Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Scaffold129
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: 3652842
ACGTcount: A:0.32, C:0.18, G:0.18, T:0.32
Warning! 48564 characters in sequence are not A, C, G, or T
File 17 of 23
Found at i:2624926 original size:23 final size:23
Alignment explanation
Indices: 2624899--2624951 Score: 74
Period size: 23 Copynumber: 2.3 Consensus size: 23
2624889 TGGCAAGTAG
2624899 AAGAAAAAA-A-AGAAAGAAAAAGA
1 AAGAAAAAAGAGAGAAA-AAAAA-A
2624922 AAGAAAAAAGAGAGAAAAAAAAA
1 AAGAAAAAAGAGAGAAAAAAAAA
2624945 AAGAAAA
1 AAGAAAA
2624952 CTTAAGCCAA
Statistics
Matches: 28, Mismatches: 0, Indels: 4
0.88 0.00 0.12
Matches are distributed among these distances:
23 17 0.61
24 6 0.21
25 5 0.18
ACGTcount: A:0.83, C:0.00, G:0.17, T:0.00
Consensus pattern (23 bp):
AAGAAAAAAGAGAGAAAAAAAAA
Found at i:2625020 original size:12 final size:12
Alignment explanation
Indices: 2625003--2625028 Score: 52
Period size: 12 Copynumber: 2.2 Consensus size: 12
2624993 TCTTCTTATT
2625003 TTGCTTTCTTTC
1 TTGCTTTCTTTC
2625015 TTGCTTTCTTTC
1 TTGCTTTCTTTC
2625027 TT
1 TT
2625029 ATTTATTTCT
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 14 1.00
ACGTcount: A:0.00, C:0.23, G:0.08, T:0.69
Consensus pattern (12 bp):
TTGCTTTCTTTC
Found at i:2626059 original size:140 final size:140
Alignment explanation
Indices: 2625744--2626127 Score: 524
Period size: 140 Copynumber: 2.7 Consensus size: 140
2625734 ATTTTTATAT
* ** * * * * * *
2625744 ATTTCTATTATTCCTATAGTTATCCATAGGGGTACAAAAATTTTCAAAACTTTTCTTGTCTTTTT
1 ATTTCTAATATTCCTACGGTTTTCCATAGGGGTATAGAAATCTTCAAAACTTTTCATATCTTTTT
* *
2625809 AGTTCTCCATTAAGGTACAAAAT-AATTTTTTTAGAAATTAAAAATTAAATAAAAATTATTATCT
66 GGTTCTCCATTAAGGTACGAAATGAA--TTTTTAGAAATTAAAAATTAAATAAAAATTATTATCT
2625873 TAATTTTTCAAG
129 TAATTTTTCAAG
* *
2625885 ATTTCTAATATTCCTACGGTTTTTCGTAGGGGTATAGAAATCTTCAAAACTTTTCATATCTTTTT
1 ATTTCTAATATTCCTACGGTTTTCCATAGGGGTATAGAAATCTTCAAAACTTTTCATATCTTTTT
* * *
2625950 GGCTCTCTATTAAGGTATGAAATGAACTTTTTAGAAATTAAAAATT-AATAAAAATTATTATCTT
66 GGTTCTCCATTAAGGTACGAAATGAA-TTTTTAGAAATTAAAAATTAAATAAAAATTATTATCTT
2626014 AATTTTTCAAG
130 AATTTTTCAAG
* * *
2626025 ATTTCTAATATT-CTTCTGGTTTTCCATAGGGGTATAGAAATCTTTAAAATTTTTCATATCTTTT
1 ATTTCTAATATTCCTAC-GGTTTTCCATAGGGGTATAGAAATCTTCAAAACTTTTCATATCTTTT
2626089 TGGTTCTCCATTAAGGTACGAAATG-ATATTTTAGAAATT
65 TGGTTCTCCATTAAGGTACGAAATGAAT-TTTTAGAAATT
2626128 TACAACTTTA
Statistics
Matches: 215, Mismatches: 25, Indels: 8
0.87 0.10 0.03
Matches are distributed among these distances:
138 1 0.00
139 15 0.07
140 106 0.49
141 91 0.42
142 2 0.01
ACGTcount: A:0.34, C:0.11, G:0.11, T:0.44
Consensus pattern (140 bp):
ATTTCTAATATTCCTACGGTTTTCCATAGGGGTATAGAAATCTTCAAAACTTTTCATATCTTTTT
GGTTCTCCATTAAGGTACGAAATGAATTTTTAGAAATTAAAAATTAAATAAAAATTATTATCTTA
ATTTTTCAAG
Found at i:2632145 original size:23 final size:23
Alignment explanation
Indices: 2632090--2632151 Score: 61
Period size: 23 Copynumber: 2.7 Consensus size: 23
2632080 ATGATGAGGC
* **
2632090 AAACAAAAAAAACAAAAAAAAAAG
1 AAACAAGAAAAA-AAACCAAAAAG
* *
2632114 AAAGAAGAATAAAAACCAAAAAG
1 AAACAAGAAAAAAAACCAAAAAG
*
2632137 AAACCAGAAAAAAAA
1 AAACAAGAAAAAAAA
2632152 GAGAAAGGAA
Statistics
Matches: 30, Mismatches: 8, Indels: 1
0.77 0.21 0.03
Matches are distributed among these distances:
23 21 0.70
24 9 0.30
ACGTcount: A:0.81, C:0.10, G:0.08, T:0.02
Consensus pattern (23 bp):
AAACAAGAAAAAAAACCAAAAAG
Found at i:2632167 original size:39 final size:37
Alignment explanation
Indices: 2632093--2632168 Score: 91
Period size: 41 Copynumber: 1.9 Consensus size: 37
2632083 ATGAGGCAAA
*
2632093 CAAAAAAAACAAAAAAAAAAGAAAGAAGAATAAAAAC
1 CAAAAAAAACAAAAAAAAAAGAAAGAAGAAGAAAAAC
2632130 CAAAAAGAAACCAGAAAAAAAAGAGAAAGGAAGAA-AAAA
1 CAAAAA-AAA-CA-AAAAAAAA-AGAAA-GAAGAAGAAAA
2632169 GAAATAAATA
Statistics
Matches: 34, Mismatches: 0, Indels: 6
0.85 0.00 0.15
Matches are distributed among these distances:
37 6 0.18
38 3 0.09
39 2 0.06
40 8 0.24
41 9 0.26
42 6 0.18
ACGTcount: A:0.78, C:0.08, G:0.13, T:0.01
Consensus pattern (37 bp):
CAAAAAAAACAAAAAAAAAAGAAAGAAGAAGAAAAAC
Found at i:2633365 original size:169 final size:169
Alignment explanation
Indices: 2633080--2633512 Score: 629
Period size: 169 Copynumber: 2.5 Consensus size: 169
2633070 GGAAGAAAGA
* * * *
2633080 TTCCATGGGGCAAGGATATCTTGACCACTCATTCCTAATCATATCCCTTTCTTTTAGCCACTAGA
1 TTCCTTGGGGCAAGGATATCTCGACCACTCATTCC-AATCATATCCCTTTCTTTTAACTACTAGA
* * * *
2633145 TGGTATTGGTGCATCACATGACTACAAAAAGTGCAGCCCGCACATTCCCAATCATAT-CATCTTC
65 TGGTATTGATGCATCACATGACAACAAAAAGTGCAGCCCACACATTCCCAATCATATGC-CCTTC
* *
2633209 ACCCAACC-ACTAGATGGTATTGATGCATCACAAAGCTTCAT
129 ACCCAACCGA-TAGATGGTATTGATGCATCACAAAGCCTAAT
*
2633250 TTCCTTGGGGCAAGGATATCTCAACCACTCATTCCAATCATATCCCTTTCTTTTAACTACTAGAT
1 TTCCTTGGGGCAAGGATATCTCGACCACTCATTCCAATCATATCCCTTTCTTTTAACTACTAGAT
* *
2633315 GGTATTGATGTATCACATGACAACAAAAGGTGCAGCCCACACATTCCCAATCATATGCCCTTCAC
66 GGTATTGATGCATCACATGACAACAAAAAGTGCAGCCCACACATTCCCAATCATATGCCCTTCAC
2633380 CCAACCGATAGATGGTATTGATGCATCACAAAGCCTAAT
131 CCAACCGATAGATGGTATTGATGCATCACAAAGCCTAAT
* * *
2633419 TTCCTTGGGGCAAGGATATCTCGACCACTTATTCCCAATCATATCCCTTTTCATTT-AGTCACTA
1 TTCCTTGGGGCAAGGATATCTCGACCACTCATT-CCAATCATATCCC-TTTCTTTTAACT-ACTA
* *
2633483 GATGTTATTGATGCATCACATGACCACAAA
63 GATGGTATTGATGCATCACATGACAACAAA
2633513 GGGAGAACCA
Statistics
Matches: 238, Mismatches: 20, Indels: 9
0.89 0.07 0.03
Matches are distributed among these distances:
169 151 0.63
170 49 0.21
171 38 0.16
ACGTcount: A:0.29, C:0.27, G:0.14, T:0.29
Consensus pattern (169 bp):
TTCCTTGGGGCAAGGATATCTCGACCACTCATTCCAATCATATCCCTTTCTTTTAACTACTAGAT
GGTATTGATGCATCACATGACAACAAAAAGTGCAGCCCACACATTCCCAATCATATGCCCTTCAC
CCAACCGATAGATGGTATTGATGCATCACAAAGCCTAAT
Found at i:2634102 original size:47 final size:47
Alignment explanation
Indices: 2634045--2634191 Score: 150
Period size: 47 Copynumber: 3.1 Consensus size: 47
2634035 ATTAGTCTTG
* * * *
2634045 GTCAAGCTCTTTCCACCCTTGTTTGACTATATTGGCGTTGGGACCTA
1 GTCAAACTCTTTCCACCCTCGTTTGACTATATTGACGTTAGGACCTA
* * * * * * *
2634092 GTCAAACTCTTTTCACCCTCATTTGGCTATATTAATGTTAGGACTTT
1 GTCAAACTCTTTCCACCCTCGTTTGACTATATTGACGTTAGGACCTA
* * * * *
2634139 GTTAAACTATTTCCATCCACGTTTGATTATATTGACGTTAGGACCTA
1 GTCAAACTCTTTCCACCCTCGTTTGACTATATTGACGTTAGGACCTA
2634186 GTCAAA
1 GTCAAA
2634192 TTGTCTTCCT
Statistics
Matches: 76, Mismatches: 24, Indels: 0
0.76 0.24 0.00
Matches are distributed among these distances:
47 76 1.00
ACGTcount: A:0.24, C:0.22, G:0.16, T:0.38
Consensus pattern (47 bp):
GTCAAACTCTTTCCACCCTCGTTTGACTATATTGACGTTAGGACCTA
Found at i:2634345 original size:90 final size:90
Alignment explanation
Indices: 2634158--2634372 Score: 229
Period size: 90 Copynumber: 2.4 Consensus size: 90
2634148 TTTCCATCCA
* *
2634158 CGTTTGATTATATTGACGTTAGGACCTAGTCAAATTGTCTTCCTTTATTTAGTTGTATTGGCATT
1 CGTTTGATTATATTG-CATTAGGACCTAGTCAAATTGTCTTCCTTTATTTAGTTGTATTGACATT
* *
2634223 AATCCTAGTCAAACTGTTTTCACCCT
65 AATCCGAGTCAAACTCTTTTCACCCT
* * * * *
2634249 CATTTGATTGTATTAGCATTAGGACCTGGTCAAGTTGTC-T-CTTTCATTTGGTTGTATTGACAT
1 CGTTTGATTATATT-GCATTAGGACCTAGTCAAATTGTCTTCCTTT-ATTTAGTTGTATTGACAT
* * *
2634312 TAGTCCGGGTCAAACTCTTTTTACCCT
64 TAATCCGAGTCAAACTCTTTTCACCCT
* * *
2634339 TGTTTGACTATATTGGCATTAAGA-CTGAGTCAAA
1 CGTTTGATTATATT-GCATTAGGACCT-AGTCAAA
2634373 CTCTTTTTAC
Statistics
Matches: 101, Mismatches: 20, Indels: 7
0.79 0.16 0.05
Matches are distributed among these distances:
89 6 0.06
90 62 0.61
91 32 0.32
92 1 0.01
ACGTcount: A:0.23, C:0.18, G:0.18, T:0.41
Consensus pattern (90 bp):
CGTTTGATTATATTGCATTAGGACCTAGTCAAATTGTCTTCCTTTATTTAGTTGTATTGACATTA
ATCCGAGTCAAACTCTTTTCACCCT
Found at i:2634359 original size:46 final size:46
Alignment explanation
Indices: 2634303--2634405 Score: 129
Period size: 47 Copynumber: 2.3 Consensus size: 46
2634293 CATTTGGTTG
* * * **
2634303 TATTGACATTAGTCCGGGTCAAACTCTTTTTACCCTTGTTTGACTA
1 TATTGGCATTAGACCGAGTCAAACTCTTTTTACCCTTGTCCGACTA
*
2634349 TATTGGCATTAAGACTGAGTCAAACTCTTTTTACCCTTGTCCGACTA
1 TATTGGCATT-AGACCGAGTCAAACTCTTTTTACCCTTGTCCGACTA
2634396 TA--GGCATTAG
1 TATTGGCATTAG
2634406 GACCTAATCA
Statistics
Matches: 50, Mismatches: 6, Indels: 4
0.83 0.10 0.07
Matches are distributed among these distances:
44 2 0.04
45 6 0.12
46 9 0.18
47 33 0.66
ACGTcount: A:0.24, C:0.21, G:0.17, T:0.38
Consensus pattern (46 bp):
TATTGGCATTAGACCGAGTCAAACTCTTTTTACCCTTGTCCGACTA
Found at i:2634417 original size:45 final size:46
Alignment explanation
Indices: 2634321--2634417 Score: 126
Period size: 47 Copynumber: 2.1 Consensus size: 46
2634311 TTAGTCCGGG
** *
2634321 TCAAACTCTTTTTACCCTTGTTTGACTATATTGGCATTAAGACTGAG
1 TCAAACTCTTTTTACCCTTGTCCGACTATA-TGGCATTAAGACTGAA
*
2634368 TCAAACTCTTTTTACCCTTGTCCGACTATA-GGCATTAGGACCT-AA
1 TCAAACTCTTTTTACCCTTGTCCGACTATATGGCATTAAGA-CTGAA
2634413 TCAAA
1 TCAAA
2634418 TTTCTCTCAC
Statistics
Matches: 45, Mismatches: 4, Indels: 4
0.85 0.08 0.08
Matches are distributed among these distances:
45 15 0.33
46 2 0.04
47 28 0.62
ACGTcount: A:0.28, C:0.23, G:0.13, T:0.36
Consensus pattern (46 bp):
TCAAACTCTTTTTACCCTTGTCCGACTATATGGCATTAAGACTGAA
Found at i:2634575 original size:45 final size:45
Alignment explanation
Indices: 2634495--2634603 Score: 103
Period size: 45 Copynumber: 2.4 Consensus size: 45
2634485 TTGTATTGGT
* * * *
2634495 GTTAGCCTTGGTCAAAATCCTATCATATCTCATTTGACGTGATGG
1 GTTAGCCCTGGTCAAACTCCTATCATATCTCATTTGACGTAAAGG
* * * *
2634540 GTTAGCCCTGGTCAAACTCCTTTTTATAT-TTATTTGATGTAAAGG
1 GTTAGCCCTGGTCAAACTCC-TATCATATCTCATTTGACGTAAAGG
* * *
2634585 TTTAGCTCTAGTCAAACTC
1 GTTAGCCCTGGTCAAACTC
2634604 GGTACATCTA
Statistics
Matches: 52, Mismatches: 11, Indels: 2
0.80 0.17 0.03
Matches are distributed among these distances:
45 46 0.88
46 6 0.12
ACGTcount: A:0.25, C:0.19, G:0.17, T:0.39
Consensus pattern (45 bp):
GTTAGCCCTGGTCAAACTCCTATCATATCTCATTTGACGTAAAGG
Found at i:2635952 original size:168 final size:166
Alignment explanation
Indices: 2635659--2636062 Score: 605
Period size: 168 Copynumber: 2.4 Consensus size: 166
2635649 TGAAATATAA
* * * *
2635659 AGTTTTTTACTCCGTAAATATTTTCAGGGAGATTTTTCTTAGTTTATAATTTTTAAAATTCATCA
1 AGTTTTCTATTCCATAAATATTTTCAGGGAGATTTTTCTTAGTTTATAATTTTTAAAATTCATTA
* *
2635724 ATTATCATCATTTGATTCATAGTAAATCAGTTTTGAAAAATTCATTTATTTTCATAAGTTTTTCA
66 AATATCATCATTTAATTCATAGTAAATCAGTTTTGAAAAATTCATTTATTTTCATAAGTTTTTCA
2635789 TTTTTTCTTTGAAATTCTCTTAATTTCGAAAAAATCG
131 TTTTTTCTTTGAAATTCTCTTAATTTCG-AAAAATCG
2635826 AGTTTTCTATTCCATAAAATATTTTCGAGGG-GATTTTTCTTAGTTTATAATTTTTAAAATTCAT
1 AGTTTTCTATTCCAT-AAATATTTTC-AGGGAGATTTTTCTTAGTTTATAATTTTTAAAATTCAT
* * *
2635890 TAAATATCATCATTTAATTTATAGTAAATCCGTTTTTAAAAATTCATTTATTTTCATAAGTTTTT
64 TAAATATCATCATTTAATTCATAGTAAATCAGTTTTGAAAAATTCATTTATTTTCATAAGTTTTT
* * **
2635955 TATTTTTTCTTTGAAATTTTCTTGTTTTCGAAAAATCG
129 CATTTTTTCTTTGAAATTCTCTTAATTTCGAAAAATCG
* * *
2635993 AGTTTTCTATTCCATAAATGTTTTCAGGGACATTTTTCTT-GATTTAAAATTTTTAAAATTCATT
1 AGTTTTCTATTCCATAAATATTTTCAGGGAGATTTTTCTTAG-TTTATAATTTTTAAAATTCATT
*
2636057 TAATAT
65 AAATAT
2636063 TGTCGTTGAA
Statistics
Matches: 216, Mismatches: 17, Indels: 9
0.89 0.07 0.04
Matches are distributed among these distances:
165 5 0.02
166 44 0.20
167 35 0.16
168 128 0.59
169 4 0.02
ACGTcount: A:0.31, C:0.10, G:0.09, T:0.50
Consensus pattern (166 bp):
AGTTTTCTATTCCATAAATATTTTCAGGGAGATTTTTCTTAGTTTATAATTTTTAAAATTCATTA
AATATCATCATTTAATTCATAGTAAATCAGTTTTGAAAAATTCATTTATTTTCATAAGTTTTTCA
TTTTTTCTTTGAAATTCTCTTAATTTCGAAAAATCG
Found at i:2640331 original size:77 final size:77
Alignment explanation
Indices: 2640204--2640348 Score: 265
Period size: 77 Copynumber: 1.9 Consensus size: 77
2640194 GAAGCCATAT
2640204 TGGAGGTGTTTTTGGTCATTTCTCAAGAAAACAAAGTGCTAACAGCTGATGGCTATAAGGTGGCT
1 TGGAGGTGTTTTTGGTCATTTCTCAAGAAAACAAAGTGCTAACAGCTGATGGCTATAAGGTGGCT
2640269 ATAGGAACCAAA
66 ATAGGAACCAAA
*
2640281 TGGAGGTGTTTTTGGTCATTTCTCAAAGAAAA-AAAGTGCTAACAGCTGATGGTTATAAGGTGGC
1 TGGAGGTGTTTTTGGTCATTTCTC-AAGAAAACAAAGTGCTAACAGCTGATGGCTATAAGGTGGC
2640345 TATA
65 TATA
2640349 AGAAGCAATT
Statistics
Matches: 66, Mismatches: 1, Indels: 2
0.96 0.01 0.03
Matches are distributed among these distances:
77 59 0.89
78 7 0.11
ACGTcount: A:0.32, C:0.12, G:0.26, T:0.30
Consensus pattern (77 bp):
TGGAGGTGTTTTTGGTCATTTCTCAAGAAAACAAAGTGCTAACAGCTGATGGCTATAAGGTGGCT
ATAGGAACCAAA
Found at i:2641257 original size:13 final size:13
Alignment explanation
Indices: 2641239--2641264 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
2641229 CATTTTGGGA
2641239 TGTATCGATACAT
1 TGTATCGATACAT
2641252 TGTATCGATACAT
1 TGTATCGATACAT
2641265 CTTATGTGTA
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:0.31, C:0.15, G:0.15, T:0.38
Consensus pattern (13 bp):
TGTATCGATACAT
Found at i:2641261 original size:33 final size:32
Alignment explanation
Indices: 2641219--2641282 Score: 92
Period size: 33 Copynumber: 2.0 Consensus size: 32
2641209 TACAAGCCAA
* *
2641219 TGTATCGATACATTTTGGGATGTATCGATACAT
1 TGTATCGATACATCTTAGG-TGTATCGATACAT
*
2641252 TGTATCGATACATCTTATGTGTATCGATACA
1 TGTATCGATACATCTTAGGTGTATCGATACA
2641283 AACAGTTAAG
Statistics
Matches: 28, Mismatches: 3, Indels: 1
0.88 0.09 0.03
Matches are distributed among these distances:
32 12 0.43
33 16 0.57
ACGTcount: A:0.28, C:0.14, G:0.19, T:0.39
Consensus pattern (32 bp):
TGTATCGATACATCTTAGGTGTATCGATACAT
Found at i:2643404 original size:20 final size:22
Alignment explanation
Indices: 2643363--2643407 Score: 67
Period size: 20 Copynumber: 2.1 Consensus size: 22
2643353 GCTATGAGTA
*
2643363 TGGGGGCTGCCTGGTTGCGACC
1 TGGGGGCTGCCTGGTCGCGACC
2643385 TGGGGG-TGCC-GGTCGCGACC
1 TGGGGGCTGCCTGGTCGCGACC
2643405 TGG
1 TGG
2643408 TGAGTTCTGC
Statistics
Matches: 22, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
20 12 0.55
21 4 0.18
22 6 0.27
ACGTcount: A:0.04, C:0.27, G:0.49, T:0.20
Consensus pattern (22 bp):
TGGGGGCTGCCTGGTCGCGACC
Found at i:2643706 original size:21 final size:22
Alignment explanation
Indices: 2643676--2643717 Score: 61
Period size: 23 Copynumber: 2.0 Consensus size: 22
2643666 CTGTTGTTGT
2643676 TGATGATTTTG-A-TGAAAAAA
1 TGATGATTTTGAAGTGAAAAAA
2643696 TGATGTATTTTGAAGTGAAAAA
1 TGATG-ATTTTGAAGTGAAAAA
2643718 CAAGAAATTT
Statistics
Matches: 19, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
20 5 0.26
21 6 0.32
22 1 0.05
23 7 0.37
ACGTcount: A:0.43, C:0.00, G:0.21, T:0.36
Consensus pattern (22 bp):
TGATGATTTTGAAGTGAAAAAA
Found at i:2643868 original size:13 final size:13
Alignment explanation
Indices: 2643850--2643887 Score: 67
Period size: 13 Copynumber: 2.9 Consensus size: 13
2643840 ATAAACCCTT
*
2643850 TGTATCGATACAC
1 TGTATCGATACAA
2643863 TGTATCGATACAA
1 TGTATCGATACAA
2643876 TGTATCGATACA
1 TGTATCGATACA
2643888 GAGAATGCTG
Statistics
Matches: 24, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
13 24 1.00
ACGTcount: A:0.34, C:0.18, G:0.16, T:0.32
Consensus pattern (13 bp):
TGTATCGATACAA
Found at i:2647599 original size:13 final size:13
Alignment explanation
Indices: 2647581--2647605 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
2647571 ACATTTGGTC
2647581 ATGTATCGATACA
1 ATGTATCGATACA
2647594 ATGTATCGATAC
1 ATGTATCGATAC
2647606 TATGCAATAT
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.36, C:0.16, G:0.16, T:0.32
Consensus pattern (13 bp):
ATGTATCGATACA
Found at i:2651797 original size:82 final size:82
Alignment explanation
Indices: 2651655--2651814 Score: 302
Period size: 82 Copynumber: 2.0 Consensus size: 82
2651645 TTAATACTAA
* *
2651655 GCAATATATATCAATACATCTAGGTGTGTATCGATACTTTCTAGGGTTTTGACTTTTGTAGCTTA
1 GCAACATATATCAATACATCTAGGTGTGTATCGATACTTTCTAGGGTTTTGACCTTTGTAGCTTA
2651720 AGTCAACTTTTATGTAG
66 AGTCAACTTTTATGTAG
2651737 GCAACATATATCAATACATCTAGGTGTGTATCGATACTTTCTAGGGTTTTGACCTTTGTAGCTTA
1 GCAACATATATCAATACATCTAGGTGTGTATCGATACTTTCTAGGGTTTTGACCTTTGTAGCTTA
2651802 AGTCAACTTTTAT
66 AGTCAACTTTTAT
2651815 ATATCGATAC
Statistics
Matches: 76, Mismatches: 2, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
82 76 1.00
ACGTcount: A:0.27, C:0.15, G:0.17, T:0.41
Consensus pattern (82 bp):
GCAACATATATCAATACATCTAGGTGTGTATCGATACTTTCTAGGGTTTTGACCTTTGTAGCTTA
AGTCAACTTTTATGTAG
Found at i:2652521 original size:22 final size:21
Alignment explanation
Indices: 2652479--2652521 Score: 50
Period size: 22 Copynumber: 2.0 Consensus size: 21
2652469 GGAAAAACAT
* * *
2652479 GATAGAAGTGAAAAGTGAAAG
1 GATAGAAGAGAAAACTAAAAG
2652500 GATAGAAAGAGAAAACTAAAAG
1 GATAG-AAGAGAAAACTAAAAG
2652522 AAATAGAATG
Statistics
Matches: 18, Mismatches: 3, Indels: 1
0.82 0.14 0.05
Matches are distributed among these distances:
21 5 0.28
22 13 0.72
ACGTcount: A:0.58, C:0.02, G:0.28, T:0.12
Consensus pattern (21 bp):
GATAGAAGAGAAAACTAAAAG
Found at i:2652692 original size:19 final size:20
Alignment explanation
Indices: 2652670--2652708 Score: 53
Period size: 19 Copynumber: 2.0 Consensus size: 20
2652660 ATTTACAAGA
*
2652670 TTATTTCTTT-TTTAAAATT
1 TTATCTCTTTATTTAAAATT
*
2652689 TTATCTCTTTATTTTAAATT
1 TTATCTCTTTATTTAAAATT
2652709 ATAAAAAGTA
Statistics
Matches: 17, Mismatches: 2, Indels: 1
0.85 0.10 0.05
Matches are distributed among these distances:
19 9 0.53
20 8 0.47
ACGTcount: A:0.26, C:0.08, G:0.00, T:0.67
Consensus pattern (20 bp):
TTATCTCTTTATTTAAAATT
Found at i:2661620 original size:18 final size:18
Alignment explanation
Indices: 2661599--2661634 Score: 72
Period size: 18 Copynumber: 2.0 Consensus size: 18
2661589 TTAGTAATCC
2661599 ATGTAAATTTAAACTCTA
1 ATGTAAATTTAAACTCTA
2661617 ATGTAAATTTAAACTCTA
1 ATGTAAATTTAAACTCTA
2661635 CACGCTCAAA
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
18 18 1.00
ACGTcount: A:0.44, C:0.11, G:0.06, T:0.39
Consensus pattern (18 bp):
ATGTAAATTTAAACTCTA
Found at i:2661752 original size:23 final size:23
Alignment explanation
Indices: 2661718--2661769 Score: 54
Period size: 24 Copynumber: 2.3 Consensus size: 23
2661708 TTAAAATTTA
2661718 AAATATTAATATG-ATATATG-TT
1 AAATATTAATATGAAT-TATGTTT
* *
2661740 AAATATATCATATTAATTATGTTT
1 AAATAT-TAATATGAATTATGTTT
2661764 AAATAT
1 AAATAT
2661770 GTTATTATAT
Statistics
Matches: 25, Mismatches: 2, Indels: 4
0.81 0.06 0.13
Matches are distributed among these distances:
22 6 0.24
23 9 0.36
24 10 0.40
ACGTcount: A:0.46, C:0.02, G:0.06, T:0.46
Consensus pattern (23 bp):
AAATATTAATATGAATTATGTTT
Found at i:2673111 original size:19 final size:20
Alignment explanation
Indices: 2673087--2673140 Score: 74
Period size: 21 Copynumber: 2.7 Consensus size: 20
2673077 ATCGATATAA
**
2673087 TGTATCGATACATGTTC-AT
1 TGTATCGATACATGGACAAT
2673106 TGTATCGATACATGGACAAAT
1 TGTATCGATACATGGAC-AAT
2673127 TGTATCGATACATG
1 TGTATCGATACATG
2673141 AAACTGGCAG
Statistics
Matches: 31, Mismatches: 2, Indels: 2
0.89 0.06 0.06
Matches are distributed among these distances:
19 15 0.48
21 16 0.52
ACGTcount: A:0.31, C:0.15, G:0.19, T:0.35
Consensus pattern (20 bp):
TGTATCGATACATGGACAAT
Found at i:2673114 original size:32 final size:33
Alignment explanation
Indices: 2673053--2673115 Score: 92
Period size: 33 Copynumber: 1.9 Consensus size: 33
2673043 ACACACCTAG
*
2673053 ATGTATCAATACATGCTGCTTTGTATCGATATA
1 ATGTATCAATACATGCTGCATTGTATCGATATA
* *
2673086 ATGTATCGATACATG-TTCATTGTATCGATA
1 ATGTATCAATACATGCTGCATTGTATCGATA
2673116 CATGGACAAA
Statistics
Matches: 27, Mismatches: 3, Indels: 1
0.87 0.10 0.03
Matches are distributed among these distances:
32 13 0.48
33 14 0.52
ACGTcount: A:0.30, C:0.14, G:0.16, T:0.40
Consensus pattern (33 bp):
ATGTATCAATACATGCTGCATTGTATCGATATA
Found at i:2682638 original size:15 final size:15
Alignment explanation
Indices: 2682618--2682648 Score: 53
Period size: 15 Copynumber: 2.1 Consensus size: 15
2682608 TAAAAATGTC
*
2682618 CAAAATGAGGAAGCT
1 CAAAATGAAGAAGCT
2682633 CAAAATGAAGAAGCT
1 CAAAATGAAGAAGCT
2682648 C
1 C
2682649 CAAACGAAAT
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
15 15 1.00
ACGTcount: A:0.48, C:0.16, G:0.23, T:0.13
Consensus pattern (15 bp):
CAAAATGAAGAAGCT
Found at i:2684743 original size:13 final size:13
Alignment explanation
Indices: 2684725--2684750 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
2684715 ACATTTTTCT
2684725 TTGTATCGATACA
1 TTGTATCGATACA
2684738 TTGTATCGATACA
1 TTGTATCGATACA
2684751 GGGTGATTAT
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:0.31, C:0.15, G:0.15, T:0.38
Consensus pattern (13 bp):
TTGTATCGATACA
Found at i:2684914 original size:20 final size:20
Alignment explanation
Indices: 2684871--2684916 Score: 58
Period size: 21 Copynumber: 2.2 Consensus size: 20
2684861 AAATCTTTTG
2684871 CAAAATACTTGTTTTTCACTT
1 CAAAATACTTGTTTTTCAC-T
*
2684892 CAAATTACTTCGTTTTTCA-T
1 CAAAATACTT-GTTTTTCACT
2684912 CAAAA
1 CAAAA
2684917 CCAGCATCAA
Statistics
Matches: 22, Mismatches: 2, Indels: 3
0.81 0.07 0.11
Matches are distributed among these distances:
20 5 0.23
21 9 0.41
22 8 0.36
ACGTcount: A:0.33, C:0.20, G:0.04, T:0.43
Consensus pattern (20 bp):
CAAAATACTTGTTTTTCACT
Found at i:2688631 original size:13 final size:13
Alignment explanation
Indices: 2688613--2688637 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
2688603 CATGCTGCTT
2688613 TGTATCGATACAA
1 TGTATCGATACAA
2688626 TGTATCGATACA
1 TGTATCGATACA
2688638 TGTTCATTGT
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.36, C:0.16, G:0.16, T:0.32
Consensus pattern (13 bp):
TGTATCGATACAA
Found at i:2688634 original size:33 final size:32
Alignment explanation
Indices: 2688592--2688654 Score: 99
Period size: 33 Copynumber: 1.9 Consensus size: 32
2688582 ACACACCCAG
*
2688592 ATGTATCGATACATGCTGCTTTGTATCGATACA
1 ATGTATCGATACATG-TGCATTGTATCGATACA
*
2688625 ATGTATCGATACATGTTCATTGTATCGATA
1 ATGTATCGATACATGTGCATTGTATCGATA
2688655 TATGGACAAA
Statistics
Matches: 28, Mismatches: 2, Indels: 1
0.90 0.06 0.03
Matches are distributed among these distances:
32 13 0.46
33 15 0.54
ACGTcount: A:0.29, C:0.16, G:0.17, T:0.38
Consensus pattern (32 bp):
ATGTATCGATACATGTGCATTGTATCGATACA
Found at i:2688650 original size:19 final size:20
Alignment explanation
Indices: 2688622--2688679 Score: 66
Period size: 19 Copynumber: 3.0 Consensus size: 20
2688612 TTGTATCGAT
*
2688622 ACAA-TGTATCGATACATGT
1 ACAATTGTATCGATACATGG
* *
2688641 TC-ATTGTATCGATATATGG
1 ACAATTGTATCGATACATGG
2688660 ACAAATTGTATCGATACATG
1 AC-AATTGTATCGATACATG
2688680 AAACTGGCAG
Statistics
Matches: 31, Mismatches: 5, Indels: 4
0.77 0.12 0.10
Matches are distributed among these distances:
18 1 0.03
19 15 0.48
21 15 0.48
ACGTcount: A:0.34, C:0.14, G:0.17, T:0.34
Consensus pattern (20 bp):
ACAATTGTATCGATACATGG
Found at i:2688750 original size:33 final size:32
Alignment explanation
Indices: 2688708--2688771 Score: 94
Period size: 33 Copynumber: 1.9 Consensus size: 32
2688698 CTATTATTAT
2688708 TTGTATCGATACATG-GTACAATGTATCGATAAA
1 TTGTATCGATACATGAG-A-AATGTATCGATAAA
2688741 TTGTATCGATACATGAAGAAATGTATCGATA
1 TTGTATCGATACATG-AGAAATGTATCGATA
2688772 CATAGCTTGT
Statistics
Matches: 29, Mismatches: 0, Indels: 4
0.88 0.00 0.12
Matches are distributed among these distances:
33 27 0.93
34 1 0.03
35 1 0.03
ACGTcount: A:0.38, C:0.11, G:0.19, T:0.33
Consensus pattern (32 bp):
TTGTATCGATACATGAGAAATGTATCGATAAA
Found at i:2689551 original size:21 final size:21
Alignment explanation
Indices: 2689527--2689581 Score: 101
Period size: 21 Copynumber: 2.6 Consensus size: 21
2689517 ACAACAAGTT
2689527 AATGTATTGATACATACTTGC
1 AATGTATTGATACATACTTGC
2689548 AATGTATTGATACATACTTGC
1 AATGTATTGATACATACTTGC
*
2689569 AATGTATCGATAC
1 AATGTATTGATAC
2689582 TAGACCATTT
Statistics
Matches: 33, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
21 33 1.00
ACGTcount: A:0.35, C:0.15, G:0.15, T:0.36
Consensus pattern (21 bp):
AATGTATTGATACATACTTGC
Found at i:2689651 original size:20 final size:20
Alignment explanation
Indices: 2689628--2689694 Score: 62
Period size: 20 Copynumber: 3.3 Consensus size: 20
2689618 AATTGTATCA
*
2689628 ATACATAAGTGAATGTATTG
1 ATACATAATTGAATGTATTG
** *
2689648 ATACATGCTTGCAATGTATCG
1 ATACATAATTG-AATGTATTG
* * *
2689669 ATACATTATTCATTGTATTG
1 ATACATAATTGAATGTATTG
2689689 ATACAT
1 ATACAT
2689695 TCTGGGTTTT
Statistics
Matches: 37, Mismatches: 9, Indels: 2
0.77 0.19 0.04
Matches are distributed among these distances:
20 21 0.57
21 16 0.43
ACGTcount: A:0.34, C:0.12, G:0.15, T:0.39
Consensus pattern (20 bp):
ATACATAATTGAATGTATTG
Found at i:2689695 original size:20 final size:21
Alignment explanation
Indices: 2689639--2689695 Score: 71
Period size: 21 Copynumber: 2.8 Consensus size: 21
2689629 TACATAAGTG
**
2689639 AATGTATTGATACATGCTTGC
1 AATGTATTGATACATTATTGC
*
2689660 AATGTATCGATACATTATT-C
1 AATGTATTGATACATTATTGC
*
2689680 ATTGTATTGATACATT
1 AATGTATTGATACATT
2689696 CTGGGTTTTT
Statistics
Matches: 31, Mismatches: 5, Indels: 1
0.84 0.14 0.03
Matches are distributed among these distances:
20 15 0.48
21 16 0.52
ACGTcount: A:0.32, C:0.12, G:0.14, T:0.42
Consensus pattern (21 bp):
AATGTATTGATACATTATTGC
Found at i:2693416 original size:21 final size:21
Alignment explanation
Indices: 2693377--2693416 Score: 53
Period size: 21 Copynumber: 1.9 Consensus size: 21
2693367 TTTTTGCAAC
* **
2693377 TGCATTTATATACTTATACCA
1 TGCATATATATACCCATACCA
2693398 TGCATATATATACCCATAC
1 TGCATATATATACCCATAC
2693417 ATATACATAT
Statistics
Matches: 16, Mismatches: 3, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
21 16 1.00
ACGTcount: A:0.35, C:0.23, G:0.05, T:0.38
Consensus pattern (21 bp):
TGCATATATATACCCATACCA
Found at i:2699404 original size:20 final size:21
Alignment explanation
Indices: 2699357--2699409 Score: 72
Period size: 20 Copynumber: 2.6 Consensus size: 21
2699347 GCCAATGACC
**
2699357 TGTATCGATACATTCTTTTCA
1 TGTATCGATACATTCTGGTCA
*
2699378 AGTATCGATACATT-TGGTCA
1 TGTATCGATACATTCTGGTCA
2699398 TGTATCGATACA
1 TGTATCGATACA
2699410 ATGCAATCTG
Statistics
Matches: 28, Mismatches: 4, Indels: 1
0.85 0.12 0.03
Matches are distributed among these distances:
20 15 0.54
21 13 0.46
ACGTcount: A:0.28, C:0.17, G:0.15, T:0.40
Consensus pattern (21 bp):
TGTATCGATACATTCTGGTCA
Found at i:2700667 original size:21 final size:21
Alignment explanation
Indices: 2700636--2700687 Score: 61
Period size: 20 Copynumber: 2.4 Consensus size: 21
2700626 ACTGCTAGTG
* *
2700636 TGGGGGCTGCCCGGTTGCGACC
1 TGGGGG-TGCCCGATCGCGACC
2700658 TGGGGGTG-CCGATCGCGACC
1 TGGGGGTGCCCGATCGCGACC
2700678 TGGTGGGTGC
1 TGG-GGGTGC
2700688 TGCCTAGAGG
Statistics
Matches: 26, Mismatches: 2, Indels: 4
0.81 0.06 0.12
Matches are distributed among these distances:
20 13 0.50
21 7 0.27
22 6 0.23
ACGTcount: A:0.06, C:0.27, G:0.48, T:0.19
Consensus pattern (21 bp):
TGGGGGTGCCCGATCGCGACC
Found at i:2701139 original size:13 final size:13
Alignment explanation
Indices: 2701121--2701159 Score: 69
Period size: 13 Copynumber: 3.0 Consensus size: 13
2701111 ATAAACCCTT
*
2701121 TGTATCGATACAC
1 TGTATCGATACAA
2701134 TGTATCGATACAA
1 TGTATCGATACAA
2701147 TGTATCGATACAA
1 TGTATCGATACAA
2701160 AGAATGCTGT
Statistics
Matches: 25, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
13 25 1.00
ACGTcount: A:0.36, C:0.18, G:0.15, T:0.31
Consensus pattern (13 bp):
TGTATCGATACAA
Found at i:2706763 original size:33 final size:32
Alignment explanation
Indices: 2706726--2706793 Score: 109
Period size: 33 Copynumber: 2.1 Consensus size: 32
2706716 CGTTACAAGC
*
2706726 CAATGTATCGATACATTTTATGATGTATCGATA
1 CAATGTATCGATACATATTATG-TGTATCGATA
*
2706759 CAATGTATCGATACATATTGTGTGTATCGATA
1 CAATGTATCGATACATATTATGTGTATCGATA
2706791 CAA
1 CAA
2706794 ATTTGGCTAC
Statistics
Matches: 33, Mismatches: 2, Indels: 1
0.92 0.06 0.03
Matches are distributed among these distances:
32 13 0.39
33 20 0.61
ACGTcount: A:0.34, C:0.13, G:0.16, T:0.37
Consensus pattern (32 bp):
CAATGTATCGATACATATTATGTGTATCGATA
Found at i:2706766 original size:13 final size:13
Alignment explanation
Indices: 2706748--2706773 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
2706738 ACATTTTATG
2706748 ATGTATCGATACA
1 ATGTATCGATACA
2706761 ATGTATCGATACA
1 ATGTATCGATACA
2706774 TATTGTGTGT
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:0.38, C:0.15, G:0.15, T:0.31
Consensus pattern (13 bp):
ATGTATCGATACA
Found at i:2706873 original size:20 final size:21
Alignment explanation
Indices: 2706826--2706878 Score: 72
Period size: 20 Copynumber: 2.6 Consensus size: 21
2706816 GCCAATGACC
**
2706826 TGTATCGATACATTCTTTTCA
1 TGTATCGATACATTCTGGTCA
*
2706847 AGTATCGATACATT-TGGTCA
1 TGTATCGATACATTCTGGTCA
2706867 TGTATCGATACA
1 TGTATCGATACA
2706879 ATGCAATCTG
Statistics
Matches: 28, Mismatches: 4, Indels: 1
0.85 0.12 0.03
Matches are distributed among these distances:
20 15 0.54
21 13 0.46
ACGTcount: A:0.28, C:0.17, G:0.15, T:0.40
Consensus pattern (21 bp):
TGTATCGATACATTCTGGTCA
Found at i:2708204 original size:79 final size:79
Alignment explanation
Indices: 2708115--2708490 Score: 389
Period size: 79 Copynumber: 4.8 Consensus size: 79
2708105 TTCATCTCGA
* * * *
2708115 GGATACTCCAACCCCGGTTTTATTTCCAAAACATCAATTTTTCATAATCGAGGATACTCCAATCC
1 GGATACTCCAACCTCGGTTTTATTTCCAAAACATCGATTTTTCATAATCGGGGATACTCCAACCC
*
2708180 TTTTATTTTCGAGG
66 TGTTATTTTCGAGG
* * * * * *
2708194 GGATACTCCAACCTCGGCTTTATTTCTAAAATATTGATTTCTCACAATCGGGGATACTCCAACCC
1 GGATACTCCAACCTCGGTTTTATTTCCAAAACATCGATTTTTCATAATCGGGGATACTCCAACCC
* *
2708259 CGTTATTTTGGCA-G
66 TGTTATTTTCG-AGG
* ** * * * *
2708273 AGATACTCCAACCTCGGCCTTATTTCTAAAGCATCGATTTTCCACAATCGGGGATACTCCAACCC
1 GGATACTCCAACCTCGGTTTTATTTCCAAAACATCGATTTTTCATAATCGGGGATACTCCAACCC
*
2708338 TGTTATTTTC-AAG
66 TGTTATTTTCGAGG
* ** * * * ** *
2708351 GGATACTCCAACCCCAATTTTATTTTCAAAGCGTCGA-TTTTCTATAATCAAGGATACTTCAACC
1 GGATACTCCAACCTCGGTTTTATTTCCAAAACATCGATTTTTC-ATAATCGGGGATACTCCAACC
*
2708415 CTATTATTTTCGAGG
65 CTGTTATTTTCGAGG
* * * * *
2708430 GGATACTCCAACCTTGATTTTATTTTCAAAACACCGATTTTCCATAATCGGGGATACTCCA
1 GGATACTCCAACCTCGGTTTTATTTCCAAAACATCGATTTTTCATAATCGGGGATACTCCA
2708491 TCCCCGTTGT
Statistics
Matches: 244, Mismatches: 48, Indels: 10
0.81 0.16 0.03
Matches are distributed among these distances:
77 5 0.02
78 56 0.23
79 178 0.73
80 5 0.02
ACGTcount: A:0.28, C:0.25, G:0.14, T:0.34
Consensus pattern (79 bp):
GGATACTCCAACCTCGGTTTTATTTCCAAAACATCGATTTTTCATAATCGGGGATACTCCAACCC
TGTTATTTTCGAGG
Found at i:2708435 original size:157 final size:158
Alignment explanation
Indices: 2708115--2708490 Score: 402
Period size: 157 Copynumber: 2.4 Consensus size: 158
2708105 TTCATCTCGA
* * * * * *
2708115 GGATACTCCAACCCCGGTTTTATTTCCAAAACATCAATTTTTCATAATCGAGGATACTCCAATCC
1 GGATACTCCAACCTCGGTTTTATTTCTAAAACATCGATTTTCCATAATCGGGGATACTCCAACCC
* * * ** * * **
2708180 TTTTATTTTCGAGGGGATACTCCAACCTCGGCTTTATTTCTAAAATATTGATTTCTCACAATCGG
66 TGTTATTTTCGAAGGGATACTCCAACCCCAACTTTATTTCTAAAACATCGATTTCTCACAATCAA
* *
2708245 GGATACTCCAACCCCGTTATTTTGGCAG
131 GGATACTCCAACCCCATTATTTTCGCAG
* ** * *
2708273 AGATACTCCAACCTCGGCCTTATTTCTAAAGCATCGATTTTCCACAATCGGGGATACTCCAACCC
1 GGATACTCCAACCTCGGTTTTATTTCTAAAACATCGATTTTCCATAATCGGGGATACTCCAACCC
* * * *
2708338 TGTTATTTTC-AAGGGATACTCCAACCCCAATTTTATTT-TCAAAGCGTCGATTT-TCTATAATC
66 TGTTATTTTCGAAGGGATACTCCAACCCCAACTTTATTTCT-AAAACATCGATTTCTC-ACAATC
* *
2708400 AAGGATACTTCAACCCTATTATTTTCG-AGG
129 AAGGATACTCCAACCCCATTATTTTCGCA-G
* * *
2708430 GGATACTCCAACCTTGATTTTATTT-TCAAAACACCGATTTTCCATAATCGGGGATACTCCA
1 GGATACTCCAACCTCGGTTTTATTTCT-AAAACATCGATTTTCCATAATCGGGGATACTCCA
2708491 TCCCCGTTGT
Statistics
Matches: 178, Mismatches: 36, Indels: 9
0.80 0.16 0.04
Matches are distributed among these distances:
156 5 0.03
157 110 0.62
158 63 0.35
ACGTcount: A:0.28, C:0.25, G:0.14, T:0.34
Consensus pattern (158 bp):
GGATACTCCAACCTCGGTTTTATTTCTAAAACATCGATTTTCCATAATCGGGGATACTCCAACCC
TGTTATTTTCGAAGGGATACTCCAACCCCAACTTTATTTCTAAAACATCGATTTCTCACAATCAA
GGATACTCCAACCCCATTATTTTCGCAG
Found at i:2708593 original size:11 final size:11
Alignment explanation
Indices: 2708579--2708611 Score: 66
Period size: 11 Copynumber: 3.0 Consensus size: 11
2708569 CTCTATTTCT
2708579 TTTTAAATTCC
1 TTTTAAATTCC
2708590 TTTTAAATTCC
1 TTTTAAATTCC
2708601 TTTTAAATTCC
1 TTTTAAATTCC
2708612 AAACTTTTCT
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 22 1.00
ACGTcount: A:0.27, C:0.18, G:0.00, T:0.55
Consensus pattern (11 bp):
TTTTAAATTCC
Found at i:2712218 original size:13 final size:13
Alignment explanation
Indices: 2712200--2712225 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
2712190 CAATTTTTTG
2712200 TGTATCGATACAT
1 TGTATCGATACAT
2712213 TGTATCGATACAT
1 TGTATCGATACAT
2712226 ACTTTGGTGT
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:0.31, C:0.15, G:0.15, T:0.38
Consensus pattern (13 bp):
TGTATCGATACAT
Found at i:2712222 original size:33 final size:33
Alignment explanation
Indices: 2712180--2712244 Score: 96
Period size: 33 Copynumber: 2.0 Consensus size: 33
2712170 TACAAGCTAA
* *
2712180 TGTATCGATACA-ATTTTTTGTGTATCGATACAT
1 TGTATCGATACATA-CTTTGGTGTATCGATACAT
2712213 TGTATCGATACATACTTTGGTGTATCGATACA
1 TGTATCGATACATACTTTGGTGTATCGATACA
2712245 AGTTTGGCTA
Statistics
Matches: 29, Mismatches: 2, Indels: 2
0.88 0.06 0.06
Matches are distributed among these distances:
33 28 0.97
34 1 0.03
ACGTcount: A:0.28, C:0.14, G:0.17, T:0.42
Consensus pattern (33 bp):
TGTATCGATACATACTTTGGTGTATCGATACAT
Found at i:2712951 original size:39 final size:39
Alignment explanation
Indices: 2712875--2712965 Score: 98
Period size: 39 Copynumber: 2.3 Consensus size: 39
2712865 TTTTCTTTCT
2712875 CCCTTAACTAAAGTAATTTTAACAAATTCATACATTCTCC
1 CCCTTAACTAAAGTAATTTTAACAAATT-ATACATTCTCC
*
2712915 CCCTTAA-T-AAGATAATTTTAGCAAATT-TACGTATTCTCC
1 CCCTTAACTAAAG-TAATTTTAACAAATTATAC--ATTCTCC
* *
2712954 CCTTTTACTAAA
1 CCCTTAACTAAA
2712966 AATATCTCCC
Statistics
Matches: 43, Mismatches: 3, Indels: 9
0.78 0.05 0.16
Matches are distributed among these distances:
37 3 0.07
38 3 0.07
39 27 0.63
40 8 0.19
41 2 0.05
ACGTcount: A:0.35, C:0.23, G:0.04, T:0.37
Consensus pattern (39 bp):
CCCTTAACTAAAGTAATTTTAACAAATTATACATTCTCC
Found at i:2714354 original size:21 final size:20
Alignment explanation
Indices: 2714325--2714367 Score: 59
Period size: 20 Copynumber: 2.1 Consensus size: 20
2714315 GACTAGTGTG
*
2714325 GGGACTGCCCGGTTGTGACCT
1 GGGACTG-CCGGTCGTGACCT
*
2714346 GGGAGTGCCGGTCGTGACCT
1 GGGACTGCCGGTCGTGACCT
2714366 GG
1 GG
2714368 TGGTGCTGCC
Statistics
Matches: 20, Mismatches: 2, Indels: 1
0.87 0.09 0.04
Matches are distributed among these distances:
20 14 0.70
21 6 0.30
ACGTcount: A:0.09, C:0.26, G:0.44, T:0.21
Consensus pattern (20 bp):
GGGACTGCCGGTCGTGACCT
Found at i:2715036 original size:8 final size:8
Alignment explanation
Indices: 2715023--2715054 Score: 64
Period size: 8 Copynumber: 4.0 Consensus size: 8
2715013 CATCATTCAA
2715023 CACAAAAT
1 CACAAAAT
2715031 CACAAAAT
1 CACAAAAT
2715039 CACAAAAT
1 CACAAAAT
2715047 CACAAAAT
1 CACAAAAT
2715055 TTAATCAAAT
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
8 24 1.00
ACGTcount: A:0.62, C:0.25, G:0.00, T:0.12
Consensus pattern (8 bp):
CACAAAAT
Found at i:2716930 original size:15 final size:15
Alignment explanation
Indices: 2716910--2716940 Score: 53
Period size: 15 Copynumber: 2.1 Consensus size: 15
2716900 ATTTCGTTTG
*
2716910 GAGCTTCTTCATTTT
1 GAGCTTCCTCATTTT
2716925 GAGCTTCCTCATTTT
1 GAGCTTCCTCATTTT
2716940 G
1 G
2716941 GACATTTTTA
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
15 15 1.00
ACGTcount: A:0.13, C:0.23, G:0.16, T:0.48
Consensus pattern (15 bp):
GAGCTTCCTCATTTT
Found at i:2720431 original size:13 final size:13
Alignment explanation
Indices: 2720413--2720438 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
2720403 CAATTTTTTG
2720413 TGTATCGATACAT
1 TGTATCGATACAT
2720426 TGTATCGATACAT
1 TGTATCGATACAT
2720439 ACTTTGGTGT
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:0.31, C:0.15, G:0.15, T:0.38
Consensus pattern (13 bp):
TGTATCGATACAT
Found at i:2720435 original size:33 final size:33
Alignment explanation
Indices: 2720393--2720457 Score: 96
Period size: 33 Copynumber: 2.0 Consensus size: 33
2720383 TACAAGCCAA
* *
2720393 TGTATCGATACA-ATTTTTTGTGTATCGATACAT
1 TGTATCGATACATA-CTTTGGTGTATCGATACAT
2720426 TGTATCGATACATACTTTGGTGTATCGATACA
1 TGTATCGATACATACTTTGGTGTATCGATACA
2720458 AGTTTGGCTA
Statistics
Matches: 29, Mismatches: 2, Indels: 2
0.88 0.06 0.06
Matches are distributed among these distances:
33 28 0.97
34 1 0.03
ACGTcount: A:0.28, C:0.14, G:0.17, T:0.42
Consensus pattern (33 bp):
TGTATCGATACATACTTTGGTGTATCGATACAT
Found at i:2721593 original size:25 final size:26
Alignment explanation
Indices: 2721565--2721615 Score: 68
Period size: 26 Copynumber: 2.0 Consensus size: 26
2721555 TTTAATTCAC
* *
2721565 ATTTAATTAGTT-TTGATTTTTTTTT
1 ATTTAATGAGTTATTGATTTTCTTTT
*
2721590 ATTTCATGAGTTATTGATTTTCTTTT
1 ATTTAATGAGTTATTGATTTTCTTTT
2721616 GAAATTTTTC
Statistics
Matches: 22, Mismatches: 3, Indels: 1
0.85 0.12 0.04
Matches are distributed among these distances:
25 10 0.45
26 12 0.55
ACGTcount: A:0.20, C:0.04, G:0.10, T:0.67
Consensus pattern (26 bp):
ATTTAATGAGTTATTGATTTTCTTTT
Found at i:2721738 original size:163 final size:161
Alignment explanation
Indices: 2721534--2721953 Score: 395
Period size: 164 Copynumber: 2.6 Consensus size: 161
2721524 TTTGAACATC
* * * * * * *
2721534 AAAATTCTTTAAATATTATCATTTAATTCACATTTAATTAGTTTT-GATTTTTTTTTATTTCATG
1 AAAATTCATAAAATATCATCATTTAATTCACATTAAATTAGTTTTAAAATTCTTTTTA-TTCATG
* * * * * *
2721598 AGTTATTGATTTTCTT-TTGAAATTTTTCTATTTTTGAAATA-ATGAGTTTTCTTCTCTTTAAAT
65 AGTTATTCATTTT-TTCTTAAAATTTTTCTATTTTCGAAATATA-GAGTTCTCTACTC-ATAAAT
* * **
2721661 -TTTTTGTGGGAGGA-TTTTCACTGGTTTATAAATTTT
127 ATTGTTG-AGG-GGATTTTTC-CTCATTTATAAATTTT
* *
2721697 AAAATTCATCAAATATCATCATTTAATTTACATTAAATTAGTTTTAAAAAATTCTTTTTATTCAT
1 AAAATTCATAAAATATCATCATTTAATTCACATTAAATTAGTTTT--AAAATTCTTTTTATTCAT
* *
2721762 GATTTTTTCATTTTTTCCTTAAAATTTTTCTATTTTCGAAATATAGAGTTCTCTACTCATAAATA
64 GAGTTATTCATTTTTT-CTTAAAATTTTTCTATTTTCGAAATATAGAGTTCTCTACTCATAAATA
* *
2721827 TTGTTGAGGGGATTTTTCTTCATTTATAATTTTT
128 TTGTTGAGGGGATTTTTCCTCATTTATAAATTTT
* * * *
2721861 AAAATTCATAAAATAACATCATTTAATTCATAGTAAATTAGTTTTAAAAAATT-TATTTATTTTC
1 AAAATTCATAAAATATCATCATTTAATTCACATTAAATTAGTTTT--AAAATTCT-TTT-TATTC
* *
2721925 ATAAGTTTTTCA-TTTTTCTATAAAATTTT
62 ATGAGTTATTCATTTTTTCT-TAAAATTTT
2721954 CATGTTTTTG
Statistics
Matches: 216, Mismatches: 30, Indels: 21
0.81 0.11 0.08
Matches are distributed among these distances:
163 43 0.20
164 82 0.38
165 42 0.19
166 48 0.22
167 1 0.00
ACGTcount: A:0.32, C:0.09, G:0.07, T:0.52
Consensus pattern (161 bp):
AAAATTCATAAAATATCATCATTTAATTCACATTAAATTAGTTTTAAAATTCTTTTTATTCATGA
GTTATTCATTTTTTCTTAAAATTTTTCTATTTTCGAAATATAGAGTTCTCTACTCATAAATATTG
TTGAGGGGATTTTTCCTCATTTATAAATTTT
Found at i:2722385 original size:151 final size:151
Alignment explanation
Indices: 2722059--2722566 Score: 517
Period size: 151 Copynumber: 3.3 Consensus size: 151
2722049 AGAATCCCTT
* * * * * * *
2722059 TAAATCAGTTTTCAAAAATTCAATTTATTTTATAAGTTTTAAAATTTTTCATATTATCGAAATAC
1 TAAATCAATTTTGAAAAATTTAATTTATTTTATGAGTTTTAGAATTTTTCCTATTATCAAAATAC
* * * * * * * * *
2722124 GTAGTTTTCTTCTCTGTAAATTTGTTGGTAAGATTTTTTTTATGTCTATAATTTTTAACATTCTT
66 GAAG-TTTCTTTTCTTTAAATTT-TTGGCAAGA-TTTTTCTAAGTTTATAATTTTCAAAATTCTT
* *
2722189 CAAATATTATTATGTAATTGATAG
128 CAAATATTATTATTTAATTCATAG
* * *
2722213 TAAATTAGTTTTGAAATATTTAATTTATTTTATGAGTTTTAGAATTTTTCCTATTATCAAAATAC
1 TAAATCAATTTTGAAAAATTTAATTTATTTTATGAGTTTTAGAATTTTTCCTATTATCAAAATAC
*
2722278 GAAGTTTCTTTTTTTTAAATTTTTGGCAAGATTTTTCTAAGTTTATAATTTTCAAAATTCTTCAA
66 GAAGTTTCTTTTCTTTAAATTTTTGGCAAGATTTTTCTAAGTTTATAATTTTCAAAATTCTTCAA
*
2722343 ATATTATTATTTAATTCATAT
131 ATATTATTATTTAATTCATAG
* * *
2722364 TAAATCAATTTTGAAAAATTTAATTTATTTTATGAGTTTTAGAATTTTTTCTGTT-TCCAAAAAA
1 TAAATCAATTTTGAAAAATTTAATTTATTTTATGAGTTTTAGAATTTTTCCTATTAT-CAAAATA
* * * * * * ** * *
2722428 CAAAATTT-TATACTCCGTAAAATTTTTTCGCCGGA-TTTTCTCAA-TTCAAAATTTTCAAAATT
65 CGAAGTTTCT-T--TTCTTTAAA-TTTTTGGCAAGATTTTTCT-AAGTTTATAATTTTCAAAATT
2722490 CTTGC-AATATTATTATTTAATTCATAG
125 CTT-CAAATATTATTATTTAATTCATAG
*
2722517 TAAATCAATTTT-AGAAAATTTAATTTATTTTCTTTGAGTTTT-GAATTTTT
1 TAAATCAATTTTGA-AAAATTTAATTTA-TTT-TATGAGTTTTAGAATTTTT
2722567 TTCACATACA
Statistics
Matches: 304, Mismatches: 40, Indels: 20
0.84 0.11 0.05
Matches are distributed among these distances:
150 2 0.01
151 110 0.36
152 9 0.03
153 91 0.30
154 83 0.27
155 9 0.03
ACGTcount: A:0.33, C:0.09, G:0.08, T:0.50
Consensus pattern (151 bp):
TAAATCAATTTTGAAAAATTTAATTTATTTTATGAGTTTTAGAATTTTTCCTATTATCAAAATAC
GAAGTTTCTTTTCTTTAAATTTTTGGCAAGATTTTTCTAAGTTTATAATTTTCAAAATTCTTCAA
ATATTATTATTTAATTCATAG
Found at i:2722699 original size:16 final size:16
Alignment explanation
Indices: 2722678--2722717 Score: 71
Period size: 16 Copynumber: 2.5 Consensus size: 16
2722668 AGAATTGATT
2722678 TTAATTTTAACTTTTC
1 TTAATTTTAACTTTTC
*
2722694 TTAATTTTAATTTTTC
1 TTAATTTTAACTTTTC
2722710 TTAATTTT
1 TTAATTTT
2722718 TAATTTATTT
Statistics
Matches: 23, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
16 23 1.00
ACGTcount: A:0.25, C:0.07, G:0.00, T:0.68
Consensus pattern (16 bp):
TTAATTTTAACTTTTC
Found at i:2722732 original size:16 final size:15
Alignment explanation
Indices: 2722676--2722740 Score: 69
Period size: 16 Copynumber: 4.1 Consensus size: 15
2722666 TGAGAATTGA
2722676 TTTTAATTTTAACTTT
1 TTTTAATTTTAA-TTT
*
2722692 TCTTAATTTTAATTT
1 TTTTAATTTTAATTT
2722707 TTCTTAATTTTTAATTT
1 TT-TTAA-TTTTAATTT
2722724 ATTTT-ATTTTAAATTT
1 -TTTTAATTTT-AATTT
2722740 T
1 T
2722741 ATTGGCTAAA
Statistics
Matches: 43, Mismatches: 2, Indels: 9
0.80 0.04 0.17
Matches are distributed among these distances:
15 9 0.21
16 21 0.49
17 11 0.26
18 2 0.05
ACGTcount: A:0.26, C:0.05, G:0.00, T:0.69
Consensus pattern (15 bp):
TTTTAATTTTAATTT
Found at i:2727573 original size:12 final size:11
Alignment explanation
Indices: 2727552--2727609 Score: 61
Period size: 10 Copynumber: 5.5 Consensus size: 11
2727542 AGTTTTCTAA
2727552 TTTTTC-TCTC
1 TTTTTCTTCTC
2727562 TATTTTCTTCTC
1 T-TTTTCTTCTC
*
2727574 TCTTTCTT-TC
1 TTTTTCTTCTC
2727584 TTTTT-TTCTC
1 TTTTTCTTCTC
2727594 TTTTT-TTCTC
1 TTTTTCTTCTC
2727604 TCTTTT
1 T-TTTT
2727610 TTTTAGCTAA
Statistics
Matches: 42, Mismatches: 2, Indels: 7
0.82 0.04 0.14
Matches are distributed among these distances:
9 2 0.05
10 20 0.48
11 15 0.36
12 5 0.12
ACGTcount: A:0.02, C:0.24, G:0.00, T:0.74
Consensus pattern (11 bp):
TTTTTCTTCTC
Found at i:2727589 original size:22 final size:22
Alignment explanation
Indices: 2727554--2727612 Score: 66
Period size: 22 Copynumber: 2.7 Consensus size: 22
2727544 TTTTCTAATT
*
2727554 TTTCTCTC-TATTTTCTTCTCTC
1 TTTCTCTCTTTTTTTC-TCTCTC
* * *
2727576 TTTCTTTCTTTTTTTCTCTTTT
1 TTTCTCTCTTTTTTTCTCTCTC
2727598 TTTCTCTCTTTTTTT
1 TTTCTCTCTTTTTTT
2727613 TAGCTAAACT
Statistics
Matches: 31, Mismatches: 5, Indels: 2
0.82 0.13 0.05
Matches are distributed among these distances:
22 25 0.81
23 6 0.19
ACGTcount: A:0.02, C:0.24, G:0.00, T:0.75
Consensus pattern (22 bp):
TTTCTCTCTTTTTTTCTCTCTC
Found at i:2727610 original size:12 final size:12
Alignment explanation
Indices: 2727552--2727612 Score: 58
Period size: 11 Copynumber: 5.4 Consensus size: 12
2727542 AGTTTTCTAA
2727552 TTTTTCTCTC-T
1 TTTTTCTCTCTT
* *
2727563 ATTTTCT-TCTC
1 TTTTTCTCTCTT
* *
2727574 TCTTTCTTTC-T
1 TTTTTCTCTCTT
2727585 TTTTT-TCTCTT
1 TTTTTCTCTCTT
2727596 TTTTTCTCTCTT
1 TTTTTCTCTCTT
2727608 TTTTT
1 TTTTT
2727613 TAGCTAAACT
Statistics
Matches: 39, Mismatches: 7, Indels: 7
0.74 0.13 0.13
Matches are distributed among these distances:
10 5 0.13
11 21 0.54
12 13 0.33
ACGTcount: A:0.02, C:0.23, G:0.00, T:0.75
Consensus pattern (12 bp):
TTTTTCTCTCTT
Found at i:2730114 original size:79 final size:79
Alignment explanation
Indices: 2729747--2730133 Score: 402
Period size: 79 Copynumber: 4.9 Consensus size: 79
2729737 TGGGGATAAC
* * * * * * * * *
2729747 AACGGGGTTGGAGTATCCCCGATTATGGAAAATCAGTGTTCTGGAAATAAAATCGAGGTTGGGGA
1 AACGGGATTGGAGTATCCCCGATTATGAAAAATCAATGTTTTAGAAATAAAACCGGGGTTGGAGT
*
2729812 ATCTCCTCGAAAAT
66 ATCCCCTCGAAAAT
* * * * * * *
2729826 AACAGGG-TTGGAGTATCCCTGATTAT-AGAAAATTAGTATTTTAAAAATAAAATCGAGGTTGGA
1 AAC-GGGATTGGAGTATCCCCGATTATGA-AAAATCAATGTTTTAGAAATAAAACCGGGGTTGGA
2729889 GTATCCCCTCGAAAAT
64 GTATCCCCTCGAAAAT
* * * * ** * *
2729905 AACGGGATTGTAGTATCCCCGATTGTGAAAAATCGATGCTTTAGAAATAAGGCTGGGGTTAGAGT
1 AACGGGATTGGAGTATCCCCGATTATGAAAAATCAATGTTTTAGAAATAAAACCGGGGTTGGAGT
* *
2729970 AT-TCCTACCAAAAT
66 ATCCCCT-CGAAAAT
* * * *
2729984 AACGGGGGTTAGAGTATCCCCGATTATGAAAAATCAATATTTTAGAAATAAAGCCGGGGTTGGAG
1 AAC-GGGATTGGAGTATCCCCGATTATGAAAAATCAATGTTTTAGAAATAAAACCGGGGTTGGAG
**
2730049 TATCCCCTCGGGAAT
65 TATCCCCTCGAAAAT
* *
2730064 AACGGGATTGGAGTATCCCCGATTATGAAAAATTAATGTTTTGGAAATAAAACCGGGGTTGGAGT
1 AACGGGATTGGAGTATCCCCGATTATGAAAAATCAATGTTTTAGAAATAAAACCGGGGTTGGAGT
2730129 ATCCC
66 ATCCC
2730134 TGAGATGAAA
Statistics
Matches: 254, Mismatches: 47, Indels: 14
0.81 0.15 0.04
Matches are distributed among these distances:
78 6 0.02
79 180 0.71
80 65 0.26
81 3 0.01
ACGTcount: A:0.34, C:0.15, G:0.25, T:0.27
Consensus pattern (79 bp):
AACGGGATTGGAGTATCCCCGATTATGAAAAATCAATGTTTTAGAAATAAAACCGGGGTTGGAGT
ATCCCCTCGAAAAT
Found at i:2730122 original size:159 final size:158
Alignment explanation
Indices: 2729747--2730131 Score: 459
Period size: 159 Copynumber: 2.4 Consensus size: 158
2729737 TGGGGATAAC
* * * * * * * *
2729747 AACGGGGTTGGAGTATCCCCGATTATGGAAAATCAGTGTTCTGGAAATAAAATCGAGGTTGGGGA
1 AACGGGATTGGAGTATCCCCGATTATGAAAAATCAATGTTTTGGAAATAAAACCGGGGTTGGAGT
* * * * *
2729812 ATCTCCTCGAAAATAACAGGGTTGGAGTATCCCTGATTATAGAAAATTAGTATTTTAAAAATAAA
66 ATCTCCTCCAAAATAACAGGGTTAGAGTATCCCCGATTATAGAAAATCAATATTTTAAAAATAAA
*
2729877 ATCGAGGTTGGAGTATCCCCTCGAAAAT
131 ACCGAGGTTGGAGTATCCCCTCGAAAAT
* * * * * ** * *
2729905 AACGGGATTGTAGTATCCCCGATTGTGAAAAATCGATGCTTTAGAAATAAGGCTGGGGTTAGAGT
1 AACGGGATTGGAGTATCCCCGATTATGAAAAATCAATGTTTTGGAAATAAAACCGGGGTTGGAGT
* *
2729970 AT-TCCTACCAAAATAACGGGGGTTAGAGTATCCCCGATTAT-GAAAAATCAATATTTTAGAAAT
66 ATCTCCT-CCAAAATAAC-AGGGTTAGAGTATCCCCGATTATAG-AAAATCAATATTTTAAAAAT
* * **
2730033 AAAGCCGGGGTTGGAGTATCCCCTCGGGAAT
128 AAAACCGAGGTTGGAGTATCCCCTCGAAAAT
*
2730064 AACGGGATTGGAGTATCCCCGATTATGAAAAATTAATGTTTTGGAAATAAAACCGGGGTTGGAGT
1 AACGGGATTGGAGTATCCCCGATTATGAAAAATCAATGTTTTGGAAATAAAACCGGGGTTGGAGT
2730129 ATC
66 ATC
2730132 CCTGAGATGA
Statistics
Matches: 184, Mismatches: 39, Indels: 6
0.80 0.17 0.03
Matches are distributed among these distances:
157 4 0.02
158 60 0.33
159 120 0.65
ACGTcount: A:0.34, C:0.14, G:0.25, T:0.27
Consensus pattern (158 bp):
AACGGGATTGGAGTATCCCCGATTATGAAAAATCAATGTTTTGGAAATAAAACCGGGGTTGGAGT
ATCTCCTCCAAAATAACAGGGTTAGAGTATCCCCGATTATAGAAAATCAATATTTTAAAAATAAA
ACCGAGGTTGGAGTATCCCCTCGAAAAT
Found at i:2730161 original size:50 final size:50
Alignment explanation
Indices: 2730066--2730197 Score: 192
Period size: 50 Copynumber: 2.6 Consensus size: 50
2730056 TCGGGAATAA
* * * * *
2730066 CGGGATTGGAGTATCCCCGATTATGAAAAATTAATGTTTTGGAAATAAAAC
1 CGGGGTTGGAGTATCCCCGA-GATGAAAAATCAATATTTTAGAAATAAAAC
* *
2730117 CGGGGTTGGAGTATCCCTGAGATGAAAAATCAATATTTTAGAAATAAAGC
1 CGGGGTTGGAGTATCCCCGAGATGAAAAATCAATATTTTAGAAATAAAAC
2730167 CGGGGTTGGAGTATCCCCGAGATGAAAAATC
1 CGGGGTTGGAGTATCCCCGAGATGAAAAATC
2730198 TAGAAATTTA
Statistics
Matches: 73, Mismatches: 8, Indels: 1
0.89 0.10 0.01
Matches are distributed among these distances:
50 55 0.75
51 18 0.25
ACGTcount: A:0.36, C:0.14, G:0.25, T:0.26
Consensus pattern (50 bp):
CGGGGTTGGAGTATCCCCGAGATGAAAAATCAATATTTTAGAAATAAAAC
Found at i:2732507 original size:20 final size:20
Alignment explanation
Indices: 2732482--2732583 Score: 87
Period size: 20 Copynumber: 4.7 Consensus size: 20
2732472 AAAAATGCCT
*
2732482 AAATGTATCGATACATTGAA
1 AAATGTATCGATACAATGAA
*
2732502 AAATGTATCGATACATCTGGGTAA
1 AAATGTATCGATACA-AT--G-AA
2732526 ACTCAGTATGTATCGATACAATGAA
1 A---A--ATGTATCGATACAATGAA
*
2732551 CAATGTATCGATACAATGAA
1 AAATGTATCGATACAATGAA
*
2732571 CAATGTATCGATA
1 AAATGTATCGATA
2732584 TAAATTGTGA
Statistics
Matches: 70, Mismatches: 3, Indels: 18
0.77 0.03 0.20
Matches are distributed among these distances:
20 46 0.66
21 1 0.01
22 1 0.01
23 1 0.01
24 3 0.04
25 2 0.03
26 1 0.01
27 1 0.01
28 1 0.01
29 13 0.19
ACGTcount: A:0.41, C:0.14, G:0.17, T:0.28
Consensus pattern (20 bp):
AAATGTATCGATACAATGAA
Found at i:2733214 original size:41 final size:42
Alignment explanation
Indices: 2733169--2733527 Score: 203
Period size: 46 Copynumber: 8.6 Consensus size: 42
2733159 AAAAAAGGGC
* * *
2733169 GTCCTACTCTTTAAGGACAAAGGAAAAGAAG-AATGAAATGG
1 GTCCTGCTCTTTGAGGACAAAGGAAAAGAAGAAATGAAATGT
* * *
2733210 GTCCTGCT-TCTTGAGGGCAAAGG-AAA-TA-AAATG-CA---
1 GTCCTGCTCT-TTGAGGACAAAGGAAAAGAAGAAATGAAATGT
* * *
2733245 -TCCTGC-CTTTTGAAGACAAAGGAAAA-AGGAAATTAAATGT
1 GTCCTGCTC-TTTGAGGACAAAGGAAAAGAAGAAATGAAATGT
* * * *
2733285 GTCATGCTTTTTGAGGACAAAGGAAAA-AGGAGAAT-AAAGTGC
1 GTCCTGCTCTTTGAGGACAAAGGAAAAGAAGA-AATGAAA-TGT
* * * *
2733327 GTCATGCTCTTTGAGAACTATAAGGGAAAAGAAGGAAATGAAGTGC
1 GTCCTGCTCTTTGAGGAC-A-AA-GGAAAAGAA-GAAATGAAATGT
* * *
2733373 GTCCTGCTCTTTAAGAACTAAAAGGGAAAAGAAGGAAATGAAGTGT
1 GTCCTGCTCTTTGAGGAC--AAA-GGAAAAGAA-GAAATGAAATGT
* * * *
2733419 GTCCTACTCTTTGAGGACAAAGGAAAA-AAGAAA-AAAAGGC
1 GTCCTGCTCTTTGAGGACAAAGGAAAAGAAGAAATGAAATGT
* *
2733459 ATCCTACAT-TTTGAGGACAAAAGGGAAAAGAAGGAAATGAAATGT
1 GTCCTGC-TCTTTGAGGAC-AAA-GGAAAAGAA-GAAATGAAATGT
**
2733504 GTGATGCTCTTTGAGGACAAAGGA
1 GTCCTGCTCTTTGAGGACAAAGGA
2733528 GAAAAGGAAA
Statistics
Matches: 252, Mismatches: 38, Indels: 54
0.73 0.11 0.16
Matches are distributed among these distances:
34 17 0.07
35 4 0.02
36 4 0.02
37 1 0.00
38 1 0.00
39 5 0.02
40 22 0.09
41 55 0.22
42 29 0.12
43 12 0.05
44 13 0.05
45 22 0.09
46 62 0.25
47 5 0.02
ACGTcount: A:0.41, C:0.12, G:0.26, T:0.21
Consensus pattern (42 bp):
GTCCTGCTCTTTGAGGACAAAGGAAAAGAAGAAATGAAATGT
Found at i:2733465 original size:40 final size:40
Alignment explanation
Indices: 2733420--2733559 Score: 115
Period size: 38 Copynumber: 3.4 Consensus size: 40
2733410 ATGAAGTGTG
2733420 TCCTACTCTTTGAGGACAAAGGAAAAAAGAAAAAAAGGCA
1 TCCTACTCTTTGAGGACAAAGGAAAAAAGAAAAAAAGGCA
* * **
2733460 TCCTACAT-TTTGAGGACAAAAGGGAAAAGAAGGAAATGAAATGTG
1 TCCTAC-TCTTTGAGGAC-AAA-GGAAAA-AA-GAAA-AAAAGGCA
** * * *
2733505 TGATGCTCTTTGAGGACAAAGGAGAAAAG--GAAAAGGCA
1 TCCTACTCTTTGAGGACAAAGGAAAAAAGAAAAAAAGGCA
*
2733543 TCCTGCTCTTTGAGGAC
1 TCCTACTCTTTGAGGAC
2733560 TAAGCCACCA
Statistics
Matches: 78, Mismatches: 15, Indels: 16
0.72 0.14 0.15
Matches are distributed among these distances:
38 19 0.24
40 15 0.19
41 5 0.06
42 8 0.10
43 7 0.09
44 8 0.10
45 16 0.21
ACGTcount: A:0.41, C:0.14, G:0.26, T:0.19
Consensus pattern (40 bp):
TCCTACTCTTTGAGGACAAAGGAAAAAAGAAAAAAAGGCA
Found at i:2733489 original size:85 final size:83
Alignment explanation
Indices: 2733374--2733559 Score: 239
Period size: 85 Copynumber: 2.2 Consensus size: 83
2733364 ATGAAGTGCG
* * * * *
2733374 TCCTGCTCTTTAAGAACTAAAAGGGAAAAGAAGGAAATGAAGTGTGTCCTACTCTTTGAGGACAA
1 TCCTACTCTTTGAGGAC-AAAAGGGAAAAGAAGGAAATGAAATGTGTCATACTCTTTGAGGACAA
2733439 AGGAAAAAAGAAAAAAAGGCA
65 AGGAAAAAAG--AAAAAGGCA
* *
2733460 TCCTACAT-TTTGAGGACAAAAGGGAAAAGAAGGAAATGAAATGTGTGATGCTCTTTGAGGACAA
1 TCCTAC-TCTTTGAGGACAAAAGGGAAAAGAAGGAAATGAAATGTGTCATACTCTTTGAGGACAA
* *
2733524 AGGAGAAAAGGAAAAGGCA
65 AGGAAAAAAGAAAAAGGCA
*
2733543 TCCTGCTCTTTGAGGAC
1 TCCTACTCTTTGAGGAC
2733560 TAAGCCACCA
Statistics
Matches: 88, Mismatches: 10, Indels: 7
0.84 0.10 0.07
Matches are distributed among these distances:
82 1 0.01
83 22 0.25
85 52 0.59
86 12 0.14
87 1 0.01
ACGTcount: A:0.41, C:0.13, G:0.26, T:0.20
Consensus pattern (83 bp):
TCCTACTCTTTGAGGACAAAAGGGAAAAGAAGGAAATGAAATGTGTCATACTCTTTGAGGACAAA
GGAAAAAAGAAAAAGGCA
Found at i:2733693 original size:62 final size:62
Alignment explanation
Indices: 2733528--2734018 Score: 567
Period size: 62 Copynumber: 8.1 Consensus size: 62
2733518 GGACAAAGGA
* **
2733528 GAAAAGGAAAAGGCATCCTGCTCTTTGAGGACT--AA---GCCACCAACTCATGTGGGCTTT
1 GAAAAGGAAAAGGCGTCCTGCTCTTTGAGGACTAAAAGGTGCCACCAACTTGTGTGGGCTTT
* * ** *
2733585 GAAAA-GAAAATGCGTCTTGCTCTTTGAGGACTAAAAACTGCCACCAACTCGTGTGGGCTTT
1 GAAAAGGAAAAGGCGTCCTGCTCTTTGAGGACTAAAAGGTGCCACCAACTTGTGTGGGCTTT
* * **
2733646 GAAAAGAAAAAGGCGTCCTGCTCTTTGAGGACTAAGAGGTGCCACCAACTTGTGTGATCTTT
1 GAAAAGGAAAAGGCGTCCTGCTCTTTGAGGACTAAAAGGTGCCACCAACTTGTGTGGGCTTT
* * * * *
2733708 GAAAAGAAAAAAGTGTCCTGCTCTTTGAGGACTAGAAAGGTGCCACCAACTTGTGCGGGCTTC
1 GAAAAGGAAAAGGCGTCCTGCTCTTTGAGGACTA-AAAGGTGCCACCAACTTGTGTGGGCTTT
* ** * *
2733771 G-AAAGGAAAAGGCGTCCTGCTCTTTGAGGACTAAAGGGTATCACCAGCTTGTGTGGGATTT
1 GAAAAGGAAAAGGCGTCCTGCTCTTTGAGGACTAAAAGGTGCCACCAACTTGTGTGGGCTTT
* * *
2733832 GAAAAGAAAAAGGTGTCCTGCTCTTTGAGGACTAAAAAGGTG---CCAACTTGTGTGGGCTTC
1 GAAAAGGAAAAGGCGTCCTGCTCTTTGAGGACT-AAAAGGTGCCACCAACTTGTGTGGGCTTT
** *
2733892 G-AAAGGAAAAGATGTCCTGCTCTTTGAGGACTAAAAAGGTGCCACC-AGTTCGTGTGGGCTTT
1 GAAAAGGAAAAGGCGTCCTGCTCTTTGAGGACT-AAAAGGTGCCACCAACTT-GTGTGGGCTTT
* ** *
2733954 -AAAAGGAAAAGACGTCCTGCTCTTTGAGGACTAAAAGGTATCACCAACTTGTATGGGCTTT
1 GAAAAGGAAAAGGCGTCCTGCTCTTTGAGGACTAAAAGGTGCCACCAACTTGTGTGGGCTTT
2734015 GAAA
1 GAAA
2734019 GGCATCTTGC
Statistics
Matches: 372, Mismatches: 46, Indels: 27
0.84 0.10 0.06
Matches are distributed among these distances:
56 24 0.06
57 5 0.01
58 2 0.01
59 38 0.10
60 16 0.04
61 72 0.19
62 185 0.50
63 30 0.08
ACGTcount: A:0.30, C:0.19, G:0.26, T:0.25
Consensus pattern (62 bp):
GAAAAGGAAAAGGCGTCCTGCTCTTTGAGGACTAAAAGGTGCCACCAACTTGTGTGGGCTTT
Found at i:2733983 original size:183 final size:183
Alignment explanation
Indices: 2733563--2734018 Score: 596
Period size: 183 Copynumber: 2.5 Consensus size: 183
2733553 TGAGGACTAA
** * ** **
2733563 GCCACCAACTCATGTGGGCTTTGAAAA-GAAAATGCGTCTTGCTCTTTGAGGACTAAAAACTGCC
1 GCCACCAACTTGTGTGGGCTTT-AAAAGGAAAA-GCGTCCTGCTCTTTGAGGACTAAAAGGTATC
* *
2733627 ACCAACTCGTGTGGGCTTTGAAAAGAAAAAGGCGTCCTGCTCTTTGAGGACTAAGAGGTGCCACC
64 ACCAACTTGTGTGGGCTTTGAAAAGAAAAAGGCGTCCTGCTCTTTGAGGACTAAAAGGTG-C-CC
* * *
2733692 AACTTGTGTGATCTTTGAAAAGAAAAAAGTGTCCTGCTCTTTGAGGACTAGAAAGGT
127 AACTTGTGTGAGCTTCGAAAAGAAAAAAGTGTCCTGCTCTTTGAGGACTAAAAAGGT
* ** *
2733749 GCCACCAACTTGTGCGGGCTTCGAAAGGAAAAGGCGTCCTGCTCTTTGAGGACTAAAGGGTATCA
1 GCCACCAACTTGTGTGGGCTTTAAAAGGAAAA-GCGTCCTGCTCTTTGAGGACTAAAAGGTATCA
* * *
2733814 CCAGCTTGTGTGGGATTTGAAAAGAAAAAGGTGTCCTGCTCTTTGAGGACTAAAAAGGTG-CCAA
65 CCAACTTGTGTGGGCTTTGAAAAGAAAAAGGCGTCCTGCTCTTTGAGGACT-AAAAGGTGCCCAA
* * *
2733878 CTTGTGTGGGCTTCGAAAGGAAAAGA-TGTCCTGCTCTTTGAGGACTAAAAAGGT
129 CTTGTGTGAGCTTCGAAAAGAAAAAAGTGTCCTGCTCTTTGAGGACTAAAAAGGT
*
2733932 GCCACC-AGTTCGTGTGGGCTTTAAAAGGAAAAGACGTCCTGCTCTTTGAGGACTAAAAGGTATC
1 GCCACCAACTT-GTGTGGGCTTTAAAAGGAAAAG-CGTCCTGCTCTTTGAGGACTAAAAGGTATC
*
2733996 ACCAACTTGTATGGGCTTTGAAA
64 ACCAACTTGTGTGGGCTTTGAAA
2734019 GGCATCTTGC
Statistics
Matches: 235, Mismatches: 31, Indels: 11
0.85 0.11 0.04
Matches are distributed among these distances:
182 4 0.02
183 100 0.43
184 25 0.11
185 3 0.01
186 96 0.41
187 7 0.03
ACGTcount: A:0.29, C:0.19, G:0.27, T:0.25
Consensus pattern (183 bp):
GCCACCAACTTGTGTGGGCTTTAAAAGGAAAAGCGTCCTGCTCTTTGAGGACTAAAAGGTATCAC
CAACTTGTGTGGGCTTTGAAAAGAAAAAGGCGTCCTGCTCTTTGAGGACTAAAAGGTGCCCAACT
TGTGTGAGCTTCGAAAAGAAAAAAGTGTCCTGCTCTTTGAGGACTAAAAAGGT
Found at i:2734116 original size:94 final size:94
Alignment explanation
Indices: 2733953--2734173 Score: 266
Period size: 94 Copynumber: 2.4 Consensus size: 94
2733943 GTGTGGGCTT
* ** ** * * *
2733953 TAAAAGGA-AAAGACGTCCTGCTCTTTGAGGACT-AAAAGGTATCACCAACTTGTATGGGCTTTG
1 TAAAAGGAGAAAG-CGTCCTACTCTTTGAGGACTGGGAA-GTGCCACCAACCTGTATAGGCTTTA
*
2734016 AAAGGCATCTTGCTCTTTGGGGACTAAAGGG
64 AAAGGCATCTTGCTCTTTGAGGACTAAAGGG
* * * * *
2734047 TGAAAGGAGAGAGTGTCCTACTTTTTGAGGACTGGGAAGTGCCACCAACCTGTGTAGGCTTTAAA
1 TAAAAGGAGAAAGCGTCCTACTCTTTGAGGACTGGGAAGTGCCACCAACCTGTATAGGCTTTAAA
*
2734112 AGGCATCTTGTTCTTTGAGGACTAAAGGG
66 AGGCATCTTGCTCTTTGAGGACTAAAGGG
*
2734141 TAAAAGGAGAAAGCGTCCTGCTCTTTGAGGACT
1 TAAAAGGAGAAAGCGTCCTACTCTTTGAGGACT
2734174 AAAGGGTAAA
Statistics
Matches: 105, Mismatches: 20, Indels: 4
0.81 0.16 0.03
Matches are distributed among these distances:
94 100 0.95
95 5 0.05
ACGTcount: A:0.29, C:0.17, G:0.28, T:0.27
Consensus pattern (94 bp):
TAAAAGGAGAAAGCGTCCTACTCTTTGAGGACTGGGAAGTGCCACCAACCTGTATAGGCTTTAAA
AGGCATCTTGCTCTTTGAGGACTAAAGGG
Found at i:2734177 original size:39 final size:39
Alignment explanation
Indices: 2734123--2734212 Score: 153
Period size: 39 Copynumber: 2.3 Consensus size: 39
2734113 GGCATCTTGT
*
2734123 TCTTTGAGGACTAAAGGGTAAAAGGAGAAAGCGTCCTGC
1 TCTTTGAGGACTAAAGGGTAAAAGGAGAAAGAGTCCTGC
* *
2734162 TCTTTGAGGACTAAAGGGTAAAATGAGAGAGAGTCCTGC
1 TCTTTGAGGACTAAAGGGTAAAAGGAGAAAGAGTCCTGC
2734201 TCTTTGAGGACT
1 TCTTTGAGGACT
2734213 GAGAAGTGCC
Statistics
Matches: 48, Mismatches: 3, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
39 48 1.00
ACGTcount: A:0.31, C:0.14, G:0.30, T:0.24
Consensus pattern (39 bp):
TCTTTGAGGACTAAAGGGTAAAAGGAGAAAGAGTCCTGC
Found at i:2734264 original size:133 final size:133
Alignment explanation
Indices: 2734026--2734306 Score: 391
Period size: 133 Copynumber: 2.1 Consensus size: 133
2734016 AAAGGCATCT
* * * * *
2734026 TGCTCTTTGGGGACTAAAGGGTGAAAGGAGAGAGTGTCCTACTTTTTGAGGACTGGGAAGTGCCA
1 TGCTCTTTGAGGACTAAAGGGTAAAAGGAGAGAGAGTCCTACTCTTTGAGGACTGAGAAGTGCCA
* ** *
2734091 CCAACCTGTGTAGGCTTTAAAAGGCATCTTGTTCTTTGAGGACTAAAGGGTAAAAGGAGAAAGCG
66 CCAACCTGTGTAGGCTTTAAAAGGCATCCTACTCTTTGAGGACTAAAAGGTAAAAGGAGAAAGCG
2734156 TCC
131 TCC
* *
2734159 TGCTCTTTGAGGACTAAAGGGTAAAATGAGAGAGAGTCCTGCTCTTTGAGGACTGAGAAGTGCCA
1 TGCTCTTTGAGGACTAAAGGGTAAAAGGAGAGAGAGTCCTACTCTTTGAGGACTGAGAAGTGCCA
* * * * * *
2734224 CCAACTTGTGTGGGCTTTAAAAGGCGTCCTACTCTTTGAGGACTAAAAGGTGAAAGGAGAGAGTG
66 CCAACCTGTGTAGGCTTTAAAAGGCATCCTACTCTTTGAGGACTAAAAGGTAAAAGGAGAAAGCG
*
2734289 TCT
131 TCC
*
2734292 TGCTTTTTGAGGACT
1 TGCTCTTTGAGGACT
2734307 GAGAAGTGCC
Statistics
Matches: 129, Mismatches: 19, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
133 129 1.00
ACGTcount: A:0.27, C:0.16, G:0.30, T:0.27
Consensus pattern (133 bp):
TGCTCTTTGAGGACTAAAGGGTAAAAGGAGAGAGAGTCCTACTCTTTGAGGACTGAGAAGTGCCA
CCAACCTGTGTAGGCTTTAAAAGGCATCCTACTCTTTGAGGACTAAAAGGTAAAAGGAGAAAGCG
TCC
Found at i:2734266 original size:94 final size:94
Alignment explanation
Indices: 2734153--2734477 Score: 456
Period size: 94 Copynumber: 3.4 Consensus size: 94
2734143 AAAGGAGAAA
* * * *
2734153 GCGTCCTGCTCTTTGAGGACTAAAGGGTAAAATGAGAGAGAGTCCTGCTCTTTGAGGACTGAGAA
1 GCGTCCTGCTCTTTGAGGACTAAAAGGTGAAAGGAGAGAGAGTCCTGCTTTTTGAGGACTGAGAA
2734218 GTGCCACCAACTTGTGTGGGCTTTAAAAG
66 GTGCCACCAACTTGTGTGGGCTTTAAAAG
* * *
2734247 GCGTCCTACTCTTTGAGGACTAAAAGGTGAAAGGAGAGAGTGTCTTGCTTTTTGAGGACTGAGAA
1 GCGTCCTGCTCTTTGAGGACTAAAAGGTGAAAGGAGAGAGAGTCCTGCTTTTTGAGGACTGAGAA
*
2734312 GTGCCACCAACTTGTGTGGGCTGTAAAAG
66 GTGCCACCAACTTGTGTGGGCTTTAAAAG
* * *
2734341 GCGTTCTGCTCTTTGAGGACTAAAAGGTGAAAGGAGAAAGCA-TCCTGCTTTTTGAGGACTGGGA
1 GCGTCCTGCTCTTTGAGGACTAAAAGGTGAAAGGAGAGAG-AGTCCTGCTTTTTGAGGACTGAGA
2734405 AGTGCCACCAACTTGTGTGGGCTTTAAAAAGAGAAG
65 AGTGCCACCAACTTGTGTGGGCTTT----A-A-AAG
*
2734441 GCGTGCTGCTCTTTGAGGACTGAAAA-GTGAAAGGAGA
1 GCGTCCTGCTCTTTGAGGACT-AAAAGGTGAAAGGAGA
2734478 AAGTTTAGAT
Statistics
Matches: 207, Mismatches: 16, Indels: 10
0.89 0.07 0.04
Matches are distributed among these distances:
94 167 0.81
98 1 0.00
99 1 0.00
100 34 0.16
101 4 0.02
ACGTcount: A:0.28, C:0.16, G:0.31, T:0.25
Consensus pattern (94 bp):
GCGTCCTGCTCTTTGAGGACTAAAAGGTGAAAGGAGAGAGAGTCCTGCTTTTTGAGGACTGAGAA
GTGCCACCAACTTGTGTGGGCTTTAAAAG
Found at i:2734362 original size:227 final size:227
Alignment explanation
Indices: 2733967--2734400 Score: 638
Period size: 227 Copynumber: 1.9 Consensus size: 227
2733957 AGGAAAAGAC
* * * *
2733967 GTCCTGCTCTTTGAGGACTAAAAGGTATCACCAACTTGTATGGGCTTTGAAAGGCATCTTGCTCT
1 GTCCTGCTCTTTGAGGACTAAAAGGTACCACCAACTTGTATGGGCTTTAAAAGGCATCCTACTCT
* * *
2734032 TTGGGGACTAAAGGGTGAAAGGAGAGAGTGTCCTACTTTTTGAGGACTGGGAAGTGCCACCAACC
66 TTGAGGACTAAAAGGTGAAAGGAGAGAGTGTCCTACTTTTTGAGGACTGAGAAGTGCCACCAACC
* * * *
2734097 TGTGTAGGCTTTAAAAGGCATCTTGTTCTTTGAGGACTAAAGGGTAAAAGGAGAAAGCGTCCTGC
131 TGTGTAGGCTGTAAAAGGCATCTTGCTCTTTGAGGACTAAAAGGTAAAAGGAGAAAGCATCCTGC
2734162 TCTTTGAGGACTAAAGGGTAAAATGAGAGAGA
196 TCTTTGAGGACTAAAGGGTAAAATGAGAGAGA
* * * *
2734194 GTCCTGCTCTTTGAGGACTGAGAA-GTGCCACCAACTTGTGTGGGCTTTAAAAGGCGTCCTACTC
1 GTCCTGCTCTTTGAGGACT-AAAAGGTACCACCAACTTGTATGGGCTTTAAAAGGCATCCTACTC
* *
2734258 TTTGAGGACTAAAAGGTGAAAGGAGAGAGTGTCTTGCTTTTTGAGGACTGAGAAGTGCCACCAAC
65 TTTGAGGACTAAAAGGTGAAAGGAGAGAGTGTCCTACTTTTTGAGGACTGAGAAGTGCCACCAAC
* * * *
2734323 TTGTGTGGGCTGTAAAAGGCGT-TCTGCTCTTTGAGGACTAAAAGGTGAAAGGAGAAAGCATCCT
130 CTGTGTAGGCTGTAAAAGGCATCT-TGCTCTTTGAGGACTAAAAGGTAAAAGGAGAAAGCATCCT
*
2734387 GCTTTTTGAGGACT
194 GCTCTTTGAGGACT
2734401 GGGAAGTGCC
Statistics
Matches: 183, Mismatches: 22, Indels: 4
0.88 0.11 0.02
Matches are distributed among these distances:
226 1 0.01
227 179 0.98
228 3 0.02
ACGTcount: A:0.27, C:0.17, G:0.29, T:0.27
Consensus pattern (227 bp):
GTCCTGCTCTTTGAGGACTAAAAGGTACCACCAACTTGTATGGGCTTTAAAAGGCATCCTACTCT
TTGAGGACTAAAAGGTGAAAGGAGAGAGTGTCCTACTTTTTGAGGACTGAGAAGTGCCACCAACC
TGTGTAGGCTGTAAAAGGCATCTTGCTCTTTGAGGACTAAAAGGTAAAAGGAGAAAGCATCCTGC
TCTTTGAGGACTAAAGGGTAAAATGAGAGAGA
Found at i:2735486 original size:9 final size:9
Alignment explanation
Indices: 2735453--2735488 Score: 54
Period size: 9 Copynumber: 3.8 Consensus size: 9
2735443 TTTTCTCTTT
2735453 TTTTTCTTTG
1 TTTTT-TTTG
2735463 TTTTGTTTTG
1 TTTT-TTTTG
2735473 TTTTTTTTG
1 TTTTTTTTG
2735482 TTTTTTT
1 TTTTTTT
2735489 AAAAAAAGGT
Statistics
Matches: 25, Mismatches: 0, Indels: 3
0.89 0.00 0.11
Matches are distributed among these distances:
9 12 0.48
10 12 0.48
11 1 0.04
ACGTcount: A:0.00, C:0.03, G:0.11, T:0.86
Consensus pattern (9 bp):
TTTTTTTTG
Found at i:2748820 original size:13 final size:13
Alignment explanation
Indices: 2748802--2748827 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
2748792 ATATTTTTTG
2748802 TGTATCGATACAT
1 TGTATCGATACAT
2748815 TGTATCGATACAT
1 TGTATCGATACAT
2748828 ACTTGTTGTA
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:0.31, C:0.15, G:0.15, T:0.38
Consensus pattern (13 bp):
TGTATCGATACAT
Found at i:2748843 original size:32 final size:34
Alignment explanation
Indices: 2748781--2748845 Score: 98
Period size: 34 Copynumber: 2.0 Consensus size: 34
2748771 TACAAGCCAA
* *
2748781 TGTATCGATACATATTTTTTGTGTATCGATACAT
1 TGTATCGATACATATCTTGTGTGTATCGATACAT
2748815 TGTATCGATACATA-CTTGT-TGTATCGATACA
1 TGTATCGATACATATCTTGTGTGTATCGATACA
2748846 AGTTTGGCTA
Statistics
Matches: 29, Mismatches: 2, Indels: 2
0.88 0.06 0.06
Matches are distributed among these distances:
32 12 0.41
33 3 0.10
34 14 0.48
ACGTcount: A:0.28, C:0.14, G:0.15, T:0.43
Consensus pattern (34 bp):
TGTATCGATACATATCTTGTGTGTATCGATACAT
Found at i:2750928 original size:21 final size:20
Alignment explanation
Indices: 2750899--2750941 Score: 59
Period size: 20 Copynumber: 2.1 Consensus size: 20
2750889 GACTAGTGTA
*
2750899 GGGACTGCCCGGTTGTGACCT
1 GGGACTG-CCGGTCGTGACCT
*
2750920 GGGAGTGCCGGTCGTGACCT
1 GGGACTGCCGGTCGTGACCT
2750940 GG
1 GG
2750942 TGGTGCTGCA
Statistics
Matches: 20, Mismatches: 2, Indels: 1
0.87 0.09 0.04
Matches are distributed among these distances:
20 14 0.70
21 6 0.30
ACGTcount: A:0.09, C:0.26, G:0.44, T:0.21
Consensus pattern (20 bp):
GGGACTGCCGGTCGTGACCT
Found at i:2751390 original size:13 final size:13
Alignment explanation
Indices: 2751372--2751409 Score: 67
Period size: 13 Copynumber: 2.9 Consensus size: 13
2751362 ATAATTCCCC
2751372 TGTATCGATACAG
1 TGTATCGATACAG
*
2751385 TGTATCGATACAT
1 TGTATCGATACAG
2751398 TGTATCGATACA
1 TGTATCGATACA
2751410 AAGAAAAATG
Statistics
Matches: 24, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
13 24 1.00
ACGTcount: A:0.32, C:0.16, G:0.18, T:0.34
Consensus pattern (13 bp):
TGTATCGATACAG
Found at i:2753511 original size:15 final size:15
Alignment explanation
Indices: 2753491--2753521 Score: 53
Period size: 15 Copynumber: 2.1 Consensus size: 15
2753481 ATTTCGTTTG
*
2753491 GAGCTTCTTCATTTT
1 GAGCTTCCTCATTTT
2753506 GAGCTTCCTCATTTT
1 GAGCTTCCTCATTTT
2753521 G
1 G
2753522 GACATTTTTA
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
15 15 1.00
ACGTcount: A:0.13, C:0.23, G:0.16, T:0.48
Consensus pattern (15 bp):
GAGCTTCCTCATTTT
Found at i:2757597 original size:13 final size:13
Alignment explanation
Indices: 2757579--2757604 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
2757569 ATATTTTTTG
2757579 TGTATCGATACAT
1 TGTATCGATACAT
2757592 TGTATCGATACAT
1 TGTATCGATACAT
2757605 ACTTGGTGTA
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:0.31, C:0.15, G:0.15, T:0.38
Consensus pattern (13 bp):
TGTATCGATACAT
Found at i:2757598 original size:34 final size:32
Alignment explanation
Indices: 2757555--2757622 Score: 100
Period size: 34 Copynumber: 2.1 Consensus size: 32
2757545 CGTTACAAGC
* *
2757555 CATTGTATCGATACATATTTTTTGTGTATCGATA
1 CATTGTATCGATACATA--CTTGGTGTATCGATA
2757589 CATTGTATCGATACATACTTGGTGTATCGATA
1 CATTGTATCGATACATACTTGGTGTATCGATA
2757621 CA
1 CA
2757623 AGTTTGGCTA
Statistics
Matches: 32, Mismatches: 2, Indels: 2
0.89 0.06 0.06
Matches are distributed among these distances:
32 15 0.47
34 17 0.53
ACGTcount: A:0.28, C:0.15, G:0.16, T:0.41
Consensus pattern (32 bp):
CATTGTATCGATACATACTTGGTGTATCGATA
Found at i:2764698 original size:24 final size:24
Alignment explanation
Indices: 2764666--2764724 Score: 109
Period size: 24 Copynumber: 2.5 Consensus size: 24
2764656 AGATTTGCGA
2764666 CTTCTTCTTCAGCTTATTTAAATT
1 CTTCTTCTTCAGCTTATTTAAATT
*
2764690 CTTCTTCTTCGGCTTATTTAAATT
1 CTTCTTCTTCAGCTTATTTAAATT
2764714 CTTCTTCTTCA
1 CTTCTTCTTCA
2764725 ATGTCGGACA
Statistics
Matches: 33, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
24 33 1.00
ACGTcount: A:0.17, C:0.24, G:0.05, T:0.54
Consensus pattern (24 bp):
CTTCTTCTTCAGCTTATTTAAATT
Found at i:2766092 original size:20 final size:20
Alignment explanation
Indices: 2766067--2766104 Score: 76
Period size: 20 Copynumber: 1.9 Consensus size: 20
2766057 TACTGCCAGT
2766067 TTCATGTATCGATACAATTC
1 TTCATGTATCGATACAATTC
2766087 TTCATGTATCGATACAAT
1 TTCATGTATCGATACAAT
2766105 GAACATGCAT
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
20 18 1.00
ACGTcount: A:0.32, C:0.18, G:0.11, T:0.39
Consensus pattern (20 bp):
TTCATGTATCGATACAATTC
Found at i:2768126 original size:84 final size:83
Alignment explanation
Indices: 2768038--2768218 Score: 206
Period size: 84 Copynumber: 2.1 Consensus size: 83
2768028 ACCGACAAGC
*
2768038 CAACATAGGATAAAAGAGTTTA-TCAAGCACTAAACCAACAGGTAAACAAGGGATGAAA-GGTTA
1 CAACAAAGG-TAAAAGAGTTTACT-AAGCACTAAACCAACAGGTAAACAAGGGAT-AAATGG-TA
**
2768101 -ACCAAGGCTAAACTGATAAGT
62 GACCAAGGCTAAACCAATAAGT
* * **
2768122 CAACAAAAGGTAAAGGAGTTTACTAGGCACTAAACCGCCAGGTAAACAAGGGATAAATGGTAGAC
1 CAAC-AAAGGTAAAAGAGTTTACTAAGCACTAAACCAACAGGTAAACAAGGGATAAATGGTAGAC
* *
2768187 CAAGGTTGAACCAATAAGT
65 CAAGGCTAAACCAATAAGT
2768206 CAACAAAAGGTAA
1 CAAC-AAAGGTAA
2768219 TGGATTTACT
Statistics
Matches: 84, Mismatches: 9, Indels: 8
0.83 0.09 0.08
Matches are distributed among these distances:
83 5 0.06
84 74 0.88
85 5 0.06
ACGTcount: A:0.46, C:0.16, G:0.22, T:0.17
Consensus pattern (83 bp):
CAACAAAGGTAAAAGAGTTTACTAAGCACTAAACCAACAGGTAAACAAGGGATAAATGGTAGACC
AAGGCTAAACCAATAAGT
Found at i:2768466 original size:43 final size:43
Alignment explanation
Indices: 2768379--2768506 Score: 127
Period size: 43 Copynumber: 3.0 Consensus size: 43
2768369 GTCACCAAAA
**
2768379 GGATAAAGGGGTTTACTAGGGACTAAGCTTATAGGTAAACAA-G
1 GGAT-AAGGGGTTTACTAGGGACTAAGCCAATAGGTAAACAAGG
*
2768422 GGATGAA-GGGTTTACTAGGGACTAAGCCCAATAGGT-CACTAAGG
1 GGAT-AAGGGGTTTACTAGGGACTAAG-CCAATAGGTAAAC-AAGG
* * * * *
2768466 GGATAAGGGGTTTACCATGGACTGAGCCAACAGATAAACAA
1 GGATAAGGGGTTTACTAGGGACTAAGCCAATAGGTAAACAA
2768507 TAAAATGAAG
Statistics
Matches: 70, Mismatches: 10, Indels: 10
0.78 0.11 0.11
Matches are distributed among these distances:
42 21 0.30
43 26 0.37
44 23 0.33
ACGTcount: A:0.36, C:0.14, G:0.30, T:0.20
Consensus pattern (43 bp):
GGATAAGGGGTTTACTAGGGACTAAGCCAATAGGTAAACAAGG
Found at i:2768598 original size:85 final size:83
Alignment explanation
Indices: 2768495--2768820 Score: 276
Period size: 85 Copynumber: 3.8 Consensus size: 83
2768485 GACTGAGCCA
* ** * * *
2768495 ACAGATAAACAATAAAATGAAGGTTGACCAAAGACTGAGCTAATAGGTCATCATAGGTGTAAGGA
1 ACAGGTAAACAAGGAAATGAAGGTTGACCGAAGACTGAGCTAACAGGTCATCATAGGGGTAAGG-
2768560 GTTTACTAGGGATTGAGCTG
65 GTTTACT-GGGATTGAGCTG
* * * * * ** *
2768580 ACAAGTAAACAATGAAATGAAGGTTAACCGGAGACTGAACCGACAGGTCATCATAGGTGTAAAGG
1 ACAGGTAAACAAGGAAATGAAGGTTGACCGAAGACTGAGCTAACAGGTCATCATAGGGGT-AAGG
* * *
2768645 TTTTATTGGGGATTGAACTG
65 GTTTACT-GGGATTGAGCTG
* ** * ** * * *
2768665 ACAGGAAAATGAGGAGATGAAGGTTGATTGAAGATTGAGCTGATAGGTCA-CTATAGGGGTAAGG
1 ACAGGTAAACAAGGAAATGAAGGTTGACCGAAGACTGAGCTAACAGGTCATC-ATAGGGGTAAGG
*
2768729 GATTTACTGAGGATTGAGCCG
65 G-TTTACTG-GGATTGAGCTG
* * * * *
2768750 ACAGGTAAATAAGGAAATAAAGGTTGACCGAAGAATAAGCTAACAGGTCACCATAGGGGTAATGG
1 ACAGGTAAACAAGGAAATGAAGGTTGACCGAAGACTGAGCTAACAGGTCATCATAGGGGTAA-GG
*
2768815 GCTTAC
65 GTTTAC
2768821 CGAGGACTAA
Statistics
Matches: 191, Mismatches: 44, Indels: 12
0.77 0.18 0.05
Matches are distributed among these distances:
84 6 0.03
85 177 0.93
86 8 0.04
ACGTcount: A:0.37, C:0.12, G:0.29, T:0.22
Consensus pattern (83 bp):
ACAGGTAAACAAGGAAATGAAGGTTGACCGAAGACTGAGCTAACAGGTCATCATAGGGGTAAGGG
TTTACTGGGATTGAGCTG
Found at i:2769010 original size:47 final size:47
Alignment explanation
Indices: 2768943--2769340 Score: 326
Period size: 47 Copynumber: 8.4 Consensus size: 47
2768933 TTAACCAAGA
* * * * *
2768943 CTAATGCCAATACAATCAAACAAGGGTGAAAAGAGTTTGACCAGGCC
1 CTAACGCCAATACAGTCAAACAAGAGTGAAAAGAGTTTGACTAGGTC
** * *
2768990 CTAACGCCAATGTAGTCAAACAA-AGATGGAAAGAGTTTGACCAGGTC
1 CTAACGCCAATACAGTCAAACAAGAG-TGAAAAGAGTTTGACTAGGTC
* *
2769037 CTAACGCTAATACAGTCAAACAAGAGTGGAAAA-AATTTGACTAGGTC
1 CTAACGCCAATACAGTCAAACAAGAGT-GAAAAGAGTTTGACTAGGTC
* * * * *
2769084 TTAACACCAATACAGTCAAACGAGAGTGGAAAGAGTTTAACTAGGTC
1 CTAACGCCAATACAGTCAAACAAGAGTGAAAAGAGTTTGACTAGGTC
* * * * *
2769131 CTAATGCCAATACAATCAAATAAG-GATGAGAAGAGTTTGACTAAGTC
1 CTAACGCCAATACAGTCAAACAAGAG-TGAAAAGAGTTTGACTAGGTC
* * ** *
2769178 CTAACGCTAATATAGTCAAATGAGAGT-AAATTTGAGTTTGACTAGGTC
1 CTAACGCCAATACAGTCAAACAAGAGTGAAA--AGAGTTTGACTAGGTC
* * * *
2769226 CTAATGCCAATATAGTCAAACGAA-A--GAAAATTTAAGTTTAACTAGGTC
1 CTAACGCCAATACAGTCAAAC-AAGAGTGAAAA---GAGTTTGACTAGGTC
* ** * *
2769274 CTAACACCAATACAGTCAAATGAG-GATGGAAAGAGTTTGACCAGGTC
1 CTAACGCCAATACAGTCAAACAAGAG-TGAAAAGAGTTTGACTAGGTC
*
2769321 CTAACGTCAATACAGTCAAA
1 CTAACGCCAATACAGTCAAA
2769341 TGATAAAAAA
Statistics
Matches: 278, Mismatches: 56, Indels: 34
0.76 0.15 0.09
Matches are distributed among these distances:
46 8 0.03
47 195 0.70
48 70 0.25
49 1 0.00
50 4 0.01
ACGTcount: A:0.40, C:0.17, G:0.20, T:0.22
Consensus pattern (47 bp):
CTAACGCCAATACAGTCAAACAAGAGTGAAAAGAGTTTGACTAGGTC
Found at i:2769179 original size:141 final size:140
Alignment explanation
Indices: 2768949--2769340 Score: 416
Period size: 141 Copynumber: 2.8 Consensus size: 140
2768939 AAGACTAATG
* * * * * * ** * *
2768949 CCAATACAATCAAACAAGGGTGAAAAGAGTTTGACCAGGCCCTAACGCCAATGTAGTCAAACAAA
1 CCAATACAGTCAAACGAGAGTGAAAAGAGTTTAACTAGGTCCTAACGCCAATACAGTCAAATAAG
2769014 GATGGAAAGAGTTTGACCAGGTCCTAACGCTAATACAGTCAAACAAGAGTGGAAA-AAATTTGAC
66 GATGGAAAGAGTTTGACCAGGTCCTAACGCTAATACAGTCAAACAAGAGT--AAATAAATTTGAC
*
2769078 TAGGTCTTAACA
129 TAGGTCCTAACA
* * *
2769090 CCAATACAGTCAAACGAGAGTGGAAAGAGTTTAACTAGGTCCTAATGCCAATACAATCAAATAAG
1 CCAATACAGTCAAACGAGAGTGAAAAGAGTTTAACTAGGTCCTAACGCCAATACAGTCAAATAAG
* * * ** * *
2769155 GAT-GAGAAGAGTTTGACTAAGTCCTAACGCTAATATAGTCAAATGAGAGTAAATTTGAGTTTGA
66 GATGGA-AAGAGTTTGACCAGGTCCTAACGCTAATACAGTCAAACAAGAGTAAA--TAAATTTGA
**
2769219 CTAGGTCCTAATG
128 CTAGGTCCTAACA
* * * *
2769232 CCAATATAGTCAAACGA-A-AGAAAATTTAAGTTTAACTAGGTCCTAACACCAATACAGTCAAAT
1 CCAATACAGTCAAACGAGAGTGAAAA---GAGTTTAACTAGGTCCTAACGCCAATACAGTCAAAT
*
2769295 GAGGATGGAAAGAGTTTGACCAGGTCCTAACG-TCAATACAGTCAAA
63 AAGGATGGAAAGAGTTTGACCAGGTCCTAACGCT-AATACAGTCAAA
2769341 TGATAAAAAA
Statistics
Matches: 208, Mismatches: 34, Indels: 16
0.81 0.13 0.06
Matches are distributed among these distances:
139 3 0.01
140 6 0.03
141 95 0.46
142 33 0.16
143 69 0.33
144 2 0.01
ACGTcount: A:0.41, C:0.17, G:0.20, T:0.22
Consensus pattern (140 bp):
CCAATACAGTCAAACGAGAGTGAAAAGAGTTTAACTAGGTCCTAACGCCAATACAGTCAAATAAG
GATGGAAAGAGTTTGACCAGGTCCTAACGCTAATACAGTCAAACAAGAGTAAATAAATTTGACTA
GGTCCTAACA
Found at i:2769424 original size:35 final size:35
Alignment explanation
Indices: 2769361--2769506 Score: 197
Period size: 35 Copynumber: 4.2 Consensus size: 35
2769351 GGGTTTAACT
*
2769361 AGATATAGTCAAAC-ATAATGGAAAGTGTTTGACC
1 AGATATAGTCAAACGATGATGGAAAGTGTTTGACC
*
2769395 AGATATAGTCAAACGATGATGGAAAGTGTTTAACC
1 AGATATAGTCAAACGATGATGGAAAGTGTTTGACC
* * *
2769430 AGATACAGTCAAATGATGATGGAAAGTGTTTGATC
1 AGATATAGTCAAACGATGATGGAAAGTGTTTGACC
* * *
2769465 AGATACAATCAAACGATGAT-GAGAAGAGTTTGACC
1 AGATATAGTCAAACGATGATGGA-AAGTGTTTGACC
2769500 AGATATA
1 AGATATA
2769507 ATGAAATTAG
Statistics
Matches: 99, Mismatches: 11, Indels: 3
0.88 0.10 0.03
Matches are distributed among these distances:
34 16 0.16
35 83 0.84
ACGTcount: A:0.41, C:0.11, G:0.23, T:0.25
Consensus pattern (35 bp):
AGATATAGTCAAACGATGATGGAAAGTGTTTGACC
Found at i:2771249 original size:58 final size:57
Alignment explanation
Indices: 2771156--2771266 Score: 177
Period size: 58 Copynumber: 1.9 Consensus size: 57
2771146 AGTTATATGA
* *
2771156 CCCTTGTCTCTTTTCATGACATCTTTTCAAATTTCTCAAAAAAGTATTTTGTTTTTTC
1 CCCTTGCCTCTTTTCATAACATCTTTTCAAATTTCTC-AAAAAGTATTTTGTTTTTTC
* *
2771214 CCCTTGCCTCTTTTCCTAACATCTTTTCAAGTTTCTCAAAAAGTATTTTGTTT
1 CCCTTGCCTCTTTTCATAACATCTTTTCAAATTTCTCAAAAAGTATTTTGTTT
2771267 GTTTTTTTTT
Statistics
Matches: 49, Mismatches: 4, Indels: 1
0.91 0.07 0.02
Matches are distributed among these distances:
57 16 0.33
58 33 0.67
ACGTcount: A:0.22, C:0.23, G:0.07, T:0.49
Consensus pattern (57 bp):
CCCTTGCCTCTTTTCATAACATCTTTTCAAATTTCTCAAAAAGTATTTTGTTTTTTC
Found at i:2772180 original size:20 final size:20
Alignment explanation
Indices: 2772157--2772202 Score: 56
Period size: 20 Copynumber: 2.3 Consensus size: 20
2772147 CTATTTGCAC
*
2772157 TTTTTTTTCATTTCATTCTT
1 TTTTTTTTCATTTCACTCTT
* * *
2772177 TTTTGTTTCTTTTCCCTCTT
1 TTTTTTTTCATTTCACTCTT
2772197 TTTTTT
1 TTTTTT
2772203 GTTTTTGTTT
Statistics
Matches: 21, Mismatches: 5, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
20 21 1.00
ACGTcount: A:0.04, C:0.17, G:0.02, T:0.76
Consensus pattern (20 bp):
TTTTTTTTCATTTCACTCTT
Found at i:2773242 original size:7 final size:7
Alignment explanation
Indices: 2773230--2773255 Score: 52
Period size: 7 Copynumber: 3.7 Consensus size: 7
2773220 TCATCAAAAT
2773230 ATTTAAA
1 ATTTAAA
2773237 ATTTAAA
1 ATTTAAA
2773244 ATTTAAA
1 ATTTAAA
2773251 ATTTA
1 ATTTA
2773256 CATATTTCAA
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 19 1.00
ACGTcount: A:0.54, C:0.00, G:0.00, T:0.46
Consensus pattern (7 bp):
ATTTAAA
Found at i:2781165 original size:167 final size:163
Alignment explanation
Indices: 2780900--2781326 Score: 472
Period size: 166 Copynumber: 2.6 Consensus size: 163
2780890 ACAGGTTTAA
* * * *
2780900 AATTTTGAAAATTTATCAAATA-TATTTATTTAATTTATATTAAATTACTTTTC-AAAATT-TTC
1 AATTTTAAAAATTCATCAAATATTA-TTATTTAGTTTATATTAAA-TAATTTTCAAAAATTATTC
** *
2780962 ATTTTCATAAATTTTTCAATTTTTTTCTTGAAATTTCTTTATTTTCGAAATACAAAGTTTTCTAC
64 ATTTTCATAAATTTTTCAA-TTTTTTCTTGAAATTTCCCTATTTTCGAAATACAAAG-TCTCTAC
** *
2781027 TCCATAAATGTTTTTGGCAGGATTTTTCTTAGTTTTT
127 TCCATAAATGTTTTCAGCAGGATTTTTCTTAGCTTTT
2781064 AATTTTAAAAATTCATCAAATATTATTATTTAGTTTATATTAAATAATTTTGCAAAAATTCACTT
1 AATTTTAAAAATTCATCAAATATTATTATTTAGTTTATATTAAATAATTTT-CAAAAATT-A-TT
*
2781129 -ATTTTCATAAATTTTTCAATTCTTTTCTTGAAATTTCCCTATTTTCGAAATGCAAAGTCTCTAC
63 CATTTTCATAAATTTTTCAATT-TTTTCTTGAAATTTCCCTATTTTCGAAATACAAAGTCTCTAC
* ** *
2781193 TTCATAAATGTTTTCAGTGGGATTTTTCTTGGCTTTT
127 TCCATAAATGTTTTCAGCAGGATTTTTCTTAGCTTTT
* * * * * * * *
2781230 GATTTTTAAAACTCATAAAATATTGTCATTT-GATTCATATTAAATCAGTTTT-AAAAATTAATT
1 AATTTTAAAAATTCATCAAATATTATTATTTAG-TTTATATTAAAT-AATTTTCAAAAATT-ATT
* *
2781293 CATTTTCAT-AAGTTTTGAATTTTTTCTTTGAAAT
63 CATTTTCATAAATTTTTCAATTTTTTC-TTGAAAT
2781327 GCCCTTTTTT
Statistics
Matches: 226, Mismatches: 26, Indels: 22
0.82 0.09 0.08
Matches are distributed among these distances:
163 11 0.05
164 58 0.26
165 25 0.11
166 74 0.33
167 56 0.25
168 2 0.01
ACGTcount: A:0.32, C:0.11, G:0.07, T:0.50
Consensus pattern (163 bp):
AATTTTAAAAATTCATCAAATATTATTATTTAGTTTATATTAAATAATTTTCAAAAATTATTCAT
TTTCATAAATTTTTCAATTTTTTCTTGAAATTTCCCTATTTTCGAAATACAAAGTCTCTACTCCA
TAAATGTTTTCAGCAGGATTTTTCTTAGCTTTT
Found at i:2781841 original size:12 final size:13
Alignment explanation
Indices: 2781822--2781854 Score: 57
Period size: 13 Copynumber: 2.5 Consensus size: 13
2781812 ATGGAAAATG
*
2781822 GAAAAAAAATGGT
1 GAAAAAAAAGGGT
2781835 GAAAAAAAAGGGT
1 GAAAAAAAAGGGT
2781848 GAAAAAA
1 GAAAAAA
2781855 CCCATCCAAA
Statistics
Matches: 19, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
13 19 1.00
ACGTcount: A:0.67, C:0.00, G:0.24, T:0.09
Consensus pattern (13 bp):
GAAAAAAAAGGGT
Found at i:2783778 original size:147 final size:147
Alignment explanation
Indices: 2783615--2783975 Score: 475
Period size: 147 Copynumber: 2.5 Consensus size: 147
2783605 ATTTTAAGTT
* *
2783615 TTTTAGGGGTATCGGGTA-TTTT-TGCATCAAAGATATCCCCTAGGGGCATTTTCATAATTTTTC
1 TTTTAGGGGTACCGGGTACTTTTATG--TCAAAGATATCCCTTAGGGGCATTTTCATAATTTTTC
* *
2783678 TTGAATCGAGCCCTAGGTTGTCACTTTTATACCAAAGGTGCACATGTAGGATAGGTTCATCTTTT
64 TTGAATCGAGCCCTAGGTTGTCACTTTTATACCAAAGGTCCACATGTAGGATAGGTT-ATCCTTT
2783743 TTCAA-ACTT-TTTCGAG-CCC
128 TTCAACA-TTCTTT-GAGACCC
* * * ** *
2783762 TTTTAAGGGTACCGGGTACTTTTATGTCAAA-AGTATCCTTTAAGGTTATTTTCGTAATTTTTCT
1 TTTTAGGGGTACCGGGTACTTTTATGTCAAAGA-TATCCCTTAGGGGCATTTTCATAATTTTTCT
* * *
2783826 TGAATCGAGTCTTAGGTTGTCACTTTTATACCAAAGGTCCACATGTATGATAGGTTATCCTTTTT
65 TGAATCGAGCCCTAGGTTGTCACTTTTATACCAAAGGTCCACATGTAGGATAGGTTATCCTTTTT
*
2783891 CTACATTCTTTGAGACCC
130 CAACATTCTTTGAGACCC
* *
2783909 -TTTAGGGGTACCAGGTACTTTTATGTCAAAGATATTCCTTAGGGGCATTTTCATAATTTTTCTT
1 TTTTAGGGGTACCGGGTACTTTTATGTCAAAGATATCCCTTAGGGGCATTTTCATAATTTTTCTT
2783973 GAA
66 GAA
2783976 GTTTGCCCTT
Statistics
Matches: 185, Mismatches: 22, Indels: 15
0.83 0.10 0.07
Matches are distributed among these distances:
146 73 0.39
147 106 0.57
148 4 0.02
149 2 0.01
ACGTcount: A:0.24, C:0.17, G:0.19, T:0.40
Consensus pattern (147 bp):
TTTTAGGGGTACCGGGTACTTTTATGTCAAAGATATCCCTTAGGGGCATTTTCATAATTTTTCTT
GAATCGAGCCCTAGGTTGTCACTTTTATACCAAAGGTCCACATGTAGGATAGGTTATCCTTTTTC
AACATTCTTTGAGACCC
Found at i:2785897 original size:78 final size:79
Alignment explanation
Indices: 2785750--2786065 Score: 379
Period size: 78 Copynumber: 4.0 Consensus size: 79
2785740 TAAATTTCTC
* * * **
2785750 CTTCCAAAAATATTGATTTTTCACCATCGGGAATACTCTAAGCC-ATCATTTTTGAA-GGGATAC
1 CTTCC-AAAATATTGATTTTTCACCATCGGGGATACTCCAACCCTATCA-TTTCCAAGGGGATAC
*
2785813 TTCAACCC-GTTTTTA
64 TCCAACCCTGTTTTTA
* * **
2785828 CTTCCAAAATATTGATTTTTCACTATTGGGGATACTTTAACCCTATCATTTCCAAGGGGATACTC
1 CTTCCAAAATATTGATTTTTCACCATCGGGGATACTCCAACCCTATCATTTCCAAGGGGATACTC
2785893 CAACCCTGTTTTTA
66 CAACCCTGTTTTTA
* * * * * *
2785907 CTTCCAAAATTTTAATTTTTCACCATCAGGGATACTACAACTCTATCATTTCCAAAGGGATACTC
1 CTTCCAAAATATTGATTTTTCACCATCGGGGATACTCCAACCCTATCATTTCCAAGGGGATACTC
*
2785972 CAACACTG-TTTTA
66 CAACCCTGTTTTTA
* * ***
2785985 CTTCCAAAATATCGATTTTTCACCATCGGGGATACTCCAACCCCATCATTTTTTAGGGGATACTC
1 CTTCCAAAATATTGATTTTTCACCATCGGGGATACTCCAACCCTATCATTTCCAAGGGGATACTC
*
2786050 CAACCCTATTTTTA
66 CAACCCTGTTTTTA
2786064 CT
1 CT
2786066 CCTAAAAATA
Statistics
Matches: 203, Mismatches: 31, Indels: 7
0.84 0.13 0.03
Matches are distributed among these distances:
77 38 0.19
78 88 0.43
79 77 0.38
ACGTcount: A:0.28, C:0.24, G:0.11, T:0.36
Consensus pattern (79 bp):
CTTCCAAAATATTGATTTTTCACCATCGGGGATACTCCAACCCTATCATTTCCAAGGGGATACTC
CAACCCTGTTTTTA
Found at i:2791953 original size:31 final size:31
Alignment explanation
Indices: 2791915--2791977 Score: 108
Period size: 31 Copynumber: 2.0 Consensus size: 31
2791905 GATTTATATT
*
2791915 TTTATAAAATTTATGCATTAAGGGGATTATA
1 TTTATAAAATTTATGCATCAAGGGGATTATA
*
2791946 TTTATAAAATTTGTGCATCAAGGGGATTATA
1 TTTATAAAATTTATGCATCAAGGGGATTATA
2791977 T
1 T
2791978 CAAAATCGAA
Statistics
Matches: 30, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
31 30 1.00
ACGTcount: A:0.37, C:0.05, G:0.17, T:0.41
Consensus pattern (31 bp):
TTTATAAAATTTATGCATCAAGGGGATTATA
Found at i:2793450 original size:38 final size:33
Alignment explanation
Indices: 2793399--2793467 Score: 93
Period size: 34 Copynumber: 1.9 Consensus size: 33
2793389 TTGTGAATAG
2793399 TAAAAATACTGTTCACGTATCACTATTCATGTATCGA
1 TAAAAATACTGTT--C--ATCACTATTCATGTATCGA
2793436 TAAAAATCACTGTTCATCACTATTCATGTATC
1 TAAAAAT-ACTGTTCATCACTATTCATGTATC
2793468 CATACATTGT
Statistics
Matches: 31, Mismatches: 0, Indels: 5
0.86 0.00 0.14
Matches are distributed among these distances:
34 17 0.55
36 1 0.03
37 7 0.23
38 6 0.19
ACGTcount: A:0.35, C:0.20, G:0.09, T:0.36
Consensus pattern (33 bp):
TAAAAATACTGTTCATCACTATTCATGTATCGA
Found at i:2793480 original size:13 final size:13
Alignment explanation
Indices: 2793462--2793501 Score: 62
Period size: 13 Copynumber: 3.1 Consensus size: 13
2793452 TCACTATTCA
* *
2793462 TGTATCCATACAT
1 TGTATCGATACAC
2793475 TGTATCGATACAC
1 TGTATCGATACAC
2793488 TGTATCGATACAC
1 TGTATCGATACAC
2793501 T
1 T
2793502 ATAAATAGTA
Statistics
Matches: 25, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
13 25 1.00
ACGTcount: A:0.30, C:0.23, G:0.12, T:0.35
Consensus pattern (13 bp):
TGTATCGATACAC
Found at i:2794033 original size:34 final size:35
Alignment explanation
Indices: 2793970--2794036 Score: 102
Period size: 37 Copynumber: 1.9 Consensus size: 35
2793960 CTAAGTGATT
2793970 GAGAGGTTCTATCTTAGCCTTTGAAAAAGATAGAGA
1 GAGAGGTTCTATCTTAGCCTTTG-AAAAGATAGAGA
2794006 GAGAGGTTTCTATCTTAGCC-TTG-AAAGATAG
1 GAGAGG-TTCTATCTTAGCCTTTGAAAAGATAG
2794037 TGTTGTAAGG
Statistics
Matches: 30, Mismatches: 0, Indels: 4
0.88 0.00 0.12
Matches are distributed among these distances:
34 8 0.27
36 9 0.30
37 13 0.43
ACGTcount: A:0.33, C:0.12, G:0.25, T:0.30
Consensus pattern (35 bp):
GAGAGGTTCTATCTTAGCCTTTGAAAAGATAGAGA
Found at i:2795600 original size:73 final size:73
Alignment explanation
Indices: 2795478--2795660 Score: 260
Period size: 73 Copynumber: 2.5 Consensus size: 73
2795468 CATTGGGCCA
* * *
2795478 TATGTATCGATACAATTCTTGATGTATCGATACAAATTAAACATGTACAGTGGAAGGGTAGTTAC
1 TATGTATCGATATAATTCTAG-TGTATCGATACAAATTAAACATGTACAGTGGAAAGGTAGTTAC
*
2795543 TACCAATTT
65 TACCAATTC
2795552 TATGTATCGATATAATTCATAGTGTAT-GATACAAATTAAACATGTACAGTGGAAAGGTAGTTAC
1 TATGTATCGATATAATTC-TAGTGTATCGATACAAATTAAACATGTACAGTGGAAAGGTAGTTAC
*
2795616 TGCCAATTC
65 TACCAATTC
* * *
2795625 TATGTATCAATATATTTCTTGGTGTATCGATACAAA
1 TATGTATCGATATAATTC-TAGTGTATCGATACAAA
2795661 GCAATTTGTA
Statistics
Matches: 98, Mismatches: 9, Indels: 4
0.88 0.08 0.04
Matches are distributed among these distances:
73 66 0.67
74 30 0.31
75 2 0.02
ACGTcount: A:0.36, C:0.13, G:0.17, T:0.35
Consensus pattern (73 bp):
TATGTATCGATATAATTCTAGTGTATCGATACAAATTAAACATGTACAGTGGAAAGGTAGTTACT
ACCAATTC
Found at i:2795689 original size:33 final size:33
Alignment explanation
Indices: 2795647--2795709 Score: 90
Period size: 33 Copynumber: 1.9 Consensus size: 33
2795637 TATTTCTTGG
*
2795647 TGTATCGATACAAAGCAATTTGTATTGATATAA
1 TGTATCGATACAAAGCAATTTGTATCGATATAA
** *
2795680 TGTATCGATACTTAGCACTTTGTATCGATA
1 TGTATCGATACAAAGCAATTTGTATCGATA
2795710 CATTTAGGTG
Statistics
Matches: 26, Mismatches: 4, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
33 26 1.00
ACGTcount: A:0.33, C:0.13, G:0.16, T:0.38
Consensus pattern (33 bp):
TGTATCGATACAAAGCAATTTGTATCGATATAA
Found at i:2795844 original size:22 final size:22
Alignment explanation
Indices: 2795810--2795852 Score: 70
Period size: 22 Copynumber: 2.0 Consensus size: 22
2795800 TACATTAAGT
2795810 ATTTTTACTTTGAAAAACATTG
1 ATTTTTACTTTGAAAAACATTG
2795832 ATTTATTAC-TTGAAAAACATT
1 ATTT-TTACTTTGAAAAACATT
2795853 TAAAATTGTC
Statistics
Matches: 20, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
22 16 0.80
23 4 0.20
ACGTcount: A:0.40, C:0.09, G:0.07, T:0.44
Consensus pattern (22 bp):
ATTTTTACTTTGAAAAACATTG
Found at i:2802541 original size:21 final size:20
Alignment explanation
Indices: 2802493--2802530 Score: 58
Period size: 20 Copynumber: 1.9 Consensus size: 20
2802483 CCGTTGGGCC
2802493 ACATGTATCGATACAATTCT
1 ACATGTATCGATACAATTCT
**
2802513 TGATGTATCGATACAATT
1 ACATGTATCGATACAATT
2802531 TAAACATGTA
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
20 16 1.00
ACGTcount: A:0.34, C:0.16, G:0.13, T:0.37
Consensus pattern (20 bp):
ACATGTATCGATACAATTCT
Found at i:2803081 original size:39 final size:38
Alignment explanation
Indices: 2803034--2803109 Score: 109
Period size: 39 Copynumber: 2.0 Consensus size: 38
2803024 ATGCTCATAA
*
2803034 TGATCTTTT-AGTGCATATTTGGTTTTATACGAATTTGAC
1 TGATCTTTTGA-TACATATTT-GTTTTATACGAATTTGAC
*
2803073 TGATCTTTTGATACATATTTGTTTTATATGAATTTGA
1 TGATCTTTTGATACATATTTGTTTTATACGAATTTGA
2803110 TGCATATTTA
Statistics
Matches: 34, Mismatches: 2, Indels: 3
0.87 0.05 0.08
Matches are distributed among these distances:
38 16 0.47
39 17 0.50
40 1 0.03
ACGTcount: A:0.25, C:0.08, G:0.16, T:0.51
Consensus pattern (38 bp):
TGATCTTTTGATACATATTTGTTTTATACGAATTTGAC
Found at i:2803106 original size:38 final size:39
Alignment explanation
Indices: 2803034--2803109 Score: 111
Period size: 38 Copynumber: 2.0 Consensus size: 39
2803024 ATGCTCATAA
*
2803034 TGATCTTTTAGTGCATATTTGGTTTTATACGAATTTGAC
1 TGATCTTTTAGTACATATTTGGTTTTATACGAATTTGAC
*
2803073 TGATCTTTT-GATACATATTT-GTTTTATATGAATTTGA
1 TGATCTTTTAG-TACATATTTGGTTTTATACGAATTTGA
2803110 TGCATATTTA
Statistics
Matches: 34, Mismatches: 2, Indels: 3
0.87 0.05 0.08
Matches are distributed among these distances:
38 17 0.50
39 17 0.50
ACGTcount: A:0.25, C:0.08, G:0.16, T:0.51
Consensus pattern (39 bp):
TGATCTTTTAGTACATATTTGGTTTTATACGAATTTGAC
Found at i:2805407 original size:51 final size:51
Alignment explanation
Indices: 2805345--2805461 Score: 148
Period size: 51 Copynumber: 2.3 Consensus size: 51
2805335 TTGAAAATAA
* * *
2805345 CAGGGTTGGAGTAT-CCT-CGAGATGAAAATTTTAATATTTTAAAAATAAAAG
1 CAGGGTTGGAGTATCCCTAAGA-ATGAAAA-ATTAATATTTTAAAAATAAAAC
* *
2805396 CGGGGTTGGAGTATCCCTAAGAATGAAAAATTAATATTTTAGAAATAAAAC
1 CAGGGTTGGAGTATCCCTAAGAATGAAAAATTAATATTTTAAAAATAAAAC
*
2805447 CAAGGTTGGAGTATC
1 CAGGGTTGGAGTATC
2805462 TCCTCCGAAA
Statistics
Matches: 57, Mismatches: 7, Indels: 4
0.84 0.10 0.06
Matches are distributed among these distances:
51 45 0.79
52 10 0.18
53 2 0.04
ACGTcount: A:0.40, C:0.09, G:0.21, T:0.29
Consensus pattern (51 bp):
CAGGGTTGGAGTATCCCTAAGAATGAAAAATTAATATTTTAAAAATAAAAC
Found at i:2805444 original size:130 final size:133
Alignment explanation
Indices: 2805286--2805600 Score: 376
Period size: 130 Copynumber: 2.4 Consensus size: 133
2805276 TACATCCCCC
*
2805286 AATGAAAAAATTAATATTTTGGAGATAAAAACGAGGTTGGAGTATTCCCTTGAAAATAACAGGG-
1 AATG-AAAAATTAATATTTTGGAAATAAAAACGAGGTTGGAGTATTCCCTTG-AAATAAC-GGGA
* * *
2805350 TTGGAGTATCCTCGA-GATGAAAATTTTAATATTTTAAAAATAAAAGCGGGGTTGGAGTAT-CCC
63 TTGGAGTATCCTCGATGATGAAAATTTTAATATTTGAAAAATAAAAACAGGGTTGGAGTATCCCC
*
2805413 TA-AG-
128 AATAGT
* * * *
2805417 AATGAAAAATTAATATTTTAGAAATAAAACCAAGGTTGGAGTA-TCTCCTCCGAAATAACGGGAT
1 AATGAAAAATTAATATTTTGGAAATAAAAACGAGGTTGGAGTATTC-CCT-TGAAATAACGGGAT
* * **
2805481 TGGAGTATCCTCGATGGTGAAAATTTTGATATTTGGGAAATAAAAACAGGGTTGGAGTATCCCCA
64 TGGAGTATCCTCGATGATGAAAATTTTAATATTTGAAAAATAAAAACAGGGTTGGAGTATCCCCA
2805546 ATAGT
129 ATAGT
* *
2805551 AA-AAAAAATTCGATATTTTGGAAATAAAAACG-GAGTTGGAGTATTCCCTT
1 AATGAAAAATT-AATATTTTGGAAATAAAAACGAG-GTTGGAGTATTCCCTT
2805601 TTGATGTTGT
Statistics
Matches: 155, Mismatches: 19, Indels: 18
0.81 0.10 0.09
Matches are distributed among these distances:
129 5 0.03
130 60 0.39
131 43 0.28
132 4 0.03
133 10 0.06
134 31 0.20
135 2 0.01
ACGTcount: A:0.39, C:0.10, G:0.21, T:0.29
Consensus pattern (133 bp):
AATGAAAAATTAATATTTTGGAAATAAAAACGAGGTTGGAGTATTCCCTTGAAATAACGGGATTG
GAGTATCCTCGATGATGAAAATTTTAATATTTGAAAAATAAAAACAGGGTTGGAGTATCCCCAAT
AGT
Found at i:2808674 original size:12 final size:12
Alignment explanation
Indices: 2808657--2808681 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
2808647 TTAACAAATC
2808657 AAATTTATCTTA
1 AAATTTATCTTA
2808669 AAATTTATCTTA
1 AAATTTATCTTA
2808681 A
1 A
2808682 GTTTTGATAT
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 13 1.00
ACGTcount: A:0.44, C:0.08, G:0.00, T:0.48
Consensus pattern (12 bp):
AAATTTATCTTA
Found at i:2810129 original size:20 final size:22
Alignment explanation
Indices: 2810087--2810130 Score: 56
Period size: 23 Copynumber: 2.0 Consensus size: 22
2810077 TTATTAGATT
*
2810087 TTTAAATAATAATAATTAATTAA
1 TTTAAATAAAAATAATT-ATTAA
2810110 TTTAAATAAAAAT-ATT-TTAA
1 TTTAAATAAAAATAATTATTAA
2810130 T
1 T
2810131 AATTTTATTT
Statistics
Matches: 20, Mismatches: 1, Indels: 3
0.83 0.04 0.12
Matches are distributed among these distances:
20 5 0.25
22 3 0.15
23 12 0.60
ACGTcount: A:0.55, C:0.00, G:0.00, T:0.45
Consensus pattern (22 bp):
TTTAAATAAAAATAATTATTAA
Found at i:2814701 original size:2 final size:2
Alignment explanation
Indices: 2814694--2814719 Score: 52
Period size: 2 Copynumber: 13.0 Consensus size: 2
2814684 TTTTGCAACC
2814694 AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT
2814720 TTTTTGAATT
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 24 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:2818085 original size:2 final size:2
Alignment explanation
Indices: 2818078--2818106 Score: 58
Period size: 2 Copynumber: 14.5 Consensus size: 2
2818068 GTACTATCAT
2818078 TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
2818107 GTGTGTGTGT
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 27 1.00
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (2 bp):
TA
Found at i:2818111 original size:2 final size:2
Alignment explanation
Indices: 2818106--2818136 Score: 62
Period size: 2 Copynumber: 15.5 Consensus size: 2
2818096 TATATATATA
2818106 TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG T
1 TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG T
2818137 ATATATATAT
Statistics
Matches: 29, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 29 1.00
ACGTcount: A:0.00, C:0.00, G:0.48, T:0.52
Consensus pattern (2 bp):
TG
Found at i:2820907 original size:3 final size:3
Alignment explanation
Indices: 2820901--2820939 Score: 71
Period size: 3 Copynumber: 13.3 Consensus size: 3
2820891 TTTGATGATT
2820901 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA T-A TAA T
1 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA T
2820940 TAGATTTATC
Statistics
Matches: 35, Mismatches: 0, Indels: 2
0.95 0.00 0.05
Matches are distributed among these distances:
2 2 0.06
3 33 0.94
ACGTcount: A:0.64, C:0.00, G:0.00, T:0.36
Consensus pattern (3 bp):
TAA
Found at i:2820991 original size:36 final size:36
Alignment explanation
Indices: 2820926--2821007 Score: 87
Period size: 36 Copynumber: 2.2 Consensus size: 36
2820916 TAATAATAAT
* *
2820926 AATAATAATATAATTAGATTTATCTTAAAC-CATTAAA
1 AATAAAAAT-TAATTAGAATTATCTTAAACTCATT-AA
* *
2820963 AATTAAAAATTAATTA-AATTATTTTAAACTCGTTAA
1 AA-TAAAAATTAATTAGAATTATCTTAAACTCATTAA
2820999 AATAAAAAT
1 AATAAAAAT
2821008 ATAACTTTTT
Statistics
Matches: 39, Mismatches: 4, Indels: 6
0.80 0.08 0.12
Matches are distributed among these distances:
35 7 0.18
36 15 0.38
37 11 0.28
38 6 0.15
ACGTcount: A:0.54, C:0.06, G:0.02, T:0.38
Consensus pattern (36 bp):
AATAAAAATTAATTAGAATTATCTTAAACTCATTAA
Found at i:2825364 original size:77 final size:77
Alignment explanation
Indices: 2825158--2825839 Score: 595
Period size: 79 Copynumber: 8.7 Consensus size: 77
2825148 AAAAGAGGCA
* * * * *
2825158 GGGTTGGAGTGTCCCTTCGAAAT-ACGGGGTTGGAGTATCCTCGAGATGAAAATTTTAATATTTT
1 GGGTTGGAGTATCCCCTCAAAATAACGGGGTTGGAGTATCC-CGAAATGAAAAATTTAATATTTT
**
2825222 CAAAATAAAAACG
65 GGAAATAAAAACG
** ** **
2825235 GGGTTGGAGTATCCTTTCAAAAATAACATGGTTGGAGTACTCTTGAAA--AAAAATTTAATATTT
1 GGGTTGGAGTATCCCCTC-AAAATAACGGGGTTGGAGTA-TCCCGAAATGAAAAATTTAATATTT
*
2825298 TAGAAATAAAAACG
64 TGGAAATAAAAACG
** * * **
2825312 GGGTTGGAGTATCCCCTCGGAATGATGGGGTTGGAGTATCCCGAAATGAAAAATTTAGCATTTTG
1 GGGTTGGAGTATCCCCTCAAAATAACGGGGTTGGAGTATCCCGAAATGAAAAATTTAATATTTTG
*
2825377 GAAATAAAAGCG
66 GAAATAAAAACG
* * * *
2825389 AGGTTGGAGTATCCCCTCAAAATAACGGGGTTAGAGTATCACC-AAGATCAAAATTTTAATATTT
1 GGGTTGGAGTATCCCCTCAAAATAACGGGGTTGGAGTATC-CCGAA-ATGAAAAATTTAATATTT
***
2825453 TGGAAATAAAAGTA
64 TGGAAATAAAAACG
* * *
2825467 GGGTTAGAGTATCCCCTCGAAAATAACGGGGTTAGAGTATCCCCAAGATGAAAAATTTAATATTT
1 GGGTTGGAGTATCCCCTC-AAAATAACGGGGTTGGAGTATCCCGAA-ATGAAAAATTTAATATTT
***
2825532 TGGAAATAAAAGTA
64 TGGAAATAAAAACG
* * * ** * ** *
2825546 GGGCTAGAGTATCCCCTAAAAAATAACGGATTTGAAGTATCCTCGCGATGGAAAATTTAATATTT
1 GGGTTGGAGTATCCCCT-CAAAATAACGGGGTTGGAGTATCC-CGAAATGAAAAATTTAATATTT
*
2825611 TGGGAATAAAAACG
64 TGGAAATAAAAACG
* ** * * *
2825625 GGGTTGGAGTATCCCTTCAAAAATAACAAGGTTAGAGTATCCCTAAGATGAATAATTTAATATTT
1 GGGTTGGAGTATCCCCTC-AAAATAACGGGGTTGGAGTATCCCGAA-ATGAAAAATTTAATA-TT
* *
2825690 TTGGAAATACAAATG
63 TTGGAAATAAAAACG
* ** * * *
2825705 GGGCTGGAGTATCCTATCAAAAATAACAGGATTGGAGTATCCCCG--A-GAAAAAATTAATATTT
1 GGGTTGGAGTATCCCCTC-AAAATAACGGGGTTGGAGTAT-CCCGAAATGAAAAATTTAATATTT
2825767 TGGAAATAAAAACG
64 TGGAAATAAAAACG
* * * * *
2825781 AGGTTAGAGTATCCCCTCAAAATTGATGGGGTTGGAGTATCCCCTAAGATGAAAAATTT
1 GGGTTGGAGTATCCCCTCAAAA-TAACGGGGTTGGAGTAT-CCCGAA-ATGAAAAATTT
2825840 GATGCTTTTT
Statistics
Matches: 490, Mismatches: 95, Indels: 37
0.79 0.15 0.06
Matches are distributed among these distances:
75 10 0.02
76 59 0.12
77 130 0.27
78 52 0.11
79 177 0.36
80 59 0.12
81 3 0.01
ACGTcount: A:0.37, C:0.13, G:0.22, T:0.28
Consensus pattern (77 bp):
GGGTTGGAGTATCCCCTCAAAATAACGGGGTTGGAGTATCCCGAAATGAAAAATTTAATATTTTG
GAAATAAAAACG
Found at i:2828307 original size:21 final size:20
Alignment explanation
Indices: 2828281--2828333 Score: 61
Period size: 20 Copynumber: 2.6 Consensus size: 20
2828271 AGGGTAGTTC
*
2828281 TGTATCGATACATTTTACGCA
1 TGTATCGATACA-TTCACGCA
* **
2828302 TGTATCAATACATTCACTTA
1 TGTATCGATACATTCACGCA
2828322 TGTATCGATACA
1 TGTATCGATACA
2828334 AATTGTAGAA
Statistics
Matches: 27, Mismatches: 5, Indels: 1
0.82 0.15 0.03
Matches are distributed among these distances:
20 16 0.59
21 11 0.41
ACGTcount: A:0.32, C:0.19, G:0.11, T:0.38
Consensus pattern (20 bp):
TGTATCGATACATTCACGCA
Done.