Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: AWUE01014012.1 Corchorus olitorius cultivar O-4 contig14045, whole genome shotgun sequence
Parameters: 2 7 7 80 10 50 1000
Pmatch=0.80,Pindel=0.10
tuple sizes 0,4,5,7
tuple distances 0, 29, 159, 1000
Length: 13763
ACGTcount: A:0.33, C:0.18, G:0.19, T:0.30
Found at i:921 original size:154 final size:153
Alignment explanation
Indices: 638--1751 Score: 1597
Period size: 154 Copynumber: 7.2 Consensus size: 153
628 CAATCGGGGG
* * * ** *
638 TTGCCAAATCGAAAAAGATTCAAAACGGAACTAATGGGCCCCGAAAGGCCTAAAATAACAAGTGT
1 TTGCCAAATCGAAGACGATTCAAAACGGCACTAATGGGCCTTGATAGGCC-AAAATAACAAGTGT
703 TCCAAATGAGCTAAAAACTTCACAGTGGACTAATCTCACCAAAATGATTATAGTTAGGCCATAAA
65 TCCAAATGAGCTAAAAACTTCACAGTGGACTAATCTCACCAAAATGATTATAGTTAGGCCATAAA
*
768 CAATGGAAAGAAAAACATTGAGGT
130 CAATGGAAAGAAAAGCATTGAGGT
* * *
792 TTACCAAATCGAAGACGATTTAAAACGTCACTAATGGGCCTTGATAGGCACAAAATAACAAGTGT
1 TTGCCAAATCGAAGACGATTCAAAACGGCACTAATGGGCCTTGATAGGC-CAAAATAACAAGTGT
*
857 TCCAAATGAGCTAAAAACTTCACAGTGGACTAATCTCACCGAAATGATTATAGCTT-GGCCATAA
65 TCCAAATGAGCTAAAAACTTCACAGTGGACTAATCTCACCAAAATGATTATAG-TTAGGCCATAA
** *
921 ACAATGGAAAGAAAAGCATCAAGGG
129 ACAATGGAAAGAAAAGCATTGAGGT
** * * *
946 TTGCCAAATCGATTACGATTAAAAACGTCACTAATGGGCCTTGATAGGCCGATAATAACAAGTGT
1 TTGCCAAATCGAAGACGATTCAAAACGGCACTAATGGGCCTTGATAGGCC-AAAATAACAAGTGT
1011 TCCAAATGAGCTAAAAACTTCACAGTGGACTAATCTCACCAAAATGATTATAGTTAGGCCATAAA
65 TCCAAATGAGCTAAAAACTTCACAGTGGACTAATCTCACCAAAATGATTATAGTTAGGCCATAAA
* * *
1076 CAATGGGAAGAAAA-TATTGAGGG
130 CAATGGAAAGAAAAGCATTGAGGT
* *
1099 TTGCCAAATCGAAGACGATTCAAAACGGAACTAATGGGCCTTGATGGGCCCAAAATAACAAGTGT
1 TTGCCAAATCGAAGACGATTCAAAACGGCACTAATGGGCCTTGATAGG-CCAAAATAACAAGTGT
* *
1164 TCTAAATGAGCTAAAAACTTCACAGTGGACTAATCTCACCAAAATGATTATAGTTAGGACATAAA
65 TCCAAATGAGCTAAAAACTTCACAGTGGACTAATCTCACCAAAATGATTATAGTTAGGCCATAAA
*
1229 CAATTGAAAGAAAAGCATTGAGGT
130 CAATGGAAAGAAAAGCATTGAGGT
* * * * *
1253 TTGCCAAATCGAAGACGATTCAAAATGGAACTAATGGG-CTCCGAAAGGCTTAAAATAACAAGTG
1 TTGCCAAATCGAAGACGATTCAAAACGGCACTAATGGGCCT-TGATAGGC-CAAAATAACAAGTG
* * *
1317 TTCCAAATTAGCTAAAAACTTCATAGTCGACTAATCTCACCAAAATGATTATAGTTAGGCCATAA
64 TTCCAAATGAGCTAAAAACTTCACAGTGGACTAATCTCACCAAAATGATTATAGTTAGGCCATAA
*
1382 ACAATGGAAAGAAAAACATTGAGGT
129 ACAATGGAAAGAAAAGCATTGAGGT
* * * * *
1407 TTACCAAATCGAAGACGATTTAAAACGTCACTAATGGGCCTTGATAGGCACAAAATAATAAGTAT
1 TTGCCAAATCGAAGACGATTCAAAACGGCACTAATGGGCCTTGATAGGC-CAAAATAACAAGTGT
* * * *
1472 TCCAAATGATCTAAAAACTTCACAGTTGACTAATCTCACGAAAATGATAATAGTTAGGCCATAAA
65 TCCAAATGAGCTAAAAACTTCACAGTGGACTAATCTCACCAAAATGATTATAGTTAGGCCATAAA
1537 CAATGGAAAGAAAAGCATTGAGGT
130 CAATGGAAAGAAAAGCATTGAGGT
* **
1561 TT-CTCAAATCGAAGACGATTCAAAACGACACTAATGGGCCCCGATAGGCGCAAAATAACAAGTG
1 TTGC-CAAATCGAAGACGATTCAAAACGGCACTAATGGGCCTTGATAGGC-CAAAATAACAAGTG
* *
1625 TTCCAAATGAGCTAAAAACTTCACAATGGACTATTCTCACCAAAATGATTATAGTTAGGCCATAA
64 TTCCAAATGAGCTAAAAACTTCACAGTGGACTAATCTCACCAAAATGATTATAGTTAGGCCATAA
* ** *
1690 ACAATGGAAACAAAAGCATCAAGGG
129 ACAATGGAAAGAAAAGCATTGAGGT
* *
1715 TTGCCAAATCGAATACGATTCAAAACGGAACTTAATG
1 TTGCCAAATCGAAGACGATTCAAAACGGCAC-TAATG
1752 CGCCAAGGAC
Statistics
Matches: 861, Mismatches: 87, Indels: 23
0.89 0.09 0.02
Matches are distributed among these distances:
153 143 0.17
154 707 0.82
155 11 0.01
ACGTcount: A:0.42, C:0.18, G:0.18, T:0.22
Consensus pattern (153 bp):
TTGCCAAATCGAAGACGATTCAAAACGGCACTAATGGGCCTTGATAGGCCAAAATAACAAGTGTT
CCAAATGAGCTAAAAACTTCACAGTGGACTAATCTCACCAAAATGATTATAGTTAGGCCATAAAC
AATGGAAAGAAAAGCATTGAGGT
Found at i:2968 original size:154 final size:152
Alignment explanation
Indices: 2685--4976 Score: 3207
Period size: 154 Copynumber: 14.9 Consensus size: 152
2675 CAATCGGGGG
* * ** * *
2685 TTGCCAAATCGAAAAAGATTCAAAACGGAACTAATGGGCCCCGAAAGGCCTAAAATAACAAGTGT
1 TTGCCAAATCGAAGACGATTCAAAACGTCACTAATGGGCCTC-ATAGGCC-AAAATAACAAGTGT
2750 TCCAAATGAGCTAAAAACTTCACAGTGGACTAATCTCACCAAAATGATTATAGTTAGGCCATAAA
64 TCCAAATGAGCTAAAAACTTCACAGTGGACTAATCTCACCAAAATGATTATAGTTAGGCCATAAA
* * *
2815 CAATGAAAAGAAAAACATTGAGGT
129 CAATGGAAAGAAAAGCATCGAGGT
* * *
2839 TTACCAAATCGAAGACGATTTAAAACGTCACTAATGGACCTTCATAGGCACAAAATAACAAGTGT
1 TTGCCAAATCGAAGACGATTCAAAACGTCACTAATGGGCC-TCATAGGC-CAAAATAACAAGTGT
*
2904 TCCAAATGAGCTAAAAACTTCACAGTGGACTAATCTCACCAAAATGATTATAGGTAGGCCATAAA
64 TCCAAATGAGCTAAAAACTTCACAGTGGACTAATCTCACCAAAATGATTATAGTTAGGCCATAAA
* *
2969 CAATGGAAAGAAAAGCATCAAGGG
129 CAATGGAAAGAAAAGCATCGAGGT
* * * * * *
2993 TTGCCAAATCGATGACGATTCAAAACATCACTAATAGGTCTTGATAGGAACAAAATAACAAGTGT
1 TTGCCAAATCGAAGACGATTCAAAACGTCACTAAT-GGGCCTCATAGG-CCAAAATAACAAGTGT
* * ** ** * *
3058 TCAAAATGAGCTAAAATCTTCACAGTGTTCTAATCTCACTGAAATGACTACAGTTAGGCCATAAA
64 TCCAAATGAGCTAAAAACTTCACAGTGGACTAATCTCACCAAAATGATTATAGTTAGGCCATAAA
* * *
3123 AAATGGAAAGAAAAGCATCGTGGA
129 CAATGGAAAGAAAAGCATCGAGGT
** * * *
3147 TTGCCAAATCGAAGACGATTCAAAACGGAACAAATGGGCCCCGAAAGGCCTAAAATAACAAGTGT
1 TTGCCAAATCGAAGACGATTCAAAACGTCACTAATGGGCCTC-ATAGGCC-AAAATAACAAGTGT
*
3212 GCCAAATGAGCTAAAAACTTCACAGTGGACTAATCTCACCAAAATGATTATAGTTAGGCCATAAA
64 TCCAAATGAGCTAAAAACTTCACAGTGGACTAATCTCACCAAAATGATTATAGTTAGGCCATAAA
* *
3277 CAATGTAAAGAAAAGCATTGAGGT
129 CAATGGAAAGAAAAGCATCGAGGT
*
3301 TT-CTCAAATCGAAGACGATTCAAAACGACACTAATGGGCC-CAGATAGGCCCAAAATAACAAGT
1 TTGC-CAAATCGAAGACGATTCAAAACGTCACTAATGGGCCTC--ATAGG-CCAAAATAACAAGT
* *** *
3364 GTTACAAATGAGCTAAAAACTTCACAAAAGACCAATCTCACCAAAATGATTATAGTTAGGCCATA
62 GTTCCAAATGAGCTAAAAACTTCACAGTGGACTAATCTCACCAAAATGATTATAGTTAGGCCATA
* *
3429 AACAATGGAAAGAAAAACATTGAGGT
127 AACAATGGAAAGAAAAGCATCGAGGT
* * * *
3455 TTACCAAATCGAAGACGATTTAAAGCGTCACTAATGGGCCTTGATAGGCACAAAATAACAAGTGT
1 TTGCCAAATCGAAGACGATTCAAAACGTCACTAATGGGCC-TCATAGGC-CAAAATAACAAGTGT
*
3520 TCCAAATGAGCTAAAAACTTCACAGTGGACTAATCTCACCAAAATGATTATAGGTAGGCCATAAA
64 TCCAAATGAGCTAAAAACTTCACAGTGGACTAATCTCACCAAAATGATTATAGTTAGGCCATAAA
*
3585 CAATGGAAAGAAAAGCATCGAGGG
129 CAATGGAAAGAAAAGCATCGAGGT
* * *
3609 TTGCCAAATCGATGACGATTCAAAACGTCACTAATAGGTCCTTGATAGGCCCAAAATAACAAGTG
1 TTGCCAAATCGAAGACGATTCAAAACGTCACTAAT-GGGCC-TCATAGG-CCAAAATAACAAGTG
3674 TTCCAAATGAGCTAAAAACTTCACAGTGGACTAATCTCACCAAAATGATTATAGTTAGGCCATAA
63 TTCCAAATGAGCTAAAAACTTCACAGTGGACTAATCTCACCAAAATGATTATAGTTAGGCCATAA
*
3739 ACAATGGAAAGAAAAGCATCGAGGG
128 ACAATGGAAAGAAAAGCATCGAGGT
** * *
3764 TTGCCAAATCGAAGACGATTCAAAACGGAACTAATGGGCCCCGAAAGGCCTAAAATAACAAGTGT
1 TTGCCAAATCGAAGACGATTCAAAACGTCACTAATGGGCCTC-ATAGGCC-AAAATAACAAGTGT
3829 TCCAAATGAGCTAAAAACTTCACAGTGGACTAATCTCACCAAAATGATTATAGTTAGGCCATAAA
64 TCCAAATGAGCTAAAAACTTCACAGTGGACTAATCTCACCAAAATGATTATAGTTAGGCCATAAA
* * * *
3894 CAATGGAATGAAAATCATTGAGAT
129 CAATGGAAAGAAAAGCATCGAGGT
* * *
3918 TTCCCAAATCGAAGACGATTCAGAACGACACTAATGGGTCC-CGATAGGCCCAAAATAACAAGTG
1 TTGCCAAATCGAAGACGATTCAAAACGTCACTAATGGG-CCTC-ATAGG-CCAAAATAACAAGTG
** * *
3982 TTCCAAATGAGCTAAAAACTTCACAGTGTTCTAATCTCACCGAAATGATTACAGTTAGGCCATAA
63 TTCCAAATGAGCTAAAAACTTCACAGTGGACTAATCTCACCAAAATGATTATAGTTAGGCCATAA
* *
4047 ACAATGGTAAAGAAAAGCATCAAGGG
128 ACAATGG-AAAGAAAAGCATCGAGGT
** * *
4073 TTGCCAAATCGAAGACGATTCAAAACGGAACTAATGGGCCCCGAAAGGCCTAAAATAACAAGTGT
1 TTGCCAAATCGAAGACGATTCAAAACGTCACTAATGGGCCTC-ATAGGCC-AAAATAACAAGTGT
4138 TCCAAATGAGCTAAAAACTTCACAGTGGACTAATCTCACCAAAATGATTATAGTTAGGCCATAAA
64 TCCAAATGAGCTAAAAACTTCACAGTGGACTAATCTCACCAAAATGATTATAGTTAGGCCATAAA
* *
4203 CAATGGAAAGAAAAACATTGAGGT
129 CAATGGAAAGAAAAGCATCGAGGT
* *
4227 TTACCAAATCGAAGACGATTTAAAACGTCACTAATGGG---CATAGGCACAAAATAACAAGTGTT
1 TTGCCAAATCGAAGACGATTCAAAACGTCACTAATGGGCCTCATAGGC-CAAAATAACAAGTGTT
4289 CCAAATGAGCTAAAAACTTCACAGTGGACTAATCTCACCAAAATGATTATAGTTAGGCCATAAAC
65 CCAAATGAGCTAAAAACTTCACAGTGGACTAATCTCACCAAAATGATTATAGTTAGGCCATAAAC
* *
4354 AATGGAAAGAAAAGCATCGGGGG
130 AATGGAAAGAAAAGCATCGAGGT
* ** * *
4377 TTGCCAAATCGAAGAAGATTCAAAACGGAACTAATGGGCCCCGAAAGGCCTAAAATAACAAGTGT
1 TTGCCAAATCGAAGACGATTCAAAACGTCACTAATGGGCCTC-ATAGGCC-AAAATAACAAGTGT
4442 TCCAAATGAGCTAAAAACTTCACAGTGGACTAATCTCACCAAAATGATTATAGTTAGGCCATAAA
64 TCCAAATGAGCTAAAAACTTCACAGTGGACTAATCTCACCAAAATGATTATAGTTAGGCCATAAA
* *
4507 CAATGGAAAGAAAAACATTGAGGT
129 CAATGGAAAGAAAAGCATCGAGGT
* * * *
4531 TTACCAAATCGAAGACGATTTAAAACGTCACTAATGGGCCTTGATGGGCCCAAAATAACAAGTGT
1 TTGCCAAATCGAAGACGATTCAAAACGTCACTAATGGGCC-TCATAGG-CCAAAATAACAAGTGT
4596 TCCAAATGAGCTAAAAACTTCACAGTGGACTAATCTCACCAAAATGATTATAGTTAGGCCATAAA
64 TCCAAATGAGCTAAAAACTTCACAGTGGACTAATCTCACCAAAATGATTATAGTTAGGCCATAAA
*
4661 CAATGGAAAGAAAAGCATCGAGGG
129 CAATGGAAAGAAAAGCATCGAGGT
** * *
4685 TTGCCAAATCGAAGACGATTCAAAACGGAACTAATGGGCCCCGAAAGGCCTAAAATAACAAGTGT
1 TTGCCAAATCGAAGACGATTCAAAACGTCACTAATGGGCCTC-ATAGGCC-AAAATAACAAGTGT
*
4750 TCCAAATGAGCTAAAAACCTCACAGTGGACTAATCTCACCAAAATGATTATAGTTAGGCCATAAA
64 TCCAAATGAGCTAAAAACTTCACAGTGGACTAATCTCACCAAAATGATTATAGTTAGGCCATAAA
*
4815 CAATGGAAAG-AAAGACATTGAGG-
129 CAATGGAAAGAAAAG-CATCGAGGT
* * *
4838 TTGACCAAATCGAAGGCGATTTAAAACGTCACTAATGGGCCTTGATAGG-CAGAATATAACAAGT
1 TTG-CCAAATCGAAGACGATTCAAAACGTCACTAATGGGCC-TCATAGGCCA-AA-ATAACAAGT
* * *
4902 GTTCCAAATGAGCTAAAAACTGCACAGTGGACTAATCTCACCAAAATGATTATAGGTACGCCATA
62 GTTCCAAATGAGCTAAAAACTTCACAGTGGACTAATCTCACCAAAATGATTATAGTTAGGCCATA
4967 AACAATGGAA
127 AACAATGGAA
4977 TCTTTTTATG
Statistics
Matches: 1917, Mismatches: 184, Indels: 74
0.88 0.08 0.03
Matches are distributed among these distances:
150 137 0.07
151 2 0.00
152 1 0.00
153 23 0.01
154 1459 0.76
155 294 0.15
156 1 0.00
ACGTcount: A:0.42, C:0.19, G:0.19, T:0.21
Consensus pattern (152 bp):
TTGCCAAATCGAAGACGATTCAAAACGTCACTAATGGGCCTCATAGGCCAAAATAACAAGTGTTC
CAAATGAGCTAAAAACTTCACAGTGGACTAATCTCACCAAAATGATTATAGTTAGGCCATAAACA
ATGGAAAGAAAAGCATCGAGGT
Found at i:3240 original size:308 final size:308
Alignment explanation
Indices: 2682--4976 Score: 3532
Period size: 308 Copynumber: 7.5 Consensus size: 308
2672 TATCAATCGG
* * ** ** * *
2682 GGGTTGCCAAATCGAAAAAGATTCAAAACGGAACTAATGGGCCCCGAAAGGCCTAAAATAACAAG
1 GGGTTGCCAAATCGAAGACGATTCAAAACGTCACTAATGGGCCTTGATAGGCCCAAAATAACAAG
2747 TGTTCCAAATGAGCTAAAAACTTCACAGTGGACTAATCTCACCAAAATGATTATAGTTAGGCCAT
66 TGTTCCAAATGAGCTAAAAACTTCACAGTGGACTAATCTCACCAAAATGATTATAGTTAGGCCAT
* * * * * * ** *
2812 AAACAATGAAAAGAAAAACATTGAGGTTTACCAAATCGAAGACGATTTAAAACGTCACTAATGGA
131 AAACAATGGAAAGAAAAGCATCGAGGGTTGCCAAATCGAAGACGATTCAAAACGGAACTAATGGG
* *
2877 CCTTC-ATAGGCAC-AAAATAACAAGTGTTCCAAATGAGCTAAAAACTTCACAGTGGACTAATCT
196 CC-CCGAAAGGC-CTAAAATAACAAGTGTTCCAAATGAGCTAAAAACTTCACAGTGGACTAATCT
* **
2940 CACCAAAATGATTATAGGTAGGCCATAAACAATGGAAAGAAAAGCATCAA
259 CACCAAAATGATTATAGTTAGGCCATAAACAATGGAAAGAAAAGCATTGA
* * * * **
2990 GGGTTGCCAAATCGATGACGATTCAAAACATCACTAATAGGTCTTGATAGGAACAAAATAACAAG
1 GGGTTGCCAAATCGAAGACGATTCAAAACGTCACTAATGGGCCTTGATAGGCCCAAAATAACAAG
* * ** ** * *
3055 TGTTCAAAATGAGCTAAAATCTTCACAGTGTTCTAATCTCACTGAAATGACTACAGTTAGGCCAT
66 TGTTCCAAATGAGCTAAAAACTTCACAGTGGACTAATCTCACCAAAATGATTATAGTTAGGCCAT
* * * *
3120 AAAAAATGGAAAGAAAAGCATCGTGGATTGCCAAATCGAAGACGATTCAAAACGGAACAAATGGG
131 AAACAATGGAAAGAAAAGCATCGAGGGTTGCCAAATCGAAGACGATTCAAAACGGAACTAATGGG
*
3185 CCCCGAAAGGCCTAAAATAACAAGTGTGCCAAATGAGCTAAAAACTTCACAGTGGACTAATCTCA
196 CCCCGAAAGGCCTAAAATAACAAGTGTTCCAAATGAGCTAAAAACTTCACAGTGGACTAATCTCA
*
3250 CCAAAATGATTATAGTTAGGCCATAAACAATGTAAAGAAAAGCATTGA
261 CCAAAATGATTATAGTTAGGCCATAAACAATGGAAAGAAAAGCATTGA
* * **
3298 -GGTTTCTCAAATCGAAGACGATTCAAAACGACACTAATGGGCCCAGATAGGCCCAAAATAACAA
1 GGGTTGC-CAAATCGAAGACGATTCAAAACGTCACTAATGGGCCTTGATAGGCCCAAAATAACAA
* *** *
3362 GTGTTACAAATGAGCTAAAAACTTCACAAAAGACCAATCTCACCAAAATGATTATAGTTAGGCCA
65 GTGTTCCAAATGAGCTAAAAACTTCACAGTGGACTAATCTCACCAAAATGATTATAGTTAGGCCA
* * * * * * **
3427 TAAACAATGGAAAGAAAAACATTGAGGTTTACCAAATCGAAGACGATTTAAAGCGTCACTAATGG
130 TAAACAATGGAAAGAAAAGCATCGAGGGTTGCCAAATCGAAGACGATTCAAAACGGAACTAATGG
** *
3492 GCCTTGATAGGCAC-AAAATAACAAGTGTTCCAAATGAGCTAAAAACTTCACAGTGGACTAATCT
195 GCCCCGAAAGGC-CTAAAATAACAAGTGTTCCAAATGAGCTAAAAACTTCACAGTGGACTAATCT
* *
3556 CACCAAAATGATTATAGGTAGGCCATAAACAATGGAAAGAAAAGCATCGA
259 CACCAAAATGATTATAGTTAGGCCATAAACAATGGAAAGAAAAGCATTGA
* *
3606 GGGTTGCCAAATCGATGACGATTCAAAACGTCACTAATAGGTCCTTGATAGGCCCAAAATAACAA
1 GGGTTGCCAAATCGAAGACGATTCAAAACGTCACTAAT-GGGCCTTGATAGGCCCAAAATAACAA
3671 GTGTTCCAAATGAGCTAAAAACTTCACAGTGGACTAATCTCACCAAAATGATTATAGTTAGGCCA
65 GTGTTCCAAATGAGCTAAAAACTTCACAGTGGACTAATCTCACCAAAATGATTATAGTTAGGCCA
3736 TAAACAATGGAAAGAAAAGCATCGAGGGTTGCCAAATCGAAGACGATTCAAAACGGAACTAATGG
130 TAAACAATGGAAAGAAAAGCATCGAGGGTTGCCAAATCGAAGACGATTCAAAACGGAACTAATGG
3801 GCCCCGAAAGGCCTAAAATAACAAGTGTTCCAAATGAGCTAAAAACTTCACAGTGGACTAATCTC
195 GCCCCGAAAGGCCTAAAATAACAAGTGTTCCAAATGAGCTAAAAACTTCACAGTGGACTAATCTC
* *
3866 ACCAAAATGATTATAGTTAGGCCATAAACAATGGAATGAAAATCATTGA
260 ACCAAAATGATTATAGTTAGGCCATAAACAATGGAAAGAAAAGCATTGA
** * * * *
3915 GATTTCCCAAATCGAAGACGATTCAGAACGACACTAATGGGTCC-CGATAGGCCCAAAATAACAA
1 GGGTTGCCAAATCGAAGACGATTCAAAACGTCACTAATGGG-CCTTGATAGGCCCAAAATAACAA
** * *
3979 GTGTTCCAAATGAGCTAAAAACTTCACAGTGTTCTAATCTCACCGAAATGATTACAGTTAGGCCA
65 GTGTTCCAAATGAGCTAAAAACTTCACAGTGGACTAATCTCACCAAAATGATTATAGTTAGGCCA
*
4044 TAAACAATGGTAAAGAAAAGCATCAAGGGTTGCCAAATCGAAGACGATTCAAAACGGAACTAATG
130 TAAACAATGG-AAAGAAAAGCATCGAGGGTTGCCAAATCGAAGACGATTCAAAACGGAACTAATG
4109 GGCCCCGAAAGGCCTAAAATAACAAGTGTTCCAAATGAGCTAAAAACTTCACAGTGGACTAATCT
194 GGCCCCGAAAGGCCTAAAATAACAAGTGTTCCAAATGAGCTAAAAACTTCACAGTGGACTAATCT
*
4174 CACCAAAATGATTATAGTTAGGCCATAAACAATGGAAAGAAAAACATTGA
259 CACCAAAATGATTATAGTTAGGCCATAAACAATGGAAAGAAAAGCATTGA
* * * *
4224 GGTTTACCAAATCGAAGACGATTTAAAACGTCACTAATGGG-C---ATAGGCACAAAATAACAAG
1 GGGTTGCCAAATCGAAGACGATTCAAAACGTCACTAATGGGCCTTGATAGGCCCAAAATAACAAG
4285 TGTTCCAAATGAGCTAAAAACTTCACAGTGGACTAATCTCACCAAAATGATTATAGTTAGGCCAT
66 TGTTCCAAATGAGCTAAAAACTTCACAGTGGACTAATCTCACCAAAATGATTATAGTTAGGCCAT
* *
4350 AAACAATGGAAAGAAAAGCATCGGGGGTTGCCAAATCGAAGAAGATTCAAAACGGAACTAATGGG
131 AAACAATGGAAAGAAAAGCATCGAGGGTTGCCAAATCGAAGACGATTCAAAACGGAACTAATGGG
4415 CCCCGAAAGGCCTAAAATAACAAGTGTTCCAAATGAGCTAAAAACTTCACAGTGGACTAATCTCA
196 CCCCGAAAGGCCTAAAATAACAAGTGTTCCAAATGAGCTAAAAACTTCACAGTGGACTAATCTCA
*
4480 CCAAAATGATTATAGTTAGGCCATAAACAATGGAAAGAAAAACATTGA
261 CCAAAATGATTATAGTTAGGCCATAAACAATGGAAAGAAAAGCATTGA
* * * *
4528 GGTTTACCAAATCGAAGACGATTTAAAACGTCACTAATGGGCCTTGATGGGCCCAAAATAACAAG
1 GGGTTGCCAAATCGAAGACGATTCAAAACGTCACTAATGGGCCTTGATAGGCCCAAAATAACAAG
4593 TGTTCCAAATGAGCTAAAAACTTCACAGTGGACTAATCTCACCAAAATGATTATAGTTAGGCCAT
66 TGTTCCAAATGAGCTAAAAACTTCACAGTGGACTAATCTCACCAAAATGATTATAGTTAGGCCAT
4658 AAACAATGGAAAGAAAAGCATCGAGGGTTGCCAAATCGAAGACGATTCAAAACGGAACTAATGGG
131 AAACAATGGAAAGAAAAGCATCGAGGGTTGCCAAATCGAAGACGATTCAAAACGGAACTAATGGG
*
4723 CCCCGAAAGGCCTAAAATAACAAGTGTTCCAAATGAGCTAAAAACCTCACAGTGGACTAATCTCA
196 CCCCGAAAGGCCTAAAATAACAAGTGTTCCAAATGAGCTAAAAACTTCACAGTGGACTAATCTCA
4788 CCAAAATGATTATAGTTAGGCCATAAACAATGGAAAG-AAAGACATTGA
261 CCAAAATGATTATAGTTAGGCCATAAACAATGGAAAGAAAAG-CATTGA
* * ** *
4836 -GGTTGACCAAATCGAAGGCGATTTAAAACGTCACTAATGGGCCTTGATAGGCAGAATATAACAA
1 GGGTTG-CCAAATCGAAGACGATTCAAAACGTCACTAATGGGCCTTGATAGGCCCAAAATAACAA
* * *
4900 GTGTTCCAAATGAGCTAAAAACTGCACAGTGGACTAATCTCACCAAAATGATTATAGGTACGCCA
65 GTGTTCCAAATGAGCTAAAAACTTCACAGTGGACTAATCTCACCAAAATGATTATAGTTAGGCCA
4965 TAAACAATGGAA
130 TAAACAATGGAA
4977 TCTTTTTATG
Statistics
Matches: 1820, Mismatches: 152, Indels: 30
0.91 0.08 0.01
Matches are distributed among these distances:
304 207 0.11
305 89 0.05
307 14 0.01
308 1023 0.56
309 487 0.27
ACGTcount: A:0.42, C:0.19, G:0.19, T:0.21
Consensus pattern (308 bp):
GGGTTGCCAAATCGAAGACGATTCAAAACGTCACTAATGGGCCTTGATAGGCCCAAAATAACAAG
TGTTCCAAATGAGCTAAAAACTTCACAGTGGACTAATCTCACCAAAATGATTATAGTTAGGCCAT
AAACAATGGAAAGAAAAGCATCGAGGGTTGCCAAATCGAAGACGATTCAAAACGGAACTAATGGG
CCCCGAAAGGCCTAAAATAACAAGTGTTCCAAATGAGCTAAAAACTTCACAGTGGACTAATCTCA
CCAAAATGATTATAGTTAGGCCATAAACAATGGAAAGAAAAGCATTGA
Found at i:12662 original size:12 final size:12
Alignment explanation
Indices: 12645--12670 Score: 52
Period size: 12 Copynumber: 2.2 Consensus size: 12
12635 AGATAATTTC
12645 TTTTCTTCTAGT
1 TTTTCTTCTAGT
12657 TTTTCTTCTAGT
1 TTTTCTTCTAGT
12669 TT
1 TT
12671 AGGCAAGGGT
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:0.08, C:0.15, G:0.08, T:0.69
Consensus pattern (12 bp):
TTTTCTTCTAGT
Done.