices: 85246540--85246658 Score: 165
Period size: 38 Copynumber: 3.1 Consensus size: 39
85246530 TCGGATTTAG
* *
85246540 CGGATATAGCT-ACTCGCTCAACTACCTTC-GGACTTAGCC
1 CGGATATAG-TAACTCGC-CAAATGCCTTCGGGACTTAGCC
85246579 C-GATATAGTAACTCG-CAAATGCCTTCGGGACTTAGCC
1 CGGATATAGTAACTCGCCAAATGCCTTCGGGACTTAGCC
85246616 CGGATATAGTAACTCGCACAAATGCCTTCGGGACTTAGCC
1 CGGATATAGTAACTCGC-CAAATGCCTTCGGGACTTAGCC
85246656 CGG
1 CGG
85246659 TTATCATCCG
Statistics
Matches: 73, Mismatches: 2, Indels: 9
0.87 0.02 0.11
Matches are distributed among these distances:
36 9 0.12
37 12 0.16
38 26 0.36
39 1 0.01
40 25 0.34
ACGTcount: A:0.25, C:0.29, G:0.22, T:0.24
Consensus pattern (39 bp):
CGGATATAGTAACTCGCCAAATGCCTTCGGGACTTAGCC
Found at i:85254434 original size:40 final size:40
Alignment explanation
Indices: 85254351--85254525 Score: 257
Period size: 40 Copynumber: 4.4 Consensus size: 40
85254341 AAACCAAGTA
* * * *
85254351 CCTTCGGGATTTAG-CCGGATATAGCT-ACTCGCTCAACTA
1 CCTTCGGGACTTAGCCCGGATATAG-TAACTCGCACAAATG
* *
85254390 CCTTCAGGACTTAGCCCGGATATAGTAACTCACACAAATG
1 CCTTCGGGACTTAGCCCGGATATAGTAACTCGCACAAATG
85254430 CCTTCGGGACTTAGCCCGGATATAGTAACTCGCACAAATG
1 CCTTCGGGACTTAGCCCGGATATAGTAACTCGCACAAATG
*
85254470 CCTTCGGAACTT-GCCCGGATATAGTAACTCGCACAAATG
1 CCTTCGGGACTTAGCCCGGATATAGTAACTCGCACAAATG
85254509 CCTTCGGGACTTAGCCC
1 CCTTCGGGACTTAGCCC
85254526 AGTTATCATC
Statistics
Matches: 123, Mismatches: 10, Indels: 5
0.89 0.07 0.04
Matches are distributed among these distances:
39 51 0.41
40 72 0.59
ACGTcount: A:0.26, C:0.29, G:0.21, T:0.24
Consensus pattern (40 bp):
CCTTCGGGACTTAGCCCGGATATAGTAACTCGCACAAATG
Found at i:85254487 original size:79 final size:80
Alignment explanation
Indices: 85254351--85254525 Score: 259
Period size: 79 Copynumber: 2.2 Consensus size: 80
85254341 AAACCAAGTA
* * *
85254351 CCTTCGGGATTTAG-CCGGATATAGCTACTCGCTCAACTACCTTCAGGACTTAGCCCGGATATAG
1 CCTTCGGGACTTAGCCCGGATATAGCTACTCGCACAAATACCTTCAGGACTTAGCCCGGATATAG
85254415 TAACTCACACAAATG
66 TAACTCACACAAATG
*
85254430 CCTTCGGGACTTAGCCCGGATATAG-TAACTCGCACAAATGCCTTC-GGAACTT-GCCCGGATAT
1 CCTTCGGGACTTAGCCCGGATATAGCT-ACTCGCACAAATACCTTCAGG-ACTTAGCCCGGATAT
*
85254492 AGTAACTCGCACAAATG
64 AGTAACTCACACAAATG
85254509 CCTTCGGGACTTAGCCC
1 CCTTCGGGACTTAGCCC
85254526 AGTTATCATC
Statistics
Matches: 88, Mismatches: 5, Indels: 6
0.89 0.05 0.06
Matches are distributed among these distances:
79 59 0.67
80 29 0.33
ACGTcount: A:0.26, C:0.29, G:0.21, T:0.24
Consensus pattern (80 bp):
CCTTCGGGACTTAGCCCGGATATAGCTACTCGCACAAATACCTTCAGGACTTAGCCCGGATATAG
TAACTCACACAAATG
Found at i:85258233 original size:46 final size:46
Alignment explanation
Indices: 85258166--85258340 Score: 207
Period size: 46 Copynumber: 3.8 Consensus size: 46
85258156 TGTAACCCGC
85258166 CCATAAGTGAACTCGGACTCAACTCAACGAGCTCGGGCGTTCACAT
1 CCATAAGTGAACTCGGACTCAACTCAACGAGCTCGGGCGTTCACAT
*
85258212 CCATAAGTGAACTCGGACTCAACTCAACGACCTCGGATGCCTTGTT-ACAT
1 CCATAAGTGAACTCGGACTCAACTCAACGAGCTCGG--G-C--GTTCACAT
* * * *
85258262 CTC-T---TGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCAT
1 C-CATAAGTGAACTCGGACTCAACTCAACGAGCTCGGGCGTTCACAT
*
85258305 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGG
1 CCATAAGTGAACTCGGACTCAACTCAACGAGCTCGG
85258341 ATGCCCAAAC
Statistics
Matches: 112, Mismatches: 6, Indels: 22
0.80 0.04 0.16
Matches are distributed among these distances:
42 3 0.03
43 5 0.04
44 1 0.01
46 64 0.57
47 27 0.24
48 1 0.01
49 1 0.01
50 6 0.05
51 4 0.04
ACGTcount: A:0.28, C:0.30, G:0.20, T:0.22
Consensus pattern (46 bp):
CCATAAGTGAACTCGGACTCAACTCAACGAGCTCGGGCGTTCACAT
Found at i:85258285 original size:93 final size:93
Alignment explanation
Indices: 85258173--85258345 Score: 292
Period size: 93 Copynumber: 1.9 Consensus size: 93
85258163 CGCCCATAAG
* *
85258173 TGAACTCGGACTCAACTCAACGAGCTCGGGCGTTCACATCCATAAGTGAACTCGGACTCAACTCA
1 TGAACTCGGACTCAACTCAACGAGCTCGGACATTCACATCCATAAGTGAACTCGGACTCAACTCA
85258238 ACGACCTCGGATGCCTTGTTACATCTCT
66 ACGACCTCGGATGCCTTGTTACATCTCT
* *
85258266 TGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCA
1 TGAACTCGGACTCAACTCAACGAGCTCGGACATTCACATCCATAAGTGAACTCGGACTCAACTCA
**
85258331 ACGAGTTCGGATGCC
66 ACGACCTCGGATGCC
85258346 CAAACATCCT
Statistics
Matches: 74, Mismatches: 6, Indels: 0
0.93 0.08 0.00
Matches are distributed among these distances:
93 74 1.00
ACGTcount: A:0.27, C:0.30, G:0.20, T:0.23
Consensus pattern (93 bp):
TGAACTCGGACTCAACTCAACGAGCTCGGACATTCACATCCATAAGTGAACTCGGACTCAACTCA
ACGACCTCGGATGCCTTGTTACATCTCT
Found at i:85258360 original size:46 final size:46
Alignment explanation
Indices: 85258171--85258360 Score: 151
Period size: 46 Copynumber: 4.1 Consensus size: 46
85258161 CCCGCCCATA
**
85258171 AGTGAACTCGGACTCAACTCAACGAGCTCGG--G-CGTTCACATCCAT
1 AGTGAACTCGGACTCAACTCAACGAGCTCGGATGCCCAT-ACATCC-T
* **
85258216 AAGTGAACTCGGACTCAACTCAACGACCTCGGATGCCTTGTTACATCTCT
1 -AGTGAACTCGGACTCAACTCAACGAGCTCGGATGCC--CATACATC-CT
* * * * *
85258266 --TGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCATCCAT--A
1 AGTGAACTCGGACTCAACTCAACGAGCTCGG--ATGCCCATACATCCT
* *
85258310 AGTGAACTCGGACTCAACTCAACGAGTTCGGATGCCCAAACATCCT
1 AGTGAACTCGGACTCAACTCAACGAGCTCGGATGCCCATACATCCT
85258356 AGTGA
1 AGTGA
85258361 CATGTCACTT
Statistics
Matches: 118, Mismatches: 14, Indels: 24
0.76 0.09 0.15
Matches are distributed among these distances:
44 8 0.07
46 64 0.54
47 31 0.26
48 1 0.01
49 4 0.03
50 6 0.05
51 4 0.03
ACGTcount: A:0.28, C:0.29, G:0.20, T:0.22
Consensus pattern (46 bp):
AGTGAACTCGGACTCAACTCAACGAGCTCGGATGCCCATACATCCT
Found at i:85263124 original size:48 final size:48
Alignment explanation
Indices: 85263049--85263276 Score: 207
Period size: 48 Copynumber: 4.9 Consensus size: 48
85263039 TACATGGTAG
* ** * *
85263049 GATGCCAATGCCATATCTTAGATATGGTCTTACATGAGATCACATATC
1 GATGCCAATGCCATGTCCCAGACATGGTCTTACATGGGATCACATATC
* ** **
85263097 GATGCCAATGCCATGTCTCAGACATGGTCTTACATGGGATCGTAGGTC
1 GATGCCAATGCCATGTCCCAGACATGGTCTTACATGGGATCACATATC
* *
85263145 GATGCGAATGCCATGTCCCAGACATGGTCTTACATGGGATCACACATC
1 GATGCCAATGCCATGTCCCAGACATGGTCTTACATGGGATCACATATC
* *** **** *
85263193 GATGCC---G--GTAAACCAG-CTATGGTCTTACACAATATTACATATC
1 GATGCCAATGCCATGTCCCAGAC-ATGGTCTTACATGGGATCACATATC
*
85263236 GATGCCAAAGCCATGTCCCAGACATGGTCTTACATGGGATC
1 GATGCCAATGCCATGTCCCAGACATGGTCTTACATGGGATC
85263277 GTACATAACC
Statistics
Matches: 139, Mismatches: 34, Indels: 14
0.74 0.18 0.07
Matches are distributed among these distances:
42 1 0.01
43 30 0.22
45 1 0.01
46 1 0.01
48 105 0.76
49 1 0.01
ACGTcount: A:0.28, C:0.24, G:0.21, T:0.26
Consensus pattern (48 bp):
GATGCCAATGCCATGTCCCAGACATGGTCTTACATGGGATCACATATC
Found at i:85268908 original size:11 final size:12
Alignment explanation
Indices: 85268877--85268910 Score: 52
Period size: 12 Copynumber: 2.8 Consensus size: 12
85268867 TTATTTTCAA
85268877 TTTAAATTCATT
1 TTTAAATTCATT
85268889 TTCTAAATT-ATT
1 TT-TAAATTCATT
85268901 TTTAAATTCA
1 TTTAAATTCA
85268911 ATCTTGTTTT
Statistics
Matches: 20, Mismatches: 0, Indels: 4
0.83 0.00 0.17
Matches are distributed among these distances:
11 6 0.30
12 8 0.40
13 6 0.30
ACGTcount: A:0.35, C:0.09, G:0.00, T:0.56
Consensus pattern (12 bp):
TTTAAATTCATT
Found at i:85273356 original size:3 final size:3
Alignment explanation
Indices: 85273348--85273379 Score: 64
Period size: 3 Copynumber: 10.7 Consensus size: 3
85273338 GGTTCACCAT
85273348 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TA
1 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TA
85273380 GGCTTTGATG
Statistics
Matches: 29, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 29 1.00
ACGTcount: A:0.66, C:0.00, G:0.00, T:0.34
Consensus pattern (3 bp):
TAA
Found at i:85283418 original size:41 final size:40
Alignment explanation
Indices: 85283355--85283519 Score: 172
Period size: 41 Copynumber: 4.0 Consensus size: 40
85283345 GTGATTGAAT
* * * *
85283355 ATAATACAGACGTTACGTCTAGCAGGCTTAATGCCGGTGA
1 ATAATTCAGACTTTAAGTCTAGCAGGCTAAATGCCGGTGA
85283395 AGTAATTCAGACTTTAAGTCTAGCAGGCTAAATGCCGGTG-
1 A-TAATTCAGACTTTAAGTCTAGCAGGCTAAATGCCGGTGA
* * *
85283435 ATACATTTCAGACTATATGTCTAGCAGGCTAAGTGCCGGTGTA
1 ATA-A-TTCAGACTTTAAGTCTAGCAGGCTAAATGCCGGTG-A
* * * *
85283478 CTGAA-TCAGGCTTTAAGCCTAGCAGGCAAAATGCCGGTGA
1 AT-AATTCAGACTTTAAGTCTAGCAGGCTAAATGCCGGTGA
85283518 AT
1 AT
85283520 CTGTTTAAAT
Statistics
Matches: 104, Mismatches: 15, Indels: 12
0.79 0.11 0.09
Matches are distributed among these distances:
39 2 0.02
40 5 0.05
41 94 0.90
43 2 0.02
44 1 0.01
ACGTcount: A:0.30, C:0.19, G:0.25, T:0.26
Consensus pattern (40 bp):
ATAATTCAGACTTTAAGTCTAGCAGGCTAAATGCCGGTGA
Found at i:85290974 original size:41 final size:40
Alignment explanation
Indices: 85290911--85291075 Score: 172
Period size: 41 Copynumber: 4.0 Consensus size: 40
85290901 GTGATTGAAT
* * * *
85290911 ATAATACAGACGTTACGTCTAGCAGGCTTAATGCCGGTGA
1 ATAATTCAGACTTTAAGTCTAGCAGGCTAAATGCCGGTGA
85290951 AGTAATTCAGACTTTAAGTCTAGCAGGCTAAATGCCGGTG-
1 A-TAATTCAGACTTTAAGTCTAGCAGGCTAAATGCCGGTGA
* * *
85290991 ATACATTTCAGACTATATGTCTAGCAGGCTAAGTGCCGGTGTA
1 ATA-A-TTCAGACTTTAAGTCTAGCAGGCTAAATGCCGGTG-A
* * * *
85291034 CTGAA-TCAGGCTTTAAGCCTAGCAGGCAAAATGCCGGTGA
1 AT-AATTCAGACTTTAAGTCTAGCAGGCTAAATGCCGGTGA
85291074 AT
1 AT
85291076 CTGTTTAAAT
Statistics
Matches: 104, Mismatches: 15, Indels: 12
0.79 0.11 0.09
Matches are distributed among these distances:
39 2 0.02
40 5 0.05
41 94 0.90
43 2 0.02
44 1 0.01
ACGTcount: A:0.30, C:0.19, G:0.25, T:0.26
Consensus pattern (40 bp):
ATAATTCAGACTTTAAGTCTAGCAGGCTAAATGCCGGTGA
Found at i:85292087 original size:27 final size:26
Alignment explanation
Indices: 85292049--85292222 Score: 213
Period size: 27 Copynumber: 6.5 Consensus size: 26
85292039 TAGGGTGTTA
85292049 CAGAGCCACCAGAACAGATATATGTGG
1 CAGAGCCACCAGAACAGATA-ATGTGG
**
85292076 CAGAGCCACCAGATTAGATAATCGTGG
1 CAGAGCCACCAGAACAGATAAT-GTGG
* *
85292103 CATAGCCACCATAACAGATATATGTGG
1 CAGAGCCACCAGAACAGATA-ATGTGG
* *
85292130 CAGAGCCATCAGATCAGATAATCGTGG
1 CAGAGCCACCAGAACAGATAAT-GTGG
*
85292157 CATAGCCACCAGAACAGATATATGTGG
1 CAGAGCCACCAGAACAGATA-ATGTGG
*
85292184 CAGAGCCACCAGATCAGATAATTGTGG
1 CAGAGCCACCAGAACAGATAA-TGTGG
*
85292211 CATAGCCACCAG
1 CAGAGCCACCAG
85292223 GACGCTTCCT
Statistics
Matches: 126, Mismatches: 16, Indels: 10
0.83 0.11 0.07
Matches are distributed among these distances:
26 5 0.04
27 117 0.93
28 4 0.03
ACGTcount: A:0.35, C:0.24, G:0.24, T:0.18
Consensus pattern (26 bp):
CAGAGCCACCAGAACAGATAATGTGG
Found at i:85292134 original size:54 final size:54
Alignment explanation
Indices: 85292052--85292222 Score: 306
Period size: 54 Copynumber: 3.2 Consensus size: 54
85292042 GGTGTTACAG
*
85292052 AGCCACCAGAACAGATATATGTGGCAGAGCCACCAGATTAGATAATCGTGGCAT
1 AGCCACCAGAACAGATATATGTGGCAGAGCCACCAGATCAGATAATCGTGGCAT
* *
85292106 AGCCACCATAACAGATATATGTGGCAGAGCCATCAGATCAGATAATCGTGGCAT
1 AGCCACCAGAACAGATATATGTGGCAGAGCCACCAGATCAGATAATCGTGGCAT
*
85292160 AGCCACCAGAACAGATATATGTGGCAGAGCCACCAGATCAGATAATTGTGGCAT
1 AGCCACCAGAACAGATATATGTGGCAGAGCCACCAGATCAGATAATCGTGGCAT
85292214 AGCCACCAG
1 AGCCACCAG
85292223 GACGCTTCCT
Statistics
Matches: 111, Mismatches: 6, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
54 111 1.00
ACGTcount: A:0.35, C:0.23, G:0.23, T:0.18
Consensus pattern (54 bp):
AGCCACCAGAACAGATATATGTGGCAGAGCCACCAGATCAGATAATCGTGGCAT
Found at i:85292389 original size:28 final size:26
Alignment explanation
Indices: 85292327--85292400 Score: 76
Period size: 26 Copynumber: 2.8 Consensus size: 26
85292317 AAAGTAACCC
* * *
85292327 TAGGGGTATAATGGTAATTTTGCACC
1 TAGGGGTATAATAGTAATTTTCCACA
* *
85292353 TAGGAGTATAACAGTAATTTTCCATACA
1 TAGGGGTATAATAGTAATTTTCC--ACA
*
85292381 TAGGGGTATTATAGTAATTT
1 TAGGGGTATAATAGTAATTT
85292401 AGCTGCTTTT
Statistics
Matches: 38, Mismatches: 8, Indels: 2
0.79 0.17 0.04
Matches are distributed among these distances:
26 19 0.50
28 19 0.50
ACGTcount: A:0.32, C:0.09, G:0.22, T:0.36
Consensus pattern (26 bp):
TAGGGGTATAATAGTAATTTTCCACA
Found at i:85293874 original size:26 final size:26
Alignment explanation
Indices: 85293843--85293950 Score: 180
Period size: 26 Copynumber: 4.2 Consensus size: 26
85293833 TGAAATGCCC
*
85293843 ATCATGGAACATTTACCTAAACCATT
1 ATCATGGAACATTTACCTAACCCATT
*
85293869 ATCATGAAACATTTACCTAACCCATT
1 ATCATGGAACATTTACCTAACCCATT
* *
85293895 ATCATGGAATATTTACCTAATCCATT
1 ATCATGGAACATTTACCTAACCCATT
85293921 ATCATGGAACATTTACCTAACCCATT
1 ATCATGGAACATTTACCTAACCCATT
85293947 ATCA
1 ATCA
85293951 ATTTGTACCA
Statistics
Matches: 75, Mismatches: 7, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
26 75 1.00
ACGTcount: A:0.37, C:0.24, G:0.06, T:0.32
Consensus pattern (26 bp):
ATCATGGAACATTTACCTAACCCATT
Found at i:85299244 original size:27 final size:27
Alignment explanation
Indices: 85299196--85299408 Score: 215
Period size: 27 Copynumber: 7.9 Consensus size: 27
85299186 GCGAGGCTGC
* *
85299196 CAGATATTGTGAC-GAAGTCACCAGATA
1 CAGATATTGTGGCAG-AGCCACCAGATA
**
85299223 CAGATATTACGGCAGAGCCACCAGA-A
1 CAGATATTGTGGCAGAGCCACCAGATA
85299249 CAGATATATGTGGCAGAGCCACCAGAT-
1 CAGATAT-TGTGGCAGAGCCACCAGATA
* * *
85299276 CAGATAATCGTGGCATAGCCACTAGA-A
1 CAGAT-ATTGTGGCAGAGCCACCAGATA
*
85299303 CAGATATATGTGGCAGAGCTACCAGAT-
1 CAGATAT-TGTGGCAGAGCCACCAGATA
* *
85299330 CAGATAATCGTGGCATAGCCACCAGA-A
1 CAGAT-ATTGTGGCAGAGCCACCAGATA
85299357 CAGATATATGTGGCAGAGCCACCAGAT-
1 CAGATAT-TGTGGCAGAGCCACCAGATA
*
85299384 CAGATAATTGTGGCATAGCCACCAG
1 CAGAT-ATTGTGGCAGAGCCACCAG
85299409 GACGCTTCCT
Statistics
Matches: 155, Mismatches: 19, Indels: 24
0.78 0.10 0.12
Matches are distributed among these distances:
26 12 0.08
27 136 0.88
28 7 0.05
ACGTcount: A:0.35, C:0.23, G:0.24, T:0.18
Consensus pattern (27 bp):
CAGATATTGTGGCAGAGCCACCAGATA
Found at i:85299296 original size:54 final size:54
Alignment explanation
Indices: 85299233--85299408 Score: 316
Period size: 54 Copynumber: 3.3 Consensus size: 54
85299223 CAGATATTAC
*
85299233 GGCAGAGCCACCAGAACAGATATATGTGGCAGAGCCACCAGATCAGATAATCGT
1 GGCATAGCCACCAGAACAGATATATGTGGCAGAGCCACCAGATCAGATAATCGT
* *
85299287 GGCATAGCCACTAGAACAGATATATGTGGCAGAGCTACCAGATCAGATAATCGT
1 GGCATAGCCACCAGAACAGATATATGTGGCAGAGCCACCAGATCAGATAATCGT
*
85299341 GGCATAGCCACCAGAACAGATATATGTGGCAGAGCCACCAGATCAGATAATTGT
1 GGCATAGCCACCAGAACAGATATATGTGGCAGAGCCACCAGATCAGATAATCGT
85299395 GGCATAGCCACCAG
1 GGCATAGCCACCAG
85299409 GACGCTTCCT
Statistics
Matches: 116, Mismatches: 6, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
54 116 1.00
ACGTcount: A:0.35, C:0.23, G:0.25, T:0.17
Consensus pattern (54 bp):
GGCATAGCCACCAGAACAGATATATGTGGCAGAGCCACCAGATCAGATAATCGT
Found at i:85299560 original size:26 final size:27
Alignment explanation
Indices: 85299512--85299587 Score: 82
Period size: 26 Copynumber: 2.8 Consensus size: 27
85299502 CAAAAGTAAC
* * *
85299512 CCTAGGGGTATAATGGTAGTTTTGC-A
1 CCTAGGGGTATAATAGTAATTTTCCAA
*
85299538 CCTAGGGGTATAACAGTAATTTTCCATA
1 CCTAGGGGTATAATAGTAATTTTCCA-A
* *
85299566 CATAGGGGTATTATAGTAATTT
1 CCTAGGGGTATAATAGTAATTT
85299588 AGCTGCTTTT
Statistics
Matches: 41, Mismatches: 7, Indels: 2
0.82 0.14 0.04
Matches are distributed among these distances:
26 21 0.51
28 20 0.49
ACGTcount: A:0.29, C:0.12, G:0.24, T:0.36
Consensus pattern (27 bp):
CCTAGGGGTATAATAGTAATTTTCCAA
Found at i:85301062 original size:26 final size:26
Alignment explanation
Indices: 85301031--85301138 Score: 171
Period size: 26 Copynumber: 4.2 Consensus size: 26
85301021 TGAAATGCCC
*
85301031 ATCATGGAACATTTACCTAAACCATT
1 ATCATGGAACATTTACCTAACCCATT
85301057 ATCATGGAACATTTACCTAACCCATT
1 ATCATGGAACATTTACCTAACCCATT
* **
85301083 ATCATGGAATATTTACCTAGTCCATT
1 ATCATGGAACATTTACCTAACCCATT
*
85301109 ATCATTGAACATTTACCTAACCCATT
1 ATCATGGAACATTTACCTAACCCATT
85301135 ATCA
1 ATCA
85301139 ATTTGTACCA
Statistics
Matches: 74, Mismatches: 8, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
26 74 1.00
ACGTcount: A:0.35, C:0.24, G:0.07, T:0.33
Consensus pattern (26 bp):
ATCATGGAACATTTACCTAACCCATT
Found at i:85307433 original size:26 final size:26
Alignment explanation
Indices: 85307404--85307470 Score: 75
Period size: 25 Copynumber: 2.6 Consensus size: 26
85307394 ATTATTTGGG
* *
85307404 AAGCCTTAGTGGCAAAGTTATCTAGA
1 AAGCCTTAGTGGCAAAGTCATCCAGA
* *
85307430 AAGCCTTTGTGGC-AAGTCATCCGGA
1 AAGCCTTAGTGGCAAAGTCATCCAGA
85307455 AAGCCTGTA-TGGCAAA
1 AAGCCT-TAGTGGCAAA
85307471 TTCTGTAATG
Statistics
Matches: 34, Mismatches: 5, Indels: 4
0.79 0.12 0.09
Matches are distributed among these distances:
25 19 0.56
26 15 0.44
ACGTcount: A:0.31, C:0.19, G:0.25, T:0.24
Consensus pattern (26 bp):
AAGCCTTAGTGGCAAAGTCATCCAGA
Found at i:85311154 original size:6 final size:6
Alignment explanation
Indices: 85311119--85311151 Score: 59
Period size: 6 Copynumber: 5.7 Consensus size: 6
85311109 AAGGACATCC
85311119 TTTTCT TTTTCT TTTTCT TTTTCT TTTT-T TTTT
1 TTTTCT TTTTCT TTTTCT TTTTCT TTTTCT TTTT
85311152 TTTCCTGAGC
Statistics
Matches: 27, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
5 5 0.19
6 22 0.81
ACGTcount: A:0.00, C:0.12, G:0.00, T:0.88
Consensus pattern (6 bp):
TTTTCT
Found at i:85315557 original size:23 final size:23
Alignment explanation
Indices: 85315523--85315666 Score: 94
Period size: 23 Copynumber: 6.2 Consensus size: 23
85315513 ATCTCTTTTC
85315523 CAGCAACTAAACATTTCAATTTG
1 CAGCAACTAAACATTTCAATTTG
* * *
85315546 CAGCGA-TAAAACATCTCAATTTC
1 CAGCAACT-AAACATTTCAATTTG
*
85315569 CAGCAACTAAACACTTCAATTTG
1 CAGCAACTAAACATTTCAATTTG
* * *
85315592 CAG-TACTTAAAACACTTCAATTTA
1 CAGCAAC-T-AAACATTTCAATTTG
* ** * * * *
85315616 CAACATTTAAGCACTTCAATCTA
1 CAGCAACTAAACATTTCAATTTG
** *
85315639 CAGCATTTAAACACTTCAATTTG
1 CAGCAACTAAACATTTCAATTTG
85315662 CAGCA
1 CAGCA
85315667 CTTTAATTTA
Statistics
Matches: 97, Mismatches: 19, Indels: 10
0.77 0.15 0.08
Matches are distributed among these distances:
22 3 0.03
23 76 0.78
24 18 0.19
ACGTcount: A:0.39, C:0.24, G:0.08, T:0.29
Consensus pattern (23 bp):
CAGCAACTAAACATTTCAATTTG
Found at i:85331535 original size:25 final size:27
Alignment explanation
Indices: 85331498--85331550 Score: 74
Period size: 26 Copynumber: 2.0 Consensus size: 27
85331488 TCAAACATGA
85331498 ATTTAGGTCAATTTAAC-CCTAGGGGT
1 ATTTAGGTCAATTTAACTCCTAGGGGT
* *
85331524 ATTTCGGT-AATTTATCTCCTAGGGGT
1 ATTTAGGTCAATTTAACTCCTAGGGGT
85331550 A
1 A
85331551 AAACTATAAA
Statistics
Matches: 24, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
25 7 0.29
26 17 0.71
ACGTcount: A:0.25, C:0.15, G:0.23, T:0.38
Consensus pattern (27 bp):
ATTTAGGTCAATTTAACTCCTAGGGGT
Found at i:85336758 original size:7 final size:7
Alignment explanation
Indices: 85336748--85336782 Score: 70
Period size: 7 Copynumber: 5.0 Consensus size: 7
85336738 AATTTTTAAG
85336748 TTTTTTA
1 TTTTTTA
85336755 TTTTTTA
1 TTTTTTA
85336762 TTTTTTA
1 TTTTTTA
85336769 TTTTTTA
1 TTTTTTA
85336776 TTTTTTA
1 TTTTTTA
85336783 AATTTTAAAT
Statistics
Matches: 28, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 28 1.00
ACGTcount: A:0.14, C:0.00, G:0.00, T:0.86
Consensus pattern (7 bp):
TTTTTTA
Found at i:85336758 original size:14 final size:14
Alignment explanation
Indices: 85336739--85336797 Score: 64
Period size: 14 Copynumber: 4.0 Consensus size: 14
85336729 TAAATATTAA
85336739 ATTTTTAAGTTTTTT
1 ATTTTTAA-TTTTTT
*
85336754 ATTTTTTATTTTTT
1 ATTTTTAATTTTTT
*
85336768 ATTTTTTATTTTTT
1 ATTTTTAATTTTTT
*
85336782 AAATTTTAAATTTTTT
1 --ATTTTTAATTTTTT
85336798 TTGAAGATTT
Statistics
Matches: 39, Mismatches: 3, Indels: 3
0.87 0.07 0.07
Matches are distributed among these distances:
14 20 0.51
15 7 0.18
16 12 0.31
ACGTcount: A:0.22, C:0.00, G:0.02, T:0.76
Consensus pattern (14 bp):
ATTTTTAATTTTTT
Found at i:85336765 original size:21 final size:22
Alignment explanation
Indices: 85336738--85336797 Score: 50
Period size: 22 Copynumber: 2.7 Consensus size: 22
85336728 TTAAATATTA
*
85336738 AATTTTTAAGTTTTTT-ATTTTT
1 AATTTTTTA-TTTTTTAATTTTT
* *
85336760 TATTTTTTATTTTTTATTTTTT
1 AATTTTTTATTTTTTAATTTTT
**
85336782 AAATTTTAAATTTTTT
1 -AATTTTTTATTTTTT
85336798 TTGAAGATTT
Statistics
Matches: 30, Mismatches: 6, Indels: 3
0.77 0.15 0.08
Matches are distributed among these distances:
21 6 0.20
22 12 0.40
23 12 0.40
ACGTcount: A:0.23, C:0.00, G:0.02, T:0.75
Consensus pattern (22 bp):
AATTTTTTATTTTTTAATTTTT
Found at i:85337782 original size:23 final size:22
Alignment explanation
Indices: 85337752--85337799 Score: 60
Period size: 23 Copynumber: 2.1 Consensus size: 22
85337742 TTTATGATTT
* *
85337752 TTTTAAGGTTTAGAGGTTTAGTG
1 TTTTAAGGGTTAGA-GATTAGTG
*
85337775 TTTTAAGGGTTATAGATTAGTG
1 TTTTAAGGGTTAGAGATTAGTG
85337797 TTT
1 TTT
85337800 ATGATTTTTT
Statistics
Matches: 22, Mismatches: 3, Indels: 1
0.85 0.12 0.04
Matches are distributed among these distances:
22 10 0.45
23 12 0.55
ACGTcount: A:0.23, C:0.00, G:0.27, T:0.50
Consensus pattern (22 bp):
TTTTAAGGGTTAGAGATTAGTG
Found at i:85337896 original size:41 final size:41
Alignment explanation
Indices: 85337839--85338057 Score: 312
Period size: 41 Copynumber: 5.3 Consensus size: 41
85337829 GTTATATGAC
*
85337839 TTTTAGCGGCGTTTTACCGAAAGCGCTGCTAATGCTCTGGT
1 TTTTAGCGGCGTTTTACCGAAAGCGCCGCTAATGCTCTGGT
* *
85337880 TTTTAGCGGCGTTTTACCGAAAGAGCCACTAATGCTCTGGT
1 TTTTAGCGGCGTTTTACCGAAAGCGCCGCTAATGCTCTGGT
* * * * * *
85337921 TTTTAGCTGCATTTTATCAAAAGCGCCGTTAATTCTCTGGT
1 TTTTAGCGGCGTTTTACCGAAAGCGCCGCTAATGCTCTGGT
* *
85337962 TTTTAACGGCGTTTTACCGAAAGTGCCGCTAATGCTCTGGT
1 TTTTAGCGGCGTTTTACCGAAAGCGCCGCTAATGCTCTGGT
* * *
85338003 TTTTAGCGGTGTTTTACCGAAAGCACCGCTAATGCTTTGGT
1 TTTTAGCGGCGTTTTACCGAAAGCGCCGCTAATGCTCTGGT
85338044 TTTTAGCGGCGTTT
1 TTTTAGCGGCGTTT
85338058 CTATTGCTCT
Statistics
Matches: 153, Mismatches: 25, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
41 153 1.00
ACGTcount: A:0.19, C:0.21, G:0.24, T:0.37
Consensus pattern (41 bp):
TTTTAGCGGCGTTTTACCGAAAGCGCCGCTAATGCTCTGGT
Found at i:85338073 original size:27 final size:27
Alignment explanation
Indices: 85338043--85338111 Score: 113
Period size: 27 Copynumber: 2.6 Consensus size: 27
85338033 AATGCTTTGG
85338043 TTTTTAGCGGCGTTT-CTATTGCTCTA
1 TTTTTAGCGGCGTTTGCTATTGCTCTA
85338069 TTTTTTAGCGGCGTTTGCTATTGCTCTA
1 -TTTTTAGCGGCGTTTGCTATTGCTCTA
*
85338097 TTTTTAACGGCGTTT
1 TTTTTAGCGGCGTTT
85338112 TAACTAAAAA
Statistics
Matches: 40, Mismatches: 1, Indels: 2
0.93 0.02 0.05
Matches are distributed among these distances:
27 29 0.73
28 11 0.28
ACGTcount: A:0.12, C:0.17, G:0.20, T:0.51
Consensus pattern (27 bp):
TTTTTAGCGGCGTTTGCTATTGCTCTA
Found at i:85340805 original size:24 final size:23
Alignment explanation
Indices: 85340769--85340860 Score: 109
Period size: 24 Copynumber: 4.0 Consensus size: 23
85340759 GGGGGTGATA
85340769 AGAGTAATCTATGGGATTTGTAT
1 AGAGTAATCTATGGGATTTGTAT
* * *
85340792 AGGAGTAATTTATGGGATTTGGAC
1 A-GAGTAATCTATGGGATTTGTAT
*
85340816 ATA-T-A-CTATGGGATTTGTAT
1 AGAGTAATCTATGGGATTTGTAT
85340836 AAGAGTAATCTATGGGATTTGTAT
1 -AGAGTAATCTATGGGATTTGTAT
85340860 A
1 A
85340861 TATATTGTTT
Statistics
Matches: 56, Mismatches: 8, Indels: 10
0.76 0.11 0.14
Matches are distributed among these distances:
20 12 0.21
21 3 0.05
22 2 0.04
23 4 0.07
24 35 0.62
ACGTcount: A:0.32, C:0.04, G:0.26, T:0.38
Consensus pattern (23 bp):
AGAGTAATCTATGGGATTTGTAT
Found at i:85347964 original size:33 final size:33
Alignment explanation
Indices: 85347927--85348077 Score: 187
Period size: 33 Copynumber: 4.5 Consensus size: 33
85347917 TACTCTCTTT
* *
85347927 TTGGTGTGTTGGTTGGATTAGCTCTTATGAGCA
1 TTGGTGTGATGGTTGGATTAGCTCTAATGAGCA
*
85347960 TTGGTGTGATGGTTGGTTTAGCTCTAATGAGCA
1 TTGGTGTGATGGTTGGATTAGCTCTAATGAGCA
*
85347993 TTGGTGTGATGGTTGGATTAGCTCTTATGAGCA
1 TTGGTGTGATGGTTGGATTAGCTCTAATGAGCA
* * *
85348026 TTGGTATGATGGATGGATTGGCTC-AAGTGAGCA
1 TTGGTGTGATGGTTGGATTAGCTCTAA-TGAGCA
* *
85348059 TCCGGTGTGTTTGGTTGGA
1 T-TGGTGTG-ATGGTTGGA
85348078 CTGATGATGT
Statistics
Matches: 102, Mismatches: 13, Indels: 4
0.86 0.11 0.03
Matches are distributed among these distances:
32 1 0.01
33 89 0.87
34 5 0.05
35 7 0.07
ACGTcount: A:0.17, C:0.09, G:0.35, T:0.38
Consensus pattern (33 bp):
TTGGTGTGATGGTTGGATTAGCTCTAATGAGCA
Found at i:85348036 original size:66 final size:66
Alignment explanation
Indices: 85347927--85348077 Score: 214
Period size: 66 Copynumber: 2.3 Consensus size: 66
85347917 TACTCTCTTT
* * *
85347927 TTGGTGTGTTGGTTGGATTAGCTCTTATGAGCATTGGTGTGATGGTTGGTTTAGCTCTAA-TGAG
1 TTGGTGTGTTGGTTGGATTAGCTCTTATGAGCATTGGTATGATGGATGGATTAGCTC-AAGTGAG
85347991 CA
65 CA
* *
85347993 TTGGTGTGATGGTTGGATTAGCTCTTATGAGCATTGGTATGATGGATGGATTGGCTCAAGTGAGC
1 TTGGTGTGTTGGTTGGATTAGCTCTTATGAGCATTGGTATGATGGATGGATTAGCTCAAGTGAGC
85348058 A
66 A
*
85348059 TCCGGTGTGTTTGGTTGGA
1 T-TGGTGTG-TTGGTTGGA
85348078 CTGATGATGT
Statistics
Matches: 75, Mismatches: 7, Indels: 4
0.87 0.08 0.05
Matches are distributed among these distances:
65 2 0.03
66 59 0.79
67 6 0.08
68 8 0.11
ACGTcount: A:0.17, C:0.09, G:0.35, T:0.38
Consensus pattern (66 bp):
TTGGTGTGTTGGTTGGATTAGCTCTTATGAGCATTGGTATGATGGATGGATTAGCTCAAGTGAGC
A
Found at i:85350992 original size:34 final size:34
Alignment explanation
Indices: 85350952--85351029 Score: 147
Period size: 34 Copynumber: 2.3 Consensus size: 34
85350942 ACAAACATAC
85350952 AAAGTAATAATTAAATAATGCATGATATACAAAA
1 AAAGTAATAATTAAATAATGCATGATATACAAAA
85350986 AAAGTAATAATTAAATAATGCATGATATACAAAA
1 AAAGTAATAATTAAATAATGCATGATATACAAAA
85351020 AAGAGTAATA
1 AA-AGTAATA
85351030 CAATATCAAT
Statistics
Matches: 43, Mismatches: 0, Indels: 1
0.98 0.00 0.02
Matches are distributed among these distances:
34 36 0.84
35 7 0.16
ACGTcount: A:0.59, C:0.05, G:0.10, T:0.26
Consensus pattern (34 bp):
AAAGTAATAATTAAATAATGCATGATATACAAAA
Found at i:85351368 original size:19 final size:19
Alignment explanation
Indices: 85351309--85351372 Score: 55
Period size: 18 Copynumber: 3.5 Consensus size: 19
85351299 AAAAGAATTT
* *
85351309 ATAAAATAACACATAATAT
1 ATAAAATAATACATAATAA
**
85351328 A-AAAAT-AT-CATTTTAA
1 ATAAAATAATACATAATAA
85351344 AGTAAAATAATACATAATAA
1 A-TAAAATAATACATAATAA
85351364 AT-AAATAAT
1 ATAAAATAAT
85351373 TAATAATTTA
Statistics
Matches: 35, Mismatches: 6, Indels: 9
0.70 0.12 0.18
Matches are distributed among these distances:
16 6 0.17
17 1 0.03
18 17 0.49
19 4 0.11
20 7 0.20
ACGTcount: A:0.62, C:0.06, G:0.02, T:0.30
Consensus pattern (19 bp):
ATAAAATAATACATAATAA
Found at i:85353684 original size:37 final size:37
Alignment explanation
Indices: 85353642--85353714 Score: 98
Period size: 37 Copynumber: 2.0 Consensus size: 37
85353632 ATTTCTTTAC
85353642 ATTTTTTT-TAT-TTTCTTACGA-ATTTATAAAATTTT
1 ATTTTTTTCTATATTT-TTACGATATTTATAAAATTTT
* *
85353677 ATTTTTTTCTATATTTTTACTATTTTTATAAAATTTT
1 ATTTTTTTCTATATTTTTACGATATTTATAAAATTTT
85353714 A
1 A
85353715 CAAATTTTTT
Statistics
Matches: 33, Mismatches: 2, Indels: 4
0.85 0.05 0.10
Matches are distributed among these distances:
35 8 0.24
36 8 0.24
37 17 0.52
ACGTcount: A:0.29, C:0.05, G:0.01, T:0.64
Consensus pattern (37 bp):
ATTTTTTTCTATATTTTTACGATATTTATAAAATTTT
Found at i:85353713 original size:19 final size:19
Alignment explanation
Indices: 85353664--85353747 Score: 62
Period size: 19 Copynumber: 4.4 Consensus size: 19
85353654 TTCTTACGAA
**
85353664 TTTATAAAATTTTA-TTTT
1 TTTATAAAATTTTACAATT
* * * *
85353682 TTTCTATATTTTTACTATT
1 TTTATAAAATTTTACAATT
85353701 TTTATAAAATTTTACAAATTT
1 TTTATAAAATTTTAC-AA-TT
** *
85353722 TTTATAATTTTTTACAACT
1 TTTATAAAATTTTACAATT
85353741 TTTATAA
1 TTTATAA
85353748 TTTTTTTTCT
Statistics
Matches: 52, Mismatches: 11, Indels: 5
0.76 0.16 0.07
Matches are distributed among these distances:
18 11 0.21
19 23 0.44
20 3 0.06
21 15 0.29
ACGTcount: A:0.33, C:0.06, G:0.00, T:0.61
Consensus pattern (19 bp):
TTTATAAAATTTTACAATT
Found at i:85353723 original size:21 final size:21
Alignment explanation
Indices: 85353699--85353743 Score: 63
Period size: 21 Copynumber: 2.1 Consensus size: 21
85353689 ATTTTTACTA
85353699 TTTTTATAAAATTTTACAAAT
1 TTTTTATAAAATTTTACAAAT
** *
85353720 TTTTTATAATTTTTTACAACT
1 TTTTTATAAAATTTTACAAAT
85353741 TTT
1 TTT
85353744 ATAATTTTTT
Statistics
Matches: 21, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
21 21 1.00
ACGTcount: A:0.33, C:0.07, G:0.00, T:0.60
Consensus pattern (21 bp):
TTTTTATAAAATTTTACAAAT
Found at i:85353732 original size:9 final size:9
Alignment explanation
Indices: 85353689--85353803 Score: 56
Period size: 9 Copynumber: 12.1 Consensus size: 9
85353679 TTTTTTCTAT
85353689 ATTTTTACT-
1 ATTTTTA-TA
85353698 ATTTTTATAA
1 ATTTTTAT-A
* *
85353708 AATTTTACAA
1 ATTTTTA-TA
85353718 ATTTTTTATA
1 A-TTTTTATA
*
85353728 ATTTTTTACA
1 A-TTTTTATA
*
85353738 ACTTTTATA
1 ATTTTTATA
*
85353747 ATTTTTTTTCTA
1 A---TTTTTATA
85353759 ATTTTTA-A
1 ATTTTTATA
*
85353767 TATATTTAT-
1 -ATTTTTATA
*
85353776 ATTTTAATA
1 ATTTTTATA
85353785 ATTTTTATA
1 ATTTTTATA
*
85353794 AATTTTATA
1 ATTTTTATA
85353803 A
1 A
85353804 CTTTAATTGA
Statistics
Matches: 81, Mismatches: 15, Indels: 20
0.70 0.13 0.17
Matches are distributed among these distances:
8 8 0.10
9 42 0.52
10 19 0.23
11 5 0.06
12 7 0.09
ACGTcount: A:0.35, C:0.04, G:0.00, T:0.61
Consensus pattern (9 bp):
ATTTTTATA
Found at i:85353797 original size:10 final size:10
Alignment explanation
Indices: 85353698--85353803 Score: 55
Period size: 10 Copynumber: 11.0 Consensus size: 10
85353688 TATTTTTACT
85353698 ATTTTTATAA
1 ATTTTTATAA
* *
85353708 AATTTTACAA
1 ATTTTTATAA
85353718 ATTTTT-TATA
1 ATTTTTATA-A
85353728 ATTTTT-TACA
1 ATTTTTATA-A
*
85353738 ACTTTTATAA
1 ATTTTTATAA
* * *
85353748 TTTTTTTTCTA
1 ATTTTTAT-AA
*
85353759 ATTTTTA-AT
1 ATTTTTATAA
*
85353768 ATATTTAT--
1 ATTTTTATAA
*
85353776 ATTTTAAT-A
1 ATTTTTATAA
85353785 ATTTTTATAA
1 ATTTTTATAA
85353795 A-TTTTATAA
1 ATTTTTATAA
85353804 CTTTAATTGA
Statistics
Matches: 72, Mismatches: 18, Indels: 13
0.70 0.17 0.13
Matches are distributed among these distances:
8 6 0.08
9 22 0.31
10 36 0.50
11 8 0.11
ACGTcount: A:0.36, C:0.04, G:0.00, T:0.60
Consensus pattern (10 bp):
ATTTTTATAA
Found at i:85353800 original size:26 final size:29
Alignment explanation
Indices: 85353757--85353820 Score: 73
Period size: 26 Copynumber: 2.3 Consensus size: 29
85353747 ATTTTTTTTC
* *
85353757 TAATTTTTA-ATATATTTAT-ATTTTAA-
1 TAATTTTTATAAATATTTATAACTTTAAT
85353783 TAATTTTTATAAAT-TTTATAACTTTAAT
1 TAATTTTTATAAATATTTATAACTTTAAT
*
85353811 TGATTTTTAT
1 TAATTTTTAT
85353821 TTTTATTTTT
Statistics
Matches: 32, Mismatches: 3, Indels: 4
0.82 0.08 0.10
Matches are distributed among these distances:
26 14 0.44
27 9 0.28
28 9 0.28
ACGTcount: A:0.36, C:0.02, G:0.02, T:0.61
Consensus pattern (29 bp):
TAATTTTTATAAATATTTATAACTTTAAT
Found at i:85356988 original size:31 final size:29
Alignment explanation
Indices: 85356948--85357010 Score: 81
Period size: 29 Copynumber: 2.1 Consensus size: 29
85356938 TTAACGTTAG
85356948 TTTTGGAATTCAATAAATTTTTTAGTTTGAT
1 TTTTGGAATTCAAT--ATTTTTTAGTTTGAT
* * *
85356979 TTTTTGAATTTAATATTTTTTAGTTTTAT
1 TTTTGGAATTCAATATTTTTTAGTTTGAT
85357008 TTT
1 TTT
85357011 ATCATATTAT
Statistics
Matches: 29, Mismatches: 3, Indels: 2
0.85 0.09 0.06
Matches are distributed among these distances:
29 17 0.59
31 12 0.41
ACGTcount: A:0.25, C:0.02, G:0.10, T:0.63
Consensus pattern (29 bp):
TTTTGGAATTCAATATTTTTTAGTTTGAT
Found at i:85359217 original size:161 final size:161
Alignment explanation
Indices: 85358952--85359283 Score: 657
Period size: 161 Copynumber: 2.1 Consensus size: 161
85358942 CATCCCATAA
85358952 ATTTTTCATGTCGTAACTCTCGGTTCCAAACATTAAATGACATGATCCTATAAGGTTAATAAAAT
1 ATTTTTCATGTCGTAACTCTCGGTTCCAAACATTAAATGACATGATCCTATAAGGTTAATAAAAT
85359017 CGCCATATCCATTATAAAAAAAAATAATAACAAAGAGTGACAAGAACAATCTTTGTCATATTAAA
66 CGCCATATCCATTATAAAAAAAAATAATAACAAAGAGTGACAAGAACAATCTTTGTCATATTAAA
85359082 CTTATTTTTGGTGACAAAAATGAAACATCAC
131 CTTATTTTTGGTGACAAAAATGAAACATCAC
85359113 ATTTTTCATGTCGTAACTCTCGGTTCCAAACATTAAATGACATGATCCTATAAGGTTAATAAAAT
1 ATTTTTCATGTCGTAACTCTCGGTTCCAAACATTAAATGACATGATCCTATAAGGTTAATAAAAT
85359178 CGCCATATCCATTATAAAAAAAAATAATAACAAAGAGTGACAAGAACAATCTTTGTCATATTAAA
66 CGCCATATCCATTATAAAAAAAAATAATAACAAAGAGTGACAAGAACAATCTTTGTCATATTAAA
85359243 CTTATTTTTGGTGACAAAAATGAAACATCAC
131 CTTATTTTTGGTGACAAAAATGAAACATCAC
85359274 ATTTTT-ATGT
1 ATTTTTCATGT
85359284 ATAATAAAGA
Statistics
Matches: 171, Mismatches: 0, Indels: 1
0.99 0.00 0.01
Matches are distributed among these distances:
160 4 0.02
161 167 0.98
ACGTcount: A:0.42, C:0.16, G:0.11, T:0.32
Consensus pattern (161 bp):
ATTTTTCATGTCGTAACTCTCGGTTCCAAACATTAAATGACATGATCCTATAAGGTTAATAAAAT
CGCCATATCCATTATAAAAAAAAATAATAACAAAGAGTGACAAGAACAATCTTTGTCATATTAAA
CTTATTTTTGGTGACAAAAATGAAACATCAC
Found at i:85362544 original size:21 final size:21
Alignment explanation
Indices: 85362518--85362558 Score: 64
Period size: 21 Copynumber: 2.0 Consensus size: 21
85362508 AGATGAGCGA
* *
85362518 TACTCCACAGCAGGTGGAGTG
1 TACTCCAAAACAGGTGGAGTG
85362539 TACTCCAAAACAGGTGGAGT
1 TACTCCAAAACAGGTGGAGT
85362559 TTGAGCAGAT
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
21 18 1.00
ACGTcount: A:0.29, C:0.22, G:0.29, T:0.20
Consensus pattern (21 bp):
TACTCCAAAACAGGTGGAGTG
Found at i:85365943 original size:43 final size:43
Alignment explanation
Indices: 85365882--85365967 Score: 154
Period size: 43 Copynumber: 2.0 Consensus size: 43
85365872 ATAATCTAAG
* *
85365882 CCAATATGCTAGTGAAACCTTGAATTTTCCCTCTTTCAGGTTA
1 CCAATATGCTAGTGAAACCATGAATTTTCCCTCCTTCAGGTTA
85365925 CCAATATGCTAGTGAAACCATGAATTTTCCCTCCTTCAGGTTA
1 CCAATATGCTAGTGAAACCATGAATTTTCCCTCCTTCAGGTTA
85365968 AGTGATCAGC
Statistics
Matches: 41, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
43 41 1.00
ACGTcount: A:0.27, C:0.24, G:0.14, T:0.35
Consensus pattern (43 bp):
CCAATATGCTAGTGAAACCATGAATTTTCCCTCCTTCAGGTTA
Found at i:85377044 original size:25 final size:24
Alignment explanation
Indices: 85376991--85377038 Score: 78
Period size: 25 Copynumber: 2.0 Consensus size: 24
85376981 TCTTATTTTT
*
85376991 AATTTTTTAAGTTTAACTTAAATA
1 AATTTTTTAAATTTAACTTAAATA
85377015 AATTTATTTAAATTTAACTTAAAT
1 AATTT-TTTAAATTTAACTTAAAT
85377039 TTATTTCACC
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:0.04, G:0.02, T:0.50
Consensus pattern (24 bp):
AATTTTTTAAATTTAACTTAAATA
Found at i:85379675 original size:15 final size:16
Alignment explanation
Indices: 85379645--85379677 Score: 50
Period size: 15 Copynumber: 2.1 Consensus size: 16
85379635 ATCCTCTTCC
*
85379645 TCTTCCCCTTTCCCTT
1 TCTTCCCCTCTCCCTT
85379661 TCTTCCCC-CTCCCTT
1 TCTTCCCCTCTCCCTT
85379676 TC
1 TC
85379678 CCCCTGTTCT
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
15 8 0.50
16 8 0.50
ACGTcount: A:0.00, C:0.55, G:0.00, T:0.45
Consensus pattern (16 bp):
TCTTCCCCTCTCCCTT
Found at i:85384112 original size:16 final size:16
Alignment explanation
Indices: 85384091--85384126 Score: 72
Period size: 16 Copynumber: 2.2 Consensus size: 16
85384081 TAACTCAGGA
85384091 GCTGCAGGAGTACATG
1 GCTGCAGGAGTACATG
85384107 GCTGCAGGAGTACATG
1 GCTGCAGGAGTACATG
85384123 GCTG
1 GCTG
85384127 TGATTTCTTA
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 20 1.00
ACGTcount: A:0.22, C:0.19, G:0.39, T:0.19
Consensus pattern (16 bp):
GCTGCAGGAGTACATG
Found at i:85384968 original size:120 final size:120
Alignment explanation
Indices: 85384842--85385131 Score: 476
Period size: 120 Copynumber: 2.4 Consensus size: 120
85384832 AATTATTTTA
* *
85384842 AATTTTATTAAATCATATATTTTAATTAAAATATATTTAATATTAATTATTTCAAATTT-TCTTT
1 AATTTTATTAAATTATATATTTTAATTAAAATATATTTAATATTAATTATTT-AAATTTATATTT
* *
85384906 TATAGCATCATATATTATGATTTGAGTAAATTCATATAAGACTATTAATTATTAAG
65 TACAGCATCATATATTATGATTTGAGTAAATTCATATAAGAATATTAATTATTAAG
* *
85384962 AATTTTATTAAATTATATATTTTAATTATAATATATTTAATAATT-ATTATTTTAATTTATATTT
1 AATTTTATTAAATTATATATTTTAATTAAAATATATTTAAT-ATTAATTATTTAAATTTATATTT
*
85385026 TACAGTATCATATATTATGATTTGAGTAAATTCATATAAGAATATTAATTATTAAG
65 TACAGCATCATATATTATGATTTGAGTAAATTCATATAAGAATATTAATTATTAAG
*
85385082 AATTTTATTAAATTATATATTTTAATTAAAATATATTTAATAATAATTAT
1 AATTTTATTAAATTATATATTTTAATTAAAATATATTTAATATTAATTAT
85385132 GTTTAAATAT
Statistics
Matches: 158, Mismatches: 9, Indels: 6
0.91 0.05 0.03
Matches are distributed among these distances:
119 7 0.04
120 148 0.94
121 3 0.02
ACGTcount: A:0.42, C:0.03, G:0.04, T:0.50
Consensus pattern (120 bp):
AATTTTATTAAATTATATATTTTAATTAAAATATATTTAATATTAATTATTTAAATTTATATTTT
ACAGCATCATATATTATGATTTGAGTAAATTCATATAAGAATATTAATTATTAAG
Found at i:85385024 original size:15 final size:14
Alignment explanation
Indices: 85384972--85385027 Score: 55
Period size: 15 Copynumber: 4.1 Consensus size: 14
85384962 AATTTTATTA
85384972 AATTATA-TATTTT
1 AATTATATTATTTT
*
85384985 AATTATAATATATTT
1 AATTATATTAT-TTT
*
85385000 AATAATTATTATTTT
1 AATTA-TATTATTTT
85385015 AATT-TA-TATTTT
1 AATTATATTATTTT
85385027 A
1 A
85385028 CAGTATCATA
Statistics
Matches: 37, Mismatches: 3, Indels: 7
0.79 0.06 0.15
Matches are distributed among these distances:
12 7 0.19
13 9 0.24
14 3 0.08
15 13 0.35
16 5 0.14
ACGTcount: A:0.41, C:0.00, G:0.00, T:0.59
Consensus pattern (14 bp):
AATTATATTATTTT
Found at i:85385088 original size:61 final size:61
Alignment explanation
Indices: 85384903--85385102 Score: 175
Period size: 61 Copynumber: 3.3 Consensus size: 61
85384893 TCAAATTTTC
* *
85384903 TTTTATAGCATCATATATTATGATTTGAGTAAATTCATATAAGACTATTAATTATTAAGAA
1 TTTTATAGAATCATATATTATGATTTGAGTAAATTCATATAAGAATATTAATTATTAAGAA
* * * * * *
85384964 TTTTATTA-AATTATATATT-TTAATT-A-T-AATAT-ATTTAATAATTATT-ATT-TTAATTTA
1 TTTTA-TAGAATCATATATTATGATTTGAGTAAAT-TCATATAAGAA-TATTAATTATTAA--GA
85385021 TA
61 -A
* *
85385023 TTTTACAGTATCATATATTATGATTTGAGTAAATTCATATAAGAATATTAATTATTAAGAA
1 TTTTATAGAATCATATATTATGATTTGAGTAAATTCATATAAGAATATTAATTATTAAGAA
*
85385084 TTTTATTA-AATTATATATT
1 TTTTA-TAGAATCATATATT
85385103 TTAATTAAAA
Statistics
Matches: 105, Mismatches: 19, Indels: 30
0.68 0.12 0.19
Matches are distributed among these distances:
56 4 0.04
57 12 0.11
58 8 0.08
59 16 0.15
60 8 0.08
61 30 0.29
62 10 0.10
63 13 0.12
64 4 0.04
ACGTcount: A:0.41, C:0.04, G:0.06, T:0.49
Consensus pattern (61 bp):
TTTTATAGAATCATATATTATGATTTGAGTAAATTCATATAAGAATATTAATTATTAAGAA
Found at i:85385111 original size:18 final size:17
Alignment explanation
Indices: 85385083--85385117 Score: 52
Period size: 18 Copynumber: 2.0 Consensus size: 17
85385073 ATTATTAAGA
*
85385083 ATTTTATTAAATTATAT
1 ATTTTATTAAAATATAT
85385100 ATTTTAATTAAAATATAT
1 ATTTT-ATTAAAATATAT
85385118 TTAATAATAA
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
17 5 0.31
18 11 0.69
ACGTcount: A:0.46, C:0.00, G:0.00, T:0.54
Consensus pattern (17 bp):
ATTTTATTAAAATATAT
Found at i:85385231 original size:147 final size:149
Alignment explanation
Indices: 85385071--85385345 Score: 509
Period size: 147 Copynumber: 1.9 Consensus size: 149
85385061 ATAAGAATAT
*
85385071 TAATTATTAAGAATTTTATTAAATTATATATTTTAATTAAAATATATTTAATAATAATTATGTTT
1 TAATTATTAAGAATTTTATTAAATTATATATTTTAATTAAAATATATTAAATAATAATTATGTTT
*
85385136 AAATATGATTAAATTATTTATTATTGAT-ATTAATAATCTTATTAAAATTTAAATAA-AATAATT
66 AAATATGATTAAATTATTTATTATTGATAATAAATAATCTTATTAAAATTTAAATAACAATAATT
85385199 TACCAAAACAAATTTCTGC
131 TACCAAAACAAATTTCTGC
85385218 TAATTATTAAGAATTTTATTAAATTATATATTTTAATTAAAATATATTAAATAATAATTATGTTT
1 TAATTATTAAGAATTTTATTAAATTATATATTTTAATTAAAATATATTAAATAATAATTATGTTT
*
85385283 AAATATGATTAAATTATTTATTTTTGATAATAAATAATCTTATTAAAATTTAAATAACAATAA
66 AAATATGATTAAATTATTTATTATTGATAATAAATAATCTTATTAAAATTTAAATAACAATAA
85385346 CAATAATCAT
Statistics
Matches: 123, Mismatches: 3, Indels: 2
0.96 0.02 0.02
Matches are distributed among these distances:
147 91 0.74
148 27 0.22
149 5 0.04
ACGTcount: A:0.47, C:0.03, G:0.03, T:0.47
Consensus pattern (149 bp):
TAATTATTAAGAATTTTATTAAATTATATATTTTAATTAAAATATATTAAATAATAATTATGTTT
AAATATGATTAAATTATTTATTATTGATAATAAATAATCTTATTAAAATTTAAATAACAATAATT
TACCAAAACAAATTTCTGC
Found at i:85385258 original size:18 final size:17
Alignment explanation
Indices: 85385230--85385264 Score: 52
Period size: 18 Copynumber: 2.0 Consensus size: 17
85385220 ATTATTAAGA
*
85385230 ATTTTATTAAATTATAT
1 ATTTTATTAAAATATAT
85385247 ATTTTAATTAAAATATAT
1 ATTTT-ATTAAAATATAT
85385265 TAAATAATAA
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
17 5 0.31
18 11 0.69
ACGTcount: A:0.46, C:0.00, G:0.00, T:0.54
Consensus pattern (17 bp):
ATTTTATTAAAATATAT
Found at i:85385475 original size:44 final size:45
Alignment explanation
Indices: 85385426--85385520 Score: 129
Period size: 45 Copynumber: 2.1 Consensus size: 45
85385416 TTACACCTCT
* * *
85385426 ATTACATTCAACCAAACA-CAGTTTTACTATTACGCCTCTATTCC
1 ATTACATTCAACCAAACAGCAGATTTACTATTACACATCTATTCC
** *
85385470 ATTACATTCAACCAAACAGTTGATTTGCTATTACACATCTATTCC
1 ATTACATTCAACCAAACAGCAGATTTACTATTACACATCTATTCC
85385515 ATTACA
1 ATTACA
85385521 CCTCTAATCC
Statistics
Matches: 44, Mismatches: 6, Indels: 1
0.86 0.12 0.02
Matches are distributed among these distances:
44 18 0.41
45 26 0.59
ACGTcount: A:0.34, C:0.26, G:0.05, T:0.35
Consensus pattern (45 bp):
ATTACATTCAACCAAACAGCAGATTTACTATTACACATCTATTCC
Found at i:85385520 original size:16 final size:16
Alignment explanation
Indices: 85385501--85385552 Score: 77
Period size: 16 Copynumber: 3.2 Consensus size: 16
85385491 GATTTGCTAT
* * *
85385501 TACACATCTATTCCAT
1 TACACCTCTAATCCAA
85385517 TACACCTCTAATCCAA
1 TACACCTCTAATCCAA
85385533 TACACCTCTAATCCAA
1 TACACCTCTAATCCAA
85385549 TACA
1 TACA
85385553 GCGAACCAAA
Statistics
Matches: 33, Mismatches: 3, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
16 33 1.00
ACGTcount: A:0.37, C:0.35, G:0.00, T:0.29
Consensus pattern (16 bp):
TACACCTCTAATCCAA
Found at i:85386471 original size:16 final size:18
Alignment explanation
Indices: 85386444--85386477 Score: 54
Period size: 17 Copynumber: 2.0 Consensus size: 18
85386434 TTAGATTTGG
85386444 ATTGAGAAAATT-ATTTA
1 ATTGAGAAAATTAATTTA
85386461 ATTGA-AAAATTAATTTA
1 ATTGAGAAAATTAATTTA
85386478 TCTAATTAAA
Statistics
Matches: 16, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
16 6 0.38
17 10 0.62
ACGTcount: A:0.50, C:0.00, G:0.09, T:0.41
Consensus pattern (18 bp):
ATTGAGAAAATTAATTTA
Found at i:85386490 original size:18 final size:17
Alignment explanation
Indices: 85386467--85386503 Score: 56
Period size: 18 Copynumber: 2.1 Consensus size: 17
85386457 TTTAATTGAA
*
85386467 AAATTAATTTATCTAATT
1 AAATTAATTGAT-TAATT
85386485 AAATTAATTGATTAATT
1 AAATTAATTGATTAATT
85386502 AA
1 AA
85386504 TATTTATTTT
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
17 7 0.39
18 11 0.61
ACGTcount: A:0.49, C:0.03, G:0.03, T:0.46
Consensus pattern (17 bp):
AAATTAATTGATTAATT
Found at i:85388035 original size:27 final size:28
Alignment explanation
Indices: 85388005--85388080 Score: 86
Period size: 27 Copynumber: 2.8 Consensus size: 28
85387995 CAAGAGAATC
* *
85388005 TATTAGAATACACCACAAAGGCTT-TCT
1 TATTAGAATACGCCACAAAGGCTTCCCT
*
85388032 TATT-GAATACGCCATAAAAGGCTTCCCT
1 TATTAGAATACGCCA-CAAAGGCTTCCCT
*
85388060 TA-TAGAATACGCTACAAAGGC
1 TATTAGAATACGCCACAAAGGC
85388081 AGTCCTTAAG
Statistics
Matches: 41, Mismatches: 5, Indels: 6
0.79 0.10 0.12
Matches are distributed among these distances:
26 9 0.22
27 19 0.46
28 13 0.32
ACGTcount: A:0.37, C:0.22, G:0.14, T:0.26
Consensus pattern (28 bp):
TATTAGAATACGCCACAAAGGCTTCCCT
Found at i:85388179 original size:27 final size:27
Alignment explanation
Indices: 85388134--85388212 Score: 97
Period size: 27 Copynumber: 2.9 Consensus size: 27
85388124 CCATAAAGGT
85388134 TTCCTTTTTCATAGATCGCCACAAAAAA
1 TTCC-TTTTCATAGATCGCCACAAAAAA
* ***
85388162 TT-CTTTATCATAGGTCGCCACAAAGGC
1 TTCCTTT-TCATAGATCGCCACAAAAAA
85388189 TTCCTTTTCATAGATCGCCACAAA
1 TTCCTTTTCATAGATCGCCACAAA
85388213 TTCTTTCTTT
Statistics
Matches: 44, Mismatches: 5, Indels: 5
0.81 0.09 0.09
Matches are distributed among these distances:
26 3 0.07
27 35 0.80
28 6 0.14
ACGTcount: A:0.30, C:0.27, G:0.11, T:0.32
Consensus pattern (27 bp):
TTCCTTTTCATAGATCGCCACAAAAAA
Found at i:85388222 original size:27 final size:26
Alignment explanation
Indices: 85388139--85388223 Score: 89
Period size: 27 Copynumber: 3.2 Consensus size: 26
85388129 AAGGTTTCCT
**
85388139 TTTTCATAGATCGCCACAAAAAATTC
1 TTTTCATAGATCGCCACAAAACTTTC
* * *
85388165 TTTATCATAGGTCGCCACAAAGGCTTCC
1 TTT-TCATAGATCGCCACAAA-ACTTTC
*
85388193 TTTTCATAGATCGCCACAAATTCTTTC
1 TTTTCATAGATCGCCACAAA-ACTTTC
85388220 TTTT
1 TTTT
85388224 TCTAGCGTGT
Statistics
Matches: 48, Mismatches: 9, Indels: 3
0.80 0.15 0.05
Matches are distributed among these distances:
26 3 0.06
27 40 0.83
28 5 0.10
ACGTcount: A:0.28, C:0.25, G:0.11, T:0.36
Consensus pattern (26 bp):
TTTTCATAGATCGCCACAAAACTTTC
Found at i:85393719 original size:26 final size:26
Alignment explanation
Indices: 85393681--85393738 Score: 62
Period size: 26 Copynumber: 2.2 Consensus size: 26
85393671 CCTAACAAAT
* *
85393681 TTTTGACGATTTTACACATGGTAAAA
1 TTTTGACCATTTTACACATAGTAAAA
* * * *
85393707 TTTTGACCTTTTTGCCCCTAGTAAAA
1 TTTTGACCATTTTACACATAGTAAAA
85393733 TTTTGA
1 TTTTGA
85393739 GAAAATATGT
Statistics
Matches: 26, Mismatches: 6, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
26 26 1.00
ACGTcount: A:0.28, C:0.16, G:0.14, T:0.43
Consensus pattern (26 bp):
TTTTGACCATTTTACACATAGTAAAA
Found at i:85395365 original size:24 final size:24
Alignment explanation
Indices: 85395333--85395382 Score: 100
Period size: 24 Copynumber: 2.1 Consensus size: 24
85395323 TCCCGAATAG
85395333 TTTGACAATGATGGTTTTCACAAT
1 TTTGACAATGATGGTTTTCACAAT
85395357 TTTGACAATGATGGTTTTCACAAT
1 TTTGACAATGATGGTTTTCACAAT
85395381 TT
1 TT
85395383 ACTTATCCTA
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
24 26 1.00
ACGTcount: A:0.28, C:0.12, G:0.16, T:0.44
Consensus pattern (24 bp):
TTTGACAATGATGGTTTTCACAAT
Found at i:85396207 original size:17 final size:18
Alignment explanation
Indices: 85396187--85396232 Score: 51
Period size: 17 Copynumber: 2.6 Consensus size: 18
85396177 CTCAAATTAA
85396187 TAAATTAATTTTCCAAT-
1 TAAATTAATTTTCCAATC
*
85396204 TAAA-TAATCTTTTCAATC
1 TAAATTAAT-TTTCCAATC
85396222 TAAATCTAATT
1 TAAAT-TAATT
85396233 CAGTTGAAAT
Statistics
Matches: 24, Mismatches: 1, Indels: 6
0.77 0.03 0.19
Matches are distributed among these distances:
16 4 0.17
17 11 0.46
18 4 0.17
19 1 0.04
20 4 0.17
ACGTcount: A:0.41, C:0.13, G:0.00, T:0.46
Consensus pattern (18 bp):
TAAATTAATTTTCCAATC
Found at i:85396877 original size:4 final size:4
Alignment explanation
Indices: 85396868--85396902 Score: 70
Period size: 4 Copynumber: 8.8 Consensus size: 4
85396858 AGCAAACGTG
85396868 AGAA AGAA AGAA AGAA AGAA AGAA AGAA AGAA AGA
1 AGAA AGAA AGAA AGAA AGAA AGAA AGAA AGAA AGA
85396903 GAAAAGGGAA
Statistics
Matches: 31, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
4 31 1.00
ACGTcount: A:0.74, C:0.00, G:0.26, T:0.00
Consensus pattern (4 bp):
AGAA
Found at i:85402178 original size:58 final size:56
Alignment explanation
Indices: 85402114--85402290 Score: 293
Period size: 58 Copynumber: 3.1 Consensus size: 56
85402104 ATTTAAAGTA
85402114 ATAAATTGATTTTATTAAAAAATTTTGATTTTAATTAAAAAAACATAATAATTAAATG
1 ATAAATTGATTTTATTAAAAAATTTTGATTTTAATT--AAAAACATAATAATTAAATG
*
85402172 ATAAATTGATTTTATTAAAAAATTTTGATTTTAATTAAAAA-ATAAAAATTAAATG
1 ATAAATTGATTTTATTAAAAAATTTTGATTTTAATTAAAAACATAATAATTAAATG
*
85402227 ATAAAAATTGATTTTATTAAAAAATTTTGATTTTAATTAAAAACATAATAATTAAATA
1 AT--AAATTGATTTTATTAAAAAATTTTGATTTTAATTAAAAACATAATAATTAAATG
85402285 ATAAAT
1 ATAAAT
85402291 CAATTTAAAG
Statistics
Matches: 113, Mismatches: 3, Indels: 8
0.91 0.02 0.06
Matches are distributed among these distances:
55 15 0.13
56 9 0.08
57 39 0.35
58 50 0.44
ACGTcount: A:0.53, C:0.01, G:0.05, T:0.41
Consensus pattern (56 bp):
ATAAATTGATTTTATTAAAAAATTTTGATTTTAATTAAAAACATAATAATTAAATG
Found at i:85402520 original size:42 final size:41
Alignment explanation
Indices: 85402448--85402534 Score: 131
Period size: 42 Copynumber: 2.1 Consensus size: 41
85402438 GATTTTTAAG
*
85402448 AAAAGGGATTTAAAGTAATGAATAGGATTTAAA-AATAATAA
1 AAAAGGGATTTAAAGTAATGAATAGAATTTAAATAA-AATAA
*
85402489 AAAATGGGATTTAAAGTAATGGATAGAATTTAAATAAAATAA
1 AAAA-GGGATTTAAAGTAATGAATAGAATTTAAATAAAATAA
85402531 AAAA
1 AAAA
85402535 AGATGGCTGA
Statistics
Matches: 42, Mismatches: 2, Indels: 3
0.89 0.04 0.06
Matches are distributed among these distances:
41 4 0.10
42 36 0.86
43 2 0.05
ACGTcount: A:0.57, C:0.00, G:0.16, T:0.26
Consensus pattern (41 bp):
AAAAGGGATTTAAAGTAATGAATAGAATTTAAATAAAATAA
Found at i:85406175 original size:42 final size:42
Alignment explanation
Indices: 85406090--85406206 Score: 137
Period size: 42 Copynumber: 2.7 Consensus size: 42
85406080 GTTTGGGATG
* * *
85406090 TTGGCATCG-ACTTATGATTTACATATAAGACCATGTCTGGGACA
1 TTGGCATCGTA-TT-TGATTT-CATGTAAGACCCTGTCTTGGACA
*
85406134 TTGGCATCGTATTTGATTTCGTGTAAGACCCTGTCTTGGACA
1 TTGGCATCGTATTTGATTTCATGTAAGACCCTGTCTTGGACA
* *
85406176 GTGGCATCGATATTTGATTACATGTAAGACC
1 TTGGCATCG-TATTTGATTTCATGTAAGACC
85406207 ACGTATGGGA
Statistics
Matches: 64, Mismatches: 7, Indels: 5
0.84 0.09 0.07
Matches are distributed among these distances:
42 27 0.42
43 25 0.39
44 11 0.17
45 1 0.02
ACGTcount: A:0.26, C:0.18, G:0.22, T:0.34
Consensus pattern (42 bp):
TTGGCATCGTATTTGATTTCATGTAAGACCCTGTCTTGGACA
Found at i:85406190 original size:43 final size:42
Alignment explanation
Indices: 85406069--85406225 Score: 140
Period size: 43 Copynumber: 3.7 Consensus size: 42
85406059 TGTGTTTTCG
* * *
85406069 TGTAAGACCACGTTTGGGA-TGTTGGCATCG-ACTTATGATTTACA
1 TGTAAGACCATGTCTGGGACAG-TGGCATCGTA-TT-TGA-TTACA
* * * *
85406113 TATAAGACCATGTCTGGGACATTGGCATCGTATTTGATTTCG
1 TGTAAGACCATGTCTGGGACAGTGGCATCGTATTTGATTACA
* *
85406155 TGTAAGACCCTGTCTTGGACAGTGGCATCGATATTTGATTACA
1 TGTAAGACCATGTCTGGGACAGTGGCATCG-TATTTGATTACA
* *
85406198 TGTAAGACCACGTATGGGAC-GTTGGCAT
1 TGTAAGACCATGTCTGGGACAG-TGGCAT
85406226 TGTACAAGCT
Statistics
Matches: 92, Mismatches: 17, Indels: 9
0.78 0.14 0.08
Matches are distributed among these distances:
42 30 0.33
43 35 0.38
44 26 0.28
45 1 0.01
ACGTcount: A:0.25, C:0.17, G:0.25, T:0.32
Consensus pattern (42 bp):
TGTAAGACCATGTCTGGGACAGTGGCATCGTATTTGATTACA
Found at i:85408481 original size:27 final size:27
Alignment explanation
Indices: 85408451--85408628 Score: 115
Period size: 27 Copynumber: 6.6 Consensus size: 27
85408441 ATATTGAGCC
* * *
85408451 CGCACACTCAGTGCTATACAATCAACT
1 CGCACACTTAGTGCTACACAATCAAAT
* **
85408478 CGCACACTTAGTGCCACGTAATCAAAT
1 CGCACACTTAGTGCTACACAATCAAAT
* * * *
85408505 CGCACACTTAGTGCTACATAGTTAGACT
1 CGCACACTTAGTGCTACACAATCA-AAT
** *** *
85408533 CGCACACTTAGTGCCGCATGGTCAATT
1 CGCACACTTAGTGCTACACAATCAAAT
* * **
85408560 CGCACACTTAGTGC-ATCATATTCATTT
1 CGCACACTTAGTGCTA-CACAATCAAAT
* * * *
85408587 CGCACACTTAGTGCAACATAGTCGAAT
1 CGCACACTTAGTGCTACACAATCAAAT
85408614 CGCACACTTAGTGCT
1 CGCACACTTAGTGCT
85408629 GTACAATTTA
Statistics
Matches: 123, Mismatches: 25, Indels: 6
0.80 0.16 0.04
Matches are distributed among these distances:
27 100 0.81
28 23 0.19
ACGTcount: A:0.29, C:0.29, G:0.16, T:0.26
Consensus pattern (27 bp):
CGCACACTTAGTGCTACACAATCAAAT
Found at i:85408544 original size:55 final size:55
Alignment explanation
Indices: 85408451--85408628 Score: 204
Period size: 54 Copynumber: 3.3 Consensus size: 55
85408441 ATATTGAGCC
* * *
85408451 CGCACACTCAGTGCTATACA-A-TCAACTCGCACACTTAGTGCCACGTAATCAAAT
1 CGCACACTTAGTGCTAT-CATATTCAACTCGCACACTTAGTGCCACATAGTCAAAT
* * *
85408505 CGCACACTTAGTGCTA-CATAGTT-AGACTCGCACACTTAGTGCCGCATGGTCAATT
1 CGCACACTTAGTGCTATCATA-TTCA-ACTCGCACACTTAGTGCCACATAGTCAAAT
** * *
85408560 CGCACACTTAGTGC-ATCATATTCATTTCGCACACTTAGTGCAACATAGTCGAAT
1 CGCACACTTAGTGCTATCATATTCAACTCGCACACTTAGTGCCACATAGTCAAAT
85408614 CGCACACTTAGTGCT
1 CGCACACTTAGTGCT
85408629 GTACAATTTA
Statistics
Matches: 104, Mismatches: 13, Indels: 13
0.80 0.10 0.10
Matches are distributed among these distances:
52 2 0.02
53 1 0.01
54 56 0.54
55 45 0.43
ACGTcount: A:0.29, C:0.29, G:0.16, T:0.26
Consensus pattern (55 bp):
CGCACACTTAGTGCTATCATATTCAACTCGCACACTTAGTGCCACATAGTCAAAT
Found at i:85408590 original size:82 final size:81
Alignment explanation
Indices: 85408472--85408627 Score: 215
Period size: 82 Copynumber: 1.9 Consensus size: 81
85408462 TGCTATACAA
* * *
85408472 TCAACTCGCACACTTAGTGCCACGTAATCAAATCGCACACTTAGTGCTACATAGTTAGACTCGCA
1 TCAACTCGCACACTTAGTGCCACATAATCAAATCGCACACTTAGTGCAACATAG-TAGAATCGCA
85408537 CACTTAGTGCCGCATGG
65 CACTTAGTGCCGCATGG
* * ** *
85408554 TCAATTCGCACACTTAGTG-CATCATATTCATTTCGCACACTTAGTGCAACATAGTCGAATCGCA
1 TCAACTCGCACACTTAGTGCCA-CATAATCAAATCGCACACTTAGTGCAACATAGTAGAATCGCA
85408618 CACTTAGTGC
65 CACTTAGTGC
85408628 TGTACAATTT
Statistics
Matches: 65, Mismatches: 8, Indels: 3
0.86 0.11 0.04
Matches are distributed among these distances:
81 20 0.31
82 45 0.69
ACGTcount: A:0.28, C:0.28, G:0.17, T:0.27
Consensus pattern (81 bp):
TCAACTCGCACACTTAGTGCCACATAATCAAATCGCACACTTAGTGCAACATAGTAGAATCGCAC
ACTTAGTGCCGCATGG
Found at i:85416543 original size:27 final size:27
Alignment explanation
Indices: 85416513--85416690 Score: 115
Period size: 27 Copynumber: 6.6 Consensus size: 27
85416503 ATATTGAGCC
* * *
85416513 CGCACACTCAGTGCTATACAATCAACT
1 CGCACACTTAGTGCTACACAATCAAAT
* **
85416540 CGCACACTTAGTGCCACGTAATCAAAT
1 CGCACACTTAGTGCTACACAATCAAAT
* * * *
85416567 CGCACACTTAGTGCTACATAGTTAGACT
1 CGCACACTTAGTGCTACACAATCA-AAT
** *** *
85416595 CGCACACTTAGTGCCGCATGGTCAATT
1 CGCACACTTAGTGCTACACAATCAAAT
* * **
85416622 CGCACACTTAGTGC-ATCATATTCATTT
1 CGCACACTTAGTGCTA-CACAATCAAAT
* * * *
85416649 CGCACACTTAGTGCAACATAGTCGAAT
1 CGCACACTTAGTGCTACACAATCAAAT
85416676 CGCACACTTAGTGCT
1 CGCACACTTAGTGCT
85416691 GTACAATTTA
Statistics
Matches: 123, Mismatches: 25, Indels: 6
0.80 0.16 0.04
Matches are distributed among these distances:
27 100 0.81
28 23 0.19
ACGTcount: A:0.29, C:0.29, G:0.16, T:0.26
Consensus pattern (27 bp):
CGCACACTTAGTGCTACACAATCAAAT
Found at i:85416606 original size:55 final size:55
Alignment explanation
Indices: 85416513--85416690 Score: 204
Period size: 54 Copynumber: 3.3 Consensus size: 55
85416503 ATATTGAGCC
* * *
85416513 CGCACACTCAGTGCTATACA-A-TCAACTCGCACACTTAGTGCCACGTAATCAAAT
1 CGCACACTTAGTGCTAT-CATATTCAACTCGCACACTTAGTGCCACATAGTCAAAT
* * *
85416567 CGCACACTTAGTGCTA-CATAGTT-AGACTCGCACACTTAGTGCCGCATGGTCAATT
1 CGCACACTTAGTGCTATCATA-TTCA-ACTCGCACACTTAGTGCCACATAGTCAAAT
** * *
85416622 CGCACACTTAGTGC-ATCATATTCATTTCGCACACTTAGTGCAACATAGTCGAAT
1 CGCACACTTAGTGCTATCATATTCAACTCGCACACTTAGTGCCACATAGTCAAAT
85416676 CGCACACTTAGTGCT
1 CGCACACTTAGTGCT
85416691 GTACAATTTA
Statistics
Matches: 104, Mismatches: 13, Indels: 13
0.80 0.10 0.10
Matches are distributed among these distances:
52 2 0.02
53 1 0.01
54 56 0.54
55 45 0.43
ACGTcount: A:0.29, C:0.29, G:0.16, T:0.26
Consensus pattern (55 bp):
CGCACACTTAGTGCTATCATATTCAACTCGCACACTTAGTGCCACATAGTCAAAT
Found at i:85416652 original size:82 final size:81
Alignment explanation
Indices: 85416534--85416689 Score: 215
Period size: 82 Copynumber: 1.9 Consensus size: 81
85416524 TGCTATACAA
* * *
85416534 TCAACTCGCACACTTAGTGCCACGTAATCAAATCGCACACTTAGTGCTACATAGTTAGACTCGCA
1 TCAACTCGCACACTTAGTGCCACATAATCAAATCGCACACTTAGTGCAACATAG-TAGAATCGCA
85416599 CACTTAGTGCCGCATGG
65 CACTTAGTGCCGCATGG
* * ** *
85416616 TCAATTCGCACACTTAGTG-CATCATATTCATTTCGCACACTTAGTGCAACATAGTCGAATCGCA
1 TCAACTCGCACACTTAGTGCCA-CATAATCAAATCGCACACTTAGTGCAACATAGTAGAATCGCA
85416680 CACTTAGTGC
65 CACTTAGTGC
85416690 TGTACAATTT
Statistics
Matches: 65, Mismatches: 8, Indels: 3
0.86 0.11 0.04
Matches are distributed among these distances:
81 20 0.31
82 45 0.69
ACGTcount: A:0.28, C:0.28, G:0.17, T:0.27
Consensus pattern (81 bp):
TCAACTCGCACACTTAGTGCCACATAATCAAATCGCACACTTAGTGCAACATAGTAGAATCGCAC
ACTTAGTGCCGCATGG
Found at i:85420675 original size:46 final size:46
Alignment explanation
Indices: 85420588--85420901 Score: 398
Period size: 46 Copynumber: 6.8 Consensus size: 46
85420578 TTGACATGAC
* * * * *
85420588 GCCATAGTGTCTTTCAACTATGGTCTTACTCATTTTC-TGTCATGTT
1 GCCATGGTATCTTTCAACCATGGTCTTATTCA-TTTCATGTCACGTT
*
85420634 ACCATGGTATCTTTCAACCATGGTCTTATTC-TATTCATGTCACGTT
1 GCCATGGTATCTTTCAACCATGGTCTTATTCAT-TTCATGTCACGTT
* * **
85420680 GTCATGGTATCTTTCAACCATAGTCTTATTCATTTCATGTCACACT
1 GCCATGGTATCTTTCAACCATGGTCTTATTCATTTCATGTCACGTT
* ** *
85420726 GCCATGGTATCTTTCAACCATGGTCTTCTTCATTTCCCGTCATGTT
1 GCCATGGTATCTTTCAACCATGGTCTTATTCATTTCATGTCACGTT
* * *
85420772 GCCATGGTATCTCTCAACTATGGTCTTATTCTTTTCATGTCACGTT
1 GCCATGGTATCTTTCAACCATGGTCTTATTCATTTCATGTCACGTT
* * *
85420818 GCCATGGTATCTTTCAACCATGGTCTTATACATTTCATATCATGTT
1 GCCATGGTATCTTTCAACCATGGTCTTATTCATTTCATGTCACGTT
**
85420864 GCCATGGTATCTTTCAACCATGGTCTTACACATTTCAT
1 GCCATGGTATCTTTCAACCATGGTCTTATTCATTTCAT
85420902 TTCAGAGAGC
Statistics
Matches: 232, Mismatches: 33, Indels: 6
0.86 0.12 0.02
Matches are distributed among these distances:
44 1 0.00
45 3 0.01
46 227 0.98
47 1 0.00
ACGTcount: A:0.20, C:0.24, G:0.14, T:0.42
Consensus pattern (46 bp):
GCCATGGTATCTTTCAACCATGGTCTTATTCATTTCATGTCACGTT
Found at i:85420836 original size:138 final size:138
Alignment explanation
Indices: 85420588--85420899 Score: 455
Period size: 138 Copynumber: 2.3 Consensus size: 138
85420578 TTGACATGAC
* * * * * *
85420588 GCCATAGTGTCTTTCAACTATGGTCTTACTCATTTTCTGTCATGTTACCATGGTATCTTTCAACC
1 GCCATGGTATCTTTCAACCATGGTCTTACTCATTTCCCGTCATGTTACCATGGTATCTCTCAACC
* *
85420653 ATGGTCTTATTCTATTCATGTCACGTTGTCATGGTATCTTTCAACCATAGTCTTATTCATTTCAT
66 ATGGTCTTATTCTATTCATGTCACGTTGCCATGGTATCTTTCAACCATAGTCTTATACATTTCAT
*
85420718 GTCACACT
131 ATCACACT
*
85420726 GCCATGGTATCTTTCAACCATGGTCTT-CTTCATTTCCCGTCATGTTGCCATGGTATCTCTCAAC
1 GCCATGGTATCTTTCAACCATGGTCTTAC-TCATTTCCCGTCATGTTACCATGGTATCTCTCAAC
* * *
85420790 TATGGTCTTATTCTTTTCATGTCACGTTGCCATGGTATCTTTCAACCATGGTCTTATACATTTCA
65 CATGGTCTTATTCTATTCATGTCACGTTGCCATGGTATCTTTCAACCATAGTCTTATACATTTCA
***
85420855 TATCATGTT
130 TATCACACT
*
85420864 GCCATGGTATCTTTCAACCATGGTCTTACACATTTC
1 GCCATGGTATCTTTCAACCATGGTCTTACTCATTTC
85420900 ATTTCAGAGA
Statistics
Matches: 155, Mismatches: 17, Indels: 4
0.88 0.10 0.02
Matches are distributed among these distances:
137 1 0.01
138 153 0.99
139 1 0.01
ACGTcount: A:0.20, C:0.24, G:0.14, T:0.42
Consensus pattern (138 bp):
GCCATGGTATCTTTCAACCATGGTCTTACTCATTTCCCGTCATGTTACCATGGTATCTCTCAACC
ATGGTCTTATTCTATTCATGTCACGTTGCCATGGTATCTTTCAACCATAGTCTTATACATTTCAT
ATCACACT
Found at i:85421905 original size:26 final size:27
Alignment explanation
Indices: 85421872--85421923 Score: 88
Period size: 28 Copynumber: 1.9 Consensus size: 27
85421862 TCCTCAAAAA
85421872 AAAAACCTAA-CCCCCCAAAAAAAAGG
1 AAAAACCTAACCCCCCCAAAAAAAAGG
85421898 AAAAACCTAACCCCCCCCAAAAAAAA
1 AAAAACCTAA-CCCCCCCAAAAAAAA
85421924 CCAAGAAACC
Statistics
Matches: 24, Mismatches: 0, Indels: 2
0.92 0.00 0.08
Matches are distributed among these distances:
26 10 0.42
28 14 0.58
ACGTcount: A:0.58, C:0.35, G:0.04, T:0.04
Consensus pattern (27 bp):
AAAAACCTAACCCCCCCAAAAAAAAGG
Found at i:85424477 original size:12 final size:12
Alignment explanation
Indices: 85424460--85424495 Score: 54
Period size: 12 Copynumber: 3.0 Consensus size: 12
85424450 ATTCATTTGA
85424460 CATTCATGCATT
1 CATTCATGCATT
*
85424472 CATTCATGCATC
1 CATTCATGCATT
*
85424484 CATTCATTCATT
1 CATTCATGCATT
85424496 GCATATCCCA
Statistics
Matches: 21, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
12 21 1.00
ACGTcount: A:0.25, C:0.28, G:0.06, T:0.42
Consensus pattern (12 bp):
CATTCATGCATT
Found at i:85424489 original size:16 final size:17
Alignment explanation
Indices: 85424468--85424499 Score: 57
Period size: 16 Copynumber: 1.9 Consensus size: 17
85424458 GACATTCATG
85424468 CATTCATTCA-TGCATC
1 CATTCATTCATTGCATC
85424484 CATTCATTCATTGCAT
1 CATTCATTCATTGCAT
85424500 ATCCCATACT
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
16 10 0.67
17 5 0.33
ACGTcount: A:0.25, C:0.28, G:0.06, T:0.41
Consensus pattern (17 bp):
CATTCATTCATTGCATC
Found at i:85432686 original size:130 final size:131
Alignment explanation
Indices: 85432452--85432841 Score: 621
Period size: 130 Copynumber: 3.0 Consensus size: 131
85432442 TTTAATTTTC
* * *
85432452 AAAAAATCAACTCATATTGCGAGAGATGAGTTGAGCCTC-GACACGTTGAGGTATTTTAATTTTT
1 AAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCGGACACGCTGAGGTATTTCAATTTTT
85432516 GTTTTTC-AAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGACGCTGAGGTA-TTTTA
66 GTTTTTCAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGACGCTGAGGTATTTTTA
*
85432579 TT
131 -A
* *
85432581 TAAAATTCAA-TCATATTGCGAGAGGTGAGTTGAGCCTCGGACACGCTGAGGTATTTCAATTTTT
1 AAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCGGACACGCTGAGGTATTTCAATTTTT
85432645 GTTTTTCAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGACGCTGAGGTATTTTTA
66 GTTTTTCAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGACGCTGAGGTATTTTTA
85432710 A
131 A
85432711 AAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGACACGCTGAGGTAATTTCAATTT
1 AAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTC-GGACACGCTGAGGT-ATTTCAATTT
*
85432776 CTG--TTTCAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGACACGCTGAGGTAT
64 TTGTTTTTC-AAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGG--ACGCTGAGGTAT
85432839 TTT
126 TTT
85432842 CAATTTCATT
Statistics
Matches: 243, Mismatches: 9, Indels: 13
0.92 0.03 0.05
Matches are distributed among these distances:
128 27 0.11
129 38 0.16
130 59 0.24
131 37 0.15
132 55 0.23
133 12 0.05
134 15 0.06
ACGTcount: A:0.30, C:0.16, G:0.23, T:0.31
Consensus pattern (131 bp):
AAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCGGACACGCTGAGGTATTTCAATTTTT
GTTTTTCAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGACGCTGAGGTATTTTTA
A
Found at i:85432736 original size:60 final size:61
Alignment explanation
Indices: 85432652--85432841 Score: 247
Period size: 72 Copynumber: 2.9 Consensus size: 61
85432642 TTTGTTTTTC
85432652 AAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGG-ACGCTGAGGTATTTTTAAA
1 AAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGAACGCTGAGGTATTTTTAAA
85432712 AAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGACACGCTGAGGTAATTTCAATTTC
1 AAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGA-ACGCTGAGG-----T--A-TT-
**
85432777 TGTTTCA
56 T-TTAAA
85432784 AAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGACACGCTGAGGTATTTT
1 AAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGA-ACGCTGAGGTATTTT
85432842 CAATTTCATT
Statistics
Matches: 116, Mismatches: 2, Indels: 22
0.83 0.01 0.16
Matches are distributed among these distances:
60 41 0.35
62 10 0.09
63 1 0.01
64 2 0.02
65 1 0.01
67 2 0.02
69 1 0.01
70 2 0.02
71 1 0.01
72 55 0.47
ACGTcount: A:0.32, C:0.17, G:0.24, T:0.27
Consensus pattern (61 bp):
AAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGAACGCTGAGGTATTTTTAAA
Found at i:85432828 original size:72 final size:73
Alignment explanation
Indices: 85432711--85432857 Score: 269
Period size: 72 Copynumber: 2.0 Consensus size: 73
85432701 GTATTTTTAA
85432711 AAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGACACGCTGAGGTAATTTCAATTT
1 AAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGACACGCTGAGGTAATTTCAATTT
85432776 C-TGTTTC
66 CATGTTTC
*
85432783 AAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGACACGCTGAGGTATTTTCAATTT
1 AAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGACACGCTGAGGTAATTTCAATTT
*
85432848 CATTTTTC
66 CATGTTTC
85432856 AA
1 AA
85432858 TTTCTGTTTC
Statistics
Matches: 72, Mismatches: 2, Indels: 1
0.96 0.03 0.01
Matches are distributed among these distances:
72 65 0.90
73 7 0.10
ACGTcount: A:0.31, C:0.18, G:0.21, T:0.30
Consensus pattern (73 bp):
AAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGACACGCTGAGGTAATTTCAATTT
CATGTTTC
Found at i:85432911 original size:87 final size:88
Alignment explanation
Indices: 85432767--85433078 Score: 368
Period size: 87 Copynumber: 3.6 Consensus size: 88
85432757 GCTGAGGTAA
85432767 TTTCAATTTCTGTTTC---AAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGACAC
1 TTTCAATTTCTGTTTCAAAAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGACAC
85432829 GCTGAGGTATTTTCAATTTCATT
66 GCTGAGGTATTTTCAATTTCATT
85432852 TTTCAATTTCTGTTTC-AAAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGACAC
1 TTTCAATTTCTGTTTCAAAAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGACAC
*
85432916 GCTGAGG-----T-AATTTCA-A
66 GCTGAGGTATTTTCAATTTCATT
* * * *
85432932 TTTC--TGT-TG--TCAAAAAAAAATCAACTCATATTGCGAGAGGTGATTTGAGCCTTAGATCAC
1 TTTCAATTTCTGTTTCAAAAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAG--GAC
* *
85432992 ACGCCGAGGTATTTTCAATTTCCGTT
64 ACGCTGAGGTATTTTCAATTT-CATT
* *
85433018 TTTCAATTTCTGCCTTTCAAAAAAAAAAATCGACTCATATTACGAGAGGTGAGTTGAGCCT
1 TTTCAATTTCTG--TTTC--AAAAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCT
85433079 TGGCTCACGC
Statistics
Matches: 193, Mismatches: 12, Indels: 34
0.81 0.05 0.14
Matches are distributed among these distances:
75 2 0.01
76 41 0.21
77 2 0.01
78 12 0.06
80 4 0.02
81 7 0.04
82 1 0.01
83 1 0.01
84 5 0.03
85 17 0.09
86 4 0.02
87 53 0.27
88 2 0.01
89 2 0.01
93 2 0.01
95 38 0.20
ACGTcount: A:0.31, C:0.18, G:0.19, T:0.33
Consensus pattern (88 bp):
TTTCAATTTCTGTTTCAAAAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGACAC
GCTGAGGTATTTTCAATTTCATT
Found at i:85432980 original size:76 final size:75
Alignment explanation
Indices: 85432852--85433018 Score: 246
Period size: 76 Copynumber: 2.2 Consensus size: 75
85432842 CAATTTCATT
*
85432852 TTTCAATTTCTGTTTCAAAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAG-GACAC
1 TTTCAATTTCTGTTTCAAAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGACACAC
*
85432916 GCTGAGGTAA
66 GCCGAGGTAA
* *
85432926 TTTCAATTTCTGTTGTCAAAAAAAAATCAACTCATATTGCGAGAGGTGATTTGAGCCTTAGATCA
1 TTTCAATTTCTGTT-TC-AAAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGA-CA
*
85432991 CACGCCGAGGTAT
63 CACGCCGAGGTAA
*
85433004 TTTCAATTTCCGTTT
1 TTTCAATTTCTGTTT
85433019 TTCAATTTCT
Statistics
Matches: 83, Mismatches: 6, Indels: 5
0.88 0.06 0.05
Matches are distributed among these distances:
74 14 0.17
75 2 0.02
76 41 0.49
77 1 0.01
78 25 0.30
ACGTcount: A:0.31, C:0.18, G:0.19, T:0.32
Consensus pattern (75 bp):
TTTCAATTTCTGTTTCAAAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGACACAC
GCCGAGGTAA
Found at i:85433077 original size:171 final size:161
Alignment explanation
Indices: 85432709--85433752 Score: 731
Period size: 171 Copynumber: 6.2 Consensus size: 161
85432699 AGGTATTTTT
85432709 AAAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGACACGCTGAGGTAATTTCAAT
1 AAAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGACACGCTGAGGTAATTTCAAT
* *
85432774 TTCTGTTTCAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAG--GACACGCTGAGGT
66 TTCTGTTTCAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTTAGATCACACGCTGAGGT
85432837 ATTTTCAATTTCATTTTTCAATTTCTGTTTC
131 ATTTTCAATTTCATTTTTCAATTTCTGTTTC
85432868 AAAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGACACGCTGAGGTAATTTCAAT
1 AAAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGACACGCTGAGGTAATTTCAAT
* *
85432933 TTCTGTTGTCAAAAAAAAATCAACTCATATTGCGAGAGGTGATTTGAGCCTTAGATCACACGCCG
66 TTCTGTT-TC---AAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTTAGATCACACGCTG
*
85432998 AGGTATTTTCAATTTCCGTTTTTCAATTTCTGCCTTTC
127 AGGTATTTTCAATTT-CATTTTTCAATTTCTG--TTTC
* * * * * *
85433036 AAAAAAAAAAATCGACTCATATTACGAGAGGTGAGTTGAGCCT-TGGCTCACGCGCTGAGCTATT
1 ---AAAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGG---ACACGCTGAGGTAAT
85433100 TTCAATTTCTGTCTTTCAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAG-CTTCAGATCACA
60 TTCAATTTCTG--TTTCAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTT-AGATCACA
* ** * *
85433164 CACTGAGGTATTTT-TTTTTCA-ATTT--ATAT-T-TTTC
122 CGCTGAGGTATTTTCAATTTCATTTTTCAATTTCTGTTTC
* * ** * *
85433198 ---AAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCT-TGAGTCACATATCGAGGCATTTTC
1 AAAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAG-GACAC-GCT-GAGGTAATTTC
*
85433259 AAAATCTACTTTTCAAGTTAAGTTTC-AAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTC
63 ---A---A--TTTC----T--GTTTCAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTT
* * *
85433323 A-A-GACACGTTGAGGTATTTTC-A----A--TTTC--TGTC--TTTC
114 AGATCACACGCTGAGGTATTTTCAATTTCATTTTTCAATTTCTGTTTC
* * *
85433358 -AAAAAAATCAGCTCATATTGCGAGAGGTGAGTTGAACCTCA--AGACGCTGAGGTGTTTTCCAT
1 AAAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGACACGCTGA-G-G---T--A-
* * *
85433420 TTCTGTTCTTCAATTTCTGTGTTTCAAAAAAATC-GCTCATATTGCGAGTGGTGAGTTGAGCCTT
58 -----AT-TTCAATTTC--TGTTTC-AAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTT
* *
85433484 -GACTCACACGCTGAGGTATTTTCAAATTCTGTTTTTCAAATTT-TGTTTTTCC
114 AGA-TCACACGCTGAGGTATTTTCAATTTC-ATTTTTC-AATTTCTG--TTT-C
*
85433536 AAAAAAAATCAACTCATATTGCGAGAGGTGAGTTCAGCCTCAGGACACGCTGAGGTATTTTCATT
1 AAAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGACACGCTGAGGTA-----A--
* *
85433601 TTTTTTTTCAATTTATGTTTGTCAAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAG
59 -----TTTCAATTTCTG-TT-TC-AAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTTAG
** * ** * *
85433666 GCCACACGCCGAGGTATTTTCAATTGATGTTTTTTTTTAATTTATGCTTTGC
116 ATCACACGCTGAGGTATTTTCAA-T--T-TCATTTTTCAATTTCTG-TTT-C
*
85433718 ---AAAAATCAACTCATATTACGAGAGGTGAGTTGAGC
1 AAAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGC
85433753 TTCGGGTCAC
Statistics
Matches: 717, Mismatches: 72, Indels: 172
0.75 0.07 0.18
Matches are distributed among these distances:
154 2 0.00
155 1 0.00
156 46 0.06
157 1 0.00
158 2 0.00
159 75 0.10
160 19 0.03
161 29 0.04
162 48 0.07
163 56 0.08
164 9 0.01
165 39 0.05
166 20 0.03
167 35 0.05
168 14 0.02
169 2 0.00
170 9 0.01
171 98 0.14
172 3 0.00
173 26 0.04
174 5 0.01
175 2 0.00
176 1 0.00
177 5 0.01
178 3 0.00
179 91 0.13
180 49 0.07
181 9 0.01
182 9 0.01
183 8 0.01
184 1 0.00
ACGTcount: A:0.29, C:0.18, G:0.19, T:0.34
Consensus pattern (161 bp):
AAAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGACACGCTGAGGTAATTTCAAT
TTCTGTTTCAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTTAGATCACACGCTGAGGT
ATTTTCAATTTCATTTTTCAATTTCTGTTTC
Found at i:85433100 original size:95 final size:95
Alignment explanation
Indices: 85432943--85433118 Score: 262
Period size: 95 Copynumber: 1.9 Consensus size: 95
85432933 TTCTGTTGTC
* * *
85432943 AAAAAAAAATCAACTCATATTGCGAGAGGTGATTTGAGCCTTAGATCACACGCCGAGGTATTTTC
1 AAAAAAAAATCAACTCATATTACGAGAGGTGAGTTGAGCCTTAGATCACACGCCGAGCTATTTTC
*
85433008 AATTTCCGTTTTTCAATTTCTGCCTTTCAA
66 AATTTCCGTCTTTCAATTTCTGCCTTTCAA
* * * * *
85433038 AAAAAAAAATCGACTCATATTACGAGAGGTGAGTTGAGCCTTGGCTCACGCGCTGAGCTATTTTC
1 AAAAAAAAATCAACTCATATTACGAGAGGTGAGTTGAGCCTTAGATCACACGCCGAGCTATTTTC
*
85433103 AATTTCTGTCTTTCAA
66 AATTTCCGTCTTTCAA
85433119 AAAATCAACT
Statistics
Matches: 71, Mismatches: 10, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
95 71 1.00
ACGTcount: A:0.30, C:0.20, G:0.18, T:0.32
Consensus pattern (95 bp):
AAAAAAAAATCAACTCATATTACGAGAGGTGAGTTGAGCCTTAGATCACACGCCGAGCTATTTTC
AATTTCCGTCTTTCAATTTCTGCCTTTCAA
Found at i:85433225 original size:80 final size:80
Alignment explanation
Indices: 85433098--85433392 Score: 254
Period size: 80 Copynumber: 3.7 Consensus size: 80
85433088 CGCTGAGCTA
* *
85433098 TTTTCAATTTCTGTCTTTCAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCTTCAGATCAC
1 TTTTCAATTTATATCTTTCAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCTTCAGATCAC
85433163 ACACTGAGGTATTTTT
66 ACA-TGAGGTATTTTT
* *
85433179 TTTTCAATTTATATTTTTC-AAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTTGAG-TCA
1 TTTTCAATTTATATCTTTCAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAG-CTTCAGATCA
* *
85433242 CATATCGAGGCATTTTCAAAATCT
65 CACAT-GAGGTA-TTT-----T-T
* * *
85433266 ACTTTTCAAGTTA-A-GTTTC-AAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAAGA-
1 --TTTTCAATTTATATCTTTCAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCTTC-AGAT
**
85433327 CAC-GTTGAGGTA-----
63 CACACATGAGGTATTTTT
* * *
85433339 TTTTCAATTTCTGTCTTTCAAAAAAATCAGCTCATATTGCGAGAGGTGAGTTGA
1 TTTTCAATTTATATCTTTC-AAAAAATCAACTCATATTGCGAGAGGTGAGTTGA
85433393 ACCTCAAGAC
Statistics
Matches: 179, Mismatches: 18, Indels: 40
0.76 0.08 0.17
Matches are distributed among these distances:
71 9 0.05
73 4 0.02
75 32 0.18
79 1 0.01
80 45 0.25
81 24 0.13
85 5 0.03
86 4 0.02
87 44 0.25
88 1 0.01
89 10 0.06
ACGTcount: A:0.31, C:0.16, G:0.18, T:0.35
Consensus pattern (80 bp):
TTTTCAATTTATATCTTTCAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCTTCAGATCAC
ACATGAGGTATTTTT
Found at i:85433291 original size:414 final size:394
Alignment explanation
Indices: 85432711--85433523 Score: 1004
Period size: 414 Copynumber: 2.0 Consensus size: 394
85432701 GTATTTTTAA
* *
85432711 AAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGACACGCTGAGGTAATTTCAATTT
1 AAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGCACACACTGAGGTAATTTCAATTT
* * * *
85432776 CTGTTTCAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGACACGCTGAGGTATTT
66 ATGTTTCAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGCACAAGCTGAGGCATTT
** * * **
85432841 TCAATTTCATTTTTCAATTTCTGTTTCAAAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGC
131 TCAAAATCACTTTTCAAGTTAAGTTTC--AAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGC
*
85432906 CTCAGGACACGCTGAGGTAATTTCAATTTCTGT-TGTCAAAAAAAAATCAACTCATATTGCGAGA
194 CTCAAGACACGCTGAGGTAATTTCAATTTCTGTCTGTC--AAAAAAATCAACTCATATTGCGAGA
* * * *
85432970 GGTGATTTGAGCCTTAGATCACACGCCGAGGTATTTTCAATTTCCGTTTTTCAATTTCTGCCTTT
257 GGTGAGTTGAACC-T-CA--ACACGCCGAGGTATTTTCAATTTCCGTTCTTCAATTTCTGCCTTT
* *
85433035 CAAAAAAAAAAATCGACTCATATTACGAGAGGTGAGTTGAGCCTTGGCTCACGCGCTGAGCTATT
318 C----AAAAAAATCG-CTCATATTACGAGAGGTGAGTTGAGCCTTGACTCACACGCTGAGCTATT
*
85433100 TTCAATTTCTGTCTTTC
378 TTCAAATTCTGTCTTTC
* *
85433117 AAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCTTCAGATCACACACTGAGGTATTTTTTTT
1 AAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAG--CACACACTGAGGTA-----ATT
* *
85433182 TCAATTTATATTTTTC-AAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTTGAGTCACATA
59 TCAA-TT-TATGTTTCAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCC-TCAG-CACA-A
*
85433246 TC-GAGGCATTTTCAAAATCTACTTTTCAAGTTAAGTTTC-AAAAATCAACTCATATTGCGAGAG
119 GCTGAGGCATTTTCAAAATC-ACTTTTCAAGTTAAGTTTCAAAAAATCAACTCATATTGCGAGAG
* * * *
85433309 GTGAGTTGAGCCTCAAGACACGTTGAGGTATTTTCAATTTCTGTCTTTCAAAAAAATCAGCTCAT
183 GTGAGTTGAGCCTCAAGACACGCTGAGGTAATTTCAATTTCTGTCTGTCAAAAAAATCAACTCAT
* * * * *
85433374 ATTGCGAGAGGTGAGTTGAACCTCAAGACGCTGAGGTGTTTTCCATTTCTGTTCTTCAATTTCTG
248 ATTGCGAGAGGTGAGTTGAACCTCAACACGCCGAGGTATTTTCAATTTCCGTTCTTCAATTTCTG
** * * *
85433439 TGTTTCAAAAAAATCGCTCATATTGCGAGTGGTGAGTTGAGCCTTGACTCACACGCTGAGGTATT
313 CCTTTCAAAAAAATCGCTCATATTACGAGAGGTGAGTTGAGCCTTGACTCACACGCTGAGCTATT
*
85433504 TTCAAATTCTGTTTTTC
378 TTCAAATTCTGTCTTTC
85433521 AAA
1 AAA
85433524 TTTTGTTTTT
Statistics
Matches: 353, Mismatches: 40, Indels: 30
0.83 0.09 0.07
Matches are distributed among these distances:
404 62 0.18
405 10 0.03
406 40 0.11
408 12 0.03
409 38 0.11
411 1 0.00
412 1 0.00
413 41 0.12
414 103 0.29
415 12 0.03
416 17 0.05
417 16 0.05
ACGTcount: A:0.30, C:0.18, G:0.19, T:0.33
Consensus pattern (394 bp):
AAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGCACACACTGAGGTAATTTCAATTT
ATGTTTCAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGCACAAGCTGAGGCATTT
TCAAAATCACTTTTCAAGTTAAGTTTCAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCT
CAAGACACGCTGAGGTAATTTCAATTTCTGTCTGTCAAAAAAATCAACTCATATTGCGAGAGGTG
AGTTGAACCTCAACACGCCGAGGTATTTTCAATTTCCGTTCTTCAATTTCTGCCTTTCAAAAAAA
TCGCTCATATTACGAGAGGTGAGTTGAGCCTTGACTCACACGCTGAGCTATTTTCAAATTCTGTC
TTTC
Found at i:85433432 original size:73 final size:74
Alignment explanation
Indices: 85433285--85433425 Score: 221
Period size: 75 Copynumber: 1.9 Consensus size: 74
85433275 GTTAAGTTTC
* *
85433285 AAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAAGACACGTTGAGGTATTTTCAATTTC
1 AAAAATCAACTCATATTGCGAGAGGTGAGTTGAACCTCAAGA-ACGCTGAGGTATTTTCAATTTC
85433350 TGTCTTTCAA
65 TGTCTTTCAA
* * *
85433360 AAAAATCAGCTCATATTGCGAGAGGTGAGTTGAACCTCAAG-ACGCTGAGGTGTTTTCCATTTCT
1 AAAAATCAACTCATATTGCGAGAGGTGAGTTGAACCTCAAGAACGCTGAGGTATTTTCAATTTCT
85433424 GT
66 GT
85433426 TCTTCAATTT
Statistics
Matches: 61, Mismatches: 5, Indels: 2
0.90 0.07 0.03
Matches are distributed among these distances:
73 22 0.36
75 39 0.64
ACGTcount: A:0.29, C:0.18, G:0.22, T:0.31
Consensus pattern (74 bp):
AAAAATCAACTCATATTGCGAGAGGTGAGTTGAACCTCAAGAACGCTGAGGTATTTTCAATTTCT
GTCTTTCAA
Found at i:85433507 original size:248 final size:244
Alignment explanation
Indices: 85432851--85433841 Score: 612
Period size: 266 Copynumber: 3.9 Consensus size: 244
85432841 TCAATTTCAT
* *
85432851 TTTTCAATTTCTG--TTTCAAAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAG--G
1 TTTTCAATTTCTGTCTTTC--AAAAAATCAACTCATATTGCGAGAGGTGAGTTGAACCTCAGATC
* * *
85432912 ACACGCTGAGGTA----AT-TTCAA-TT-TCTGTTGTCAAAAAAAAATCAACTCATATTGCGAGA
64 ACACACTGAGGTATTTTTTCTTCAATTTATATGTT-TC----AAAAATCAACTCATATTGCGAGA
* * * ** *** * ** *
85432970 GGTGATTTGAGCCTTAGA-TCACACG-CCGAGGTATTTTCAATTTCCGTTTTTCAATTTCTGCCT
124 GGTGAGTTGAGCCTT-GACTCACA-GATCGAGGCATTTTCAAAATCTACTTTTCAAATTAAG-TT
* * * ** * *
85433033 TTCAAAAAAAAAAATCGACTCATATTACGAGAGGTGAGTTGAGCCTTGGC-TCACGCGCTGAGCT
186 TTC----CAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCC-T--CAAGACACGCTGAGGT
85433097 A
244 A
* *
85433098 TTTTCAATTTCTGTCTTTCAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCTTCAGATCAC
1 TTTTCAATTTCTGTCTTTCAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAACCTCAGATCAC
* *
85433163 ACACTGAGGTATTTTTTTTTCAATTTATATTTTTCAAAAATCAACTCATATTGCGAGAGGTGAGT
66 ACACTGAGGTATTTTTTCTTCAATTTATATGTTTCAAAAATCAACTCATATTGCGAGAGGTGAGT
* * *
85433228 TGAGCCTTGAGTCACATATCGAGGCATTTTCAAAATCTACTTTTCAAGTTAAG-TTT-C-AAAAA
131 TGAGCCTTGACTCACAGATCGAGGCATTTTCAAAATCTACTTTTCAAATTAAGTTTTCCAAAAAA
*
85433290 TCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAAGACACGTTGAGGTA
196 TCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAAGACACGCTGAGGTA
*
85433339 TTTTCAATTTCTGTCTTTCAAAAAAATCAGCTCATATTGCGAGAGGTGAGTTGAACCTCAAGA-C
1 TTTTCAATTTCTGTCTTTC-AAAAAATCAACTCATATTGCGAGAGGTGAGTTGAACCTC-AGATC
* ** * *** * * *
85433403 GCTGAGGTGTTTTCCATTTCTGTTCTTCAATTTCTGTGTTTCAAAAAAATC-GCTCATATTGCGA
64 ACACA-CTGAGGT--ATTT-T-TTCTTCAATTTATATGTTTC--AAAAATCAACTCATATTGCGA
* * * * ** **
85433467 GTGGTGAGTTGAGCCTTGACTCACACGCT-GAGGTATTTTCAAATTCTGTTTTTCAAATTTTGTT
122 GAGGTGAGTTGAGCCTTGACTCACA-GATCGAGGCATTTTCAAAATCTACTTTTCAAATTAAG-T
* *
85433531 TTTCCAAAAAAAATCAACTCATATTGCGAGAGGTGAGTTCAGCCTCAGGACACGCTGAGGTATTT
185 TTTCC--AAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAAGACACGCTGAGG-----
85433596 TCA
243 T-A
* *
85433599 TTTTTTTTTTCAATTTATGT-TTGTCAAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCT
1 ------TTTTCAATTTCTGTCTT-TC-AAAAAATCAACTCATATTGCGAGAGGTGAGTTGAACCT
** * * * ***
85433663 CAGGCCACACGCCGAGGTATTTTCAATTGATGTTTTTTTTTAATTTATGCTTTGCAAAAATCAAC
58 CAGATCACACACTGAGGTA-TTT---TT--T-CTTCAATTT-A--TATG-TTT-CAAAAATCAAC
* ** * ** * *
85433728 TCATATTACGAGAGGTGAGTTGAG-CTTCGGGTCACATATCGAGATATTTTCATAATCT-GTTTT
111 TCATATTGCGAGAGGTGAGTTGAGCCTT-GACTCACAGATCGAGGCATTTTCAAAATCTACTTTT
** *
85433791 ACAAATTTTGTTTT---AAAAATCAACTCATATTGCGAGAAGTGAGTTGAGCCT
175 -CAAATTAAGTTTTCCAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCT
85433842 TGGCTCACGT
Statistics
Matches: 597, Mismatches: 88, Indels: 99
0.76 0.11 0.13
Matches are distributed among these distances:
240 1 0.00
241 29 0.05
242 40 0.07
243 40 0.07
245 4 0.01
246 1 0.00
247 69 0.12
248 61 0.10
249 27 0.05
250 5 0.01
251 68 0.11
253 1 0.00
254 54 0.09
255 4 0.01
256 4 0.01
259 1 0.00
260 1 0.00
263 1 0.00
264 3 0.01
265 7 0.01
266 91 0.15
267 1 0.00
268 5 0.01
271 22 0.04
272 56 0.09
273 1 0.00
ACGTcount: A:0.29, C:0.17, G:0.19, T:0.35
Consensus pattern (244 bp):
TTTTCAATTTCTGTCTTTCAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAACCTCAGATCAC
ACACTGAGGTATTTTTTCTTCAATTTATATGTTTCAAAAATCAACTCATATTGCGAGAGGTGAGT
TGAGCCTTGACTCACAGATCGAGGCATTTTCAAAATCTACTTTTCAAATTAAGTTTTCCAAAAAA
TCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAAGACACGCTGAGGTA
Found at i:85433538 original size:15 final size:14
Alignment explanation
Indices: 85433502--85433534 Score: 57
Period size: 14 Copynumber: 2.4 Consensus size: 14
85433492 CGCTGAGGTA
85433502 TTTTCAAATTCTGT
1 TTTTCAAATTCTGT
*
85433516 TTTTCAAATTTTGT
1 TTTTCAAATTCTGT
85433530 TTTTC
1 TTTTC
85433535 CAAAAAAAAT
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
14 18 1.00
ACGTcount: A:0.18, C:0.12, G:0.06, T:0.64
Consensus pattern (14 bp):
TTTTCAAATTCTGT
Found at i:85433649 original size:87 final size:87
Alignment explanation
Indices: 85433339--85433933 Score: 459
Period size: 87 Copynumber: 6.7 Consensus size: 87
85433329 CGTTGAGGTA
* * * *
85433339 TTTTCAATTTCTGTCTTTCAAAAAAATCAGCTCATATTGCGAGAGGTGAGTTGAACCTCA--AGA
1 TTTTCAATTTATGT-TTTCAAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGACA
* *
85433402 CGCTGAGGTGTTTTCCATTTCTGT
65 CGCTGAGGTATTTTCAATTT-TGT
* * * * * **
85433426 TCTTCAATTTCTGTGTTTCAAAAAAATC-GCTCATATTGCGAGTGGTGAGTTGAGCCTTGACTCA
1 TTTTCAATTTATGT-TTTCAAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCC-TCA-GGA
*
85433490 CACGCTGAGGTATTTTCAAATTCTGT
63 CACGCTGAGGTATTTTC-AATTTTGT
*
85433516 TTTTCAAATTT-TGTTTTTCCAAAAAAAATCAACTCATATTGCGAGAGGTGAGTTCAGCCTCAGG
1 TTTTC-AATTTATG-TTTT-C-AAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGG
*
85433580 ACACGCTGAGGTATTTTC-ATTTTTT
62 ACACGCTGAGGTATTTTCAATTTTGT
85433605 TTTTCAATTTATGTTTGTCAAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGCCA
1 TTTTCAATTTATGTTT-TCAAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGG--A
* *
85433670 CACGCCGAGGTATTTTCAATTGATGTTTT
63 CACGCTGAGGTATTTTCAA-T--T-TTGT
* * * * * *
85433699 TTTTTAATTTATGCTTTGC--AAAAATCAACTCATATTACGAGAGGTGAGTTGAGCTTCGGGTCA
1 TTTTCAATTTATG-TTTTCAAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGACA
** * * *
85433762 CATATCGAGATATTTTCATAATCTGT
65 C-GCT-GAGGTATTTTCA-ATTTTGT
* * * *
85433788 TTTACAAATTT-TGTTTT---AAAAATCAACTCATATTGCGAGAAGTGAGTTGAGCCT-TGGCTC
1 TTTTC-AATTTATGTTTTCAAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGG-AC
*
85433848 ACGTGCTGAGCTATTTTCAATTTCTGT
64 AC--GCTGAGGTATTTTCAATTT-TGT
* * * ** *
85433875 TTTT-AATGTCTA-GTTTT--AAAGAGTCAATTCATATTGCGAGAAATGAGTTAAG-CTCAGGA
1 TTTTCAAT-T-TATGTTTTCAAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGA
85433934 TCACATGCCG
Statistics
Matches: 422, Mismatches: 54, Indels: 64
0.78 0.10 0.12
Matches are distributed among these distances:
85 3 0.01
86 31 0.07
87 133 0.32
88 44 0.10
89 37 0.09
90 38 0.09
91 29 0.07
92 60 0.14
93 27 0.06
94 17 0.04
95 3 0.01
ACGTcount: A:0.28, C:0.16, G:0.19, T:0.37
Consensus pattern (87 bp):
TTTTCAATTTATGTTTTCAAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGACAC
GCTGAGGTATTTTCAATTTTGT
Found at i:85433688 original size:414 final size:401
Alignment explanation
Indices: 85432709--85433689 Score: 973
Period size: 414 Copynumber: 2.4 Consensus size: 401
85432699 AGGTATTTTT
85432709 AAAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGACACGCTGAGGTA-A------
1 AAAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGACACGCTGAGGTATATTTTTT
*
85432767 TTTCAATTTCTG-TTTCAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGG--ACAC
66 TTTCAATTTATGTTTTCAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGCCACAC
* *
85432829 GCTGAGGTATTTTCAATTTCATTTTTCAATTTCTGTTTCAAAAAAAATCAACTCATATTGCGAGA
131 GCCGAGGTATTTTC-A----A-TGTTCAA----TGTTTC--AAAAAATCAACTCATATTGCGAGA
*
85432894 GGTGAGTTGAGCCTCAGGACACGCTGAGGTAATTTCAATTTCTGTTGTCAAAAAAAAATCAACTC
184 GGTGAGTTGAGCCTCAAGACACGCTGAGGTAATTTCAATTTCTGTTGTC-AAAAAAAATCAACTC
* * * *
85432959 ATATTGCGAGAGGTGATTTGAGCCTTAGATCACACGCCGAGGTATTTTCAATTTCCGTTTTTCAA
248 ATATTGCGAGAGGTGAGTTGAACCTTACA-CACACGCCGAGGTATTTTCAATTTCCGTTCTTCAA
* *
85433024 TTTCTGCCTTTCAAAAAAAAAAATCGACTCATATTACGAGAGGTGAGTTGAGCCTTGGCTCACGC
312 TTTCTGCCTTTC---AAAAAAAATCGACTCATATTACGAGAGGTGAGTTGAGCCTTGACTCACAC
85433089 GCTGAGCTATTTTCAATTTCTGTCTTTC
374 GCTGAGCTATTTTCAATTTCTGTCTTTC
* * *
85433117 --AAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCTTCAGATCACACACTGAGG--TATTTT
1 AAAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAG--GACACGCTGAGGTATATTTT
* * *
85433178 TTTTTCAATTTATATTTTTC-AAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCT-TGAGTC
64 TTTTTCAATTTAT-GTTTTCAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAG-GCC
*** * *
85433241 ACATATCGAGGCATTTTCAAAATCTACTTTTCAAGTTAAGTTTC-AAAAATCAACTCATATTGCG
127 ACACGCCGAGGTATTTTC---A---A-TGTTCAA--T--GTTTCAAAAAATCAACTCATATTGCG
* * * *
85433305 AGAGGTGAGTTGAGCCTCAAGACACGTTGAGGTATTTTCAATTTCTGTCTTTC-AAAAAAATCAG
181 AGAGGTGAGTTGAGCCTCAAGACACGCTGAGGTAATTTCAATTTCTGT-TGTCAAAAAAAATCAA
* * * * *
85433369 CTCATATTGCGAGAGGTGAGTTGAACC-T-CA-AGACGCTGAGGTGTTTTCCATTTCTGTTCTTC
245 CTCATATTGCGAGAGGTGAGTTGAACCTTACACACACGCCGAGGTATTTTCAATTTCCGTTCTTC
** * *
85433431 AATTTCTGTGTTTC-AAAAAAATCG-CTCATATTGCGAGTGGTGAGTTGAGCCTTGACTCACACG
310 AATTTCTGCCTTTCAAAAAAAATCGACTCATATTACGAGAGGTGAGTTGAGCCTTGACTCACACG
* *
85433494 CTGAGGTATTTTCAAATTCTGTTTTTCAAATTTTGTTTTTCC
375 CTGAGCTATTTTC-AA-------TTTC------TGTCTTT-C
*
85433536 AAAAAAAATCAACTCATATTGCGAGAGGTGAGTTCAGCCTCAGGACACGCTGAGGTATTTTCATT
1 AAAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGACACGCTGAGGTA---T-A-T
85433601 TTTTTTTTCAATTTATGTTTGTCAAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAG
61 TTTTTTTTCAATTTATGTTT-TC-AAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAG
85433666 GCCACACGCCGAGGTATTTTCAAT
124 GCCACACGCCGAGGTATTTTCAAT
85433690 TGATGTTTTT
Statistics
Matches: 477, Mismatches: 49, Indels: 81
0.79 0.08 0.13
Matches are distributed among these distances:
404 47 0.10
405 12 0.03
406 40 0.08
407 1 0.00
408 10 0.02
409 38 0.08
411 1 0.00
412 5 0.01
413 46 0.10
414 103 0.22
415 8 0.02
416 13 0.03
417 14 0.03
418 8 0.02
419 11 0.02
421 40 0.08
422 1 0.00
424 1 0.00
425 5 0.01
426 19 0.04
428 53 0.11
429 1 0.00
ACGTcount: A:0.29, C:0.18, G:0.19, T:0.33
Consensus pattern (401 bp):
AAAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGACACGCTGAGGTATATTTTTT
TTTCAATTTATGTTTTCAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGCCACAC
GCCGAGGTATTTTCAATGTTCAATGTTTCAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGC
CTCAAGACACGCTGAGGTAATTTCAATTTCTGTTGTCAAAAAAAATCAACTCATATTGCGAGAGG
TGAGTTGAACCTTACACACACGCCGAGGTATTTTCAATTTCCGTTCTTCAATTTCTGCCTTTCAA
AAAAAATCGACTCATATTACGAGAGGTGAGTTGAGCCTTGACTCACACGCTGAGCTATTTTCAAT
TTCTGTCTTTC
Done.